Gene detail

Detailed information of evm.model.Ap6.2259 in Astrangia poculata

Genomic Location: Ap6:22084607...22088227
NR annotation: XP_015761271.1, PREDICTED: uncharacterized protein LOC107340436 [Acropora digitifera]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap6.2259

atggagaagtttattcagatgggagaaaagtttggactcgaaggggaaaagctgctgaaattcgtaaaagagcaagaggagaaagaggaaagacttcagagagaaaaagaagagaaagaggagagacttcgaacacaacaagaggagaaagaagagagacgtcgacaacaagccgaagagagagacgagaaacgtcggcaagaagaagatgaaagagaagcaaggcgccaggaacgcgatctccgaaaaatggaaagggaagcggaacttttgagacagagagaagcgatcgaagccgcgaagagacagcatgagttagatctagcacgtttggcgggagctggacatttccccgcacaaccgaacaataacaaagaggaacgagccaagacacctaaactaccgtcatttgtggatggaaaggatgacctcgatgcctatctccaacgttttgaacggtttgctacgaacgccaaatgggagaagaatggttgggctacaaagcttagtgctctgttgacaggacgcgcactggatgtttattcacggttgtcagaggaggccgctacggattacgataaaatgaaactggcactgatgaagaggtatgatttaactgaggacggctaccgtcgtaaatttagagtatctaagcctgagattgatgaaagtcctgatcagtttattgtgcgcttgagtacatatctaatgcggtgggtcgaactctctaagaccactaagagttttgatggcctaagagatttgatagtcaaggagcaattcatcaattcatgtccgaaggaactagccattcacttacgtgaaagggctccagagacactggaacagatatcccagattgctgatcagtacttacaagctcatggaaagcacgtgtttagtagtggacgaagtagaccaccagccccaccccaaaaggatgatgacgcaaagaaaccgcccattcagcctagccaggtacagtgctacaagtgcaatggtcgagggcataaagctgccaactgtcaagccgtatcaaggtcgtgtttcttgtgtggaaggcaaggacatgaagcgagaaattgtcaagtgtctctcaaagtgaatttgccgaaggctggtggatcgagtaagcctcgtgtacctgtagcaccgcgtgaccaagtgagtgctggctgtctagttcagccaccccagctaaacgctacgccagaggaagtcaagtcttgtattgaagaggatcagctccttttagcctgtggaaaaaggattccgttgcttagcaatgcgtgcgtggagccgttgactggagctagaagcaagatgcctgttgtaaagggtagagtgggtgaaaagacagtggatgttctgagagacactggttgcagtggtattgtagtaaagaaggagttagtttcagaggagcagtacactggtgacttcaattgtatgctgcttatagacaatactgtgagaaaagtacctattgcaaagatcactgtggacaccccttacctgtcaggagaagttgaagcacagtgccttcccaatgcgatctatgaccttatcgttggtaatgtgcctggtgcaagagccgcagatgacccagaccccagctggcaggaagcgtgtgccgtgaccactagaggtcaagctaagaaagccggagaacataccccattgaaggtaccaagtttatcagagagtcccatagtagatagagagaagcttatgcagttgcagcgtgaggatgcgagtctgaagaagtactgggaccgcaaagacactcgagtgaagggccaagctgagatctcatttgagcgaaagagcggagtcctgtatcgagtttacaagcacccgtacgtaaatagtggaaagcccgtgagacaagttctggttccaaccccgttgagacgccaaatcatggatgtagctcacgggtcaataatgggtggacacatgggcataaagaagacagctgacaaaattcaggctgcgttctactggcctggtatccaaggagatgtcacgcgacattgtaaatcctgtgatgtatgtcagaagaccgtaccaaagggatcagtccccaaagtcccgttggagaagatgccgataattgacaagccgtttaagagagtagcaatcgacctgattggtccgataggcccgccaagcgaggaaggtcacagatacatactgacgctcgtggattatgcaactcgatacccagaagctgtcccgttgaagaacattgatacagaaaccgttgcagaagccctagtagacatcttcagccgccttggagtaccggaagagatccttagcgatctgggaacacagtttgtctctgaatgtatgaaggaggtaatgcgtctcttgagcatcaagcagctgacgacaactccgtaccaccccatgtgtaatggtatgaccgaaaagtttaatggatcactgaagttaatgctgaaaagattgtgcagtgagcagccaaagcagtggcatcgctacatcaacccgctgctgtttgcctaccgtgaagttccccaggagtctacaggatttgcaccgtttgagctattgtatgggagagctgtcagaggacccatgtacattctgaaggaactgtggacgaaagaagtagaagaaccagaagtaaagaacagttaccagtatgtcttcgagctgcgcgagaagctagaagatactctcaaccttgcccacagtgagttgcagaaatcccagcagaaagggaagcactactatgaccgcaaaacgaaggtccgcaagctccagccaggggacaaggtacttgtattactgccaactgaccacaacaagttgctaatgcagtggaaaggcccttttgaagtcagcgctgttgtaggccttaacgattacaaggtcaaagtcaagggcaaagagagagtttaccatgtcaacctcctcaagaagtattttgagcgagaggagccagcagaagtgtcagcggtggcaattgaggctgagactgaggagacagaagttgaagccgacttcctggagattggaggatatgtaccgaaggagtctatccgtgacgtgactacaggacccaatcttagagatgaccaaagagatgagtttatggacttggcacaccagttctcaagtctattcaccgaagcgcctggtaccacgaacttggttcagcaccacgtcaagcttacgtcagaggagccagtcagatctaagccgtatcctgttccgtacagcctcagagaatctcttaaggaggatattaacgatatgattaagatgggcgtggtcagagaatctaattcgccgtattcgtcacccgttgttgttgtgaagaaaaaggatgggacgaacagggtatgcgttgattacagaaagttaaacaagctaactgtatttgatcctgaaccaatgccaactgcagaggagcttttccagaaattaaacggtgacaagtacttttcgaagattgaccttagcaaaggatactggcagataaccataccggaggaagatatcccgaagacagcctttgtaacgcccgatgggttgtatgagttcttgaaaatgccatttgggatggttaattccgcagcaaacccttaa

Transcript

evm.model.Ap6.2259

ATGGAGAAGTTTATTCAGATGGGAGAAAAGTTTGGACTCGAAGGGGAAAAGCTGCTGAAATTCGTAAAAGAGCAAGAGGAGAAAGAGGAAAGACTTCAGAGAGAAAAAGAAGAGAAAGAGGAGAGACTTCGAACACAACAAGAGGAGAAAGAAGAGAGACGTCGACAACAAGCCGAAGAGAGAGACGAGAAACGTCGGCAAGAAGAAGATGAAAGAGAAGCAAGGCGCCAGGAACGCGATCTCCGAAAAATGGAAAGGGAAGCGGAACTTTTGAGACAGAGAGAAGCGATCGAAGCCGCGAAGAGACAGCATGAGTTAGATCTAGCACGTTTGGCGGGAGCTGGACATTTCCCCGCACAACCGAACAATAACAAAGAGGAACGAGCCAAGACACCTAAACTACCGTCATTTGTGGATGGAAAGGATGACCTCGATGCCTATCTCCAACGTTTTGAACGGTTTGCTACGAACGCCAAATGGGAGAAGAATGGTTGGGCTACAAAGCTTAGTGCTCTGTTGACAGGACGCGCACTGGATGTTTATTCACGGTTGTCAGAGGAGGCCGCTACGGATTACGATAAAATGAAACTGGCACTGATGAAGAGGTATGATTTAACTGAGGACGGCTACCGTCGTAAATTTAGAGTATCTAAGCCTGAGATTGATGAAAGTCCTGATCAGTTTATTGTGCGCTTGAGTACATATCTAATGCGGTGGGTCGAACTCTCTAAGACCACTAAGAGTTTTGATGGCCTAAGAGATTTGATAGTCAAGGAGCAATTCATCAATTCATGTCCGAAGGAACTAGCCATTCACTTACGTGAAAGGGCTCCAGAGACACTGGAACAGATATCCCAGATTGCTGATCAGTACTTACAAGCTCATGGAAAGCACGTGTTTAGTAGTGGACGAAGTAGACCACCAGCCCCACCCCAAAAGGATGATGACGCAAAGAAACCGCCCATTCAGCCTAGCCAGGTACAGTGCTACAAGTGCAATGGTCGAGGGCATAAAGCTGCCAACTGTCAAGCCGTATCAAGGTCGTGTTTCTTGTGTGGAAGGCAAGGACATGAAGCGAGAAATTGTCAAGTGTCTCTCAAAGTGAATTTGCCGAAGGCTGGTGGATCGAGTAAGCCTCGTGTACCTGTAGCACCGCGTGACCAAGTGAGTGCTGGCTGTCTAGTTCAGCCACCCCAGCTAAACGCTACGCCAGAGGAAGTCAAGTCTTGTATTGAAGAGGATCAGCTCCTTTTAGCCTGTGGAAAAAGGATTCCGTTGCTTAGCAATGCGTGCGTGGAGCCGTTGACTGGAGCTAGAAGCAAGATGCCTGTTGTAAAGGGTAGAGTGGGTGAAAAGACAGTGGATGTTCTGAGAGACACTGGTTGCAGTGGTATTGTAGTAAAGAAGGAGTTAGTTTCAGAGGAGCAGTACACTGGTGACTTCAATTGTATGCTGCTTATAGACAATACTGTGAGAAAAGTACCTATTGCAAAGATCACTGTGGACACCCCTTACCTGTCAGGAGAAGTTGAAGCACAGTGCCTTCCCAATGCGATCTATGACCTTATCGTTGGTAATGTGCCTGGTGCAAGAGCCGCAGATGACCCAGACCCCAGCTGGCAGGAAGCGTGTGCCGTGACCACTAGAGGTCAAGCTAAGAAAGCCGGAGAACATACCCCATTGAAGGTACCAAGTTTATCAGAGAGTCCCATAGTAGATAGAGAGAAGCTTATGCAGTTGCAGCGTGAGGATGCGAGTCTGAAGAAGTACTGGGACCGCAAAGACACTCGAGTGAAGGGCCAAGCTGAGATCTCATTTGAGCGAAAGAGCGGAGTCCTGTATCGAGTTTACAAGCACCCGTACGTAAATAGTGGAAAGCCCGTGAGACAAGTTCTGGTTCCAACCCCGTTGAGACGCCAAATCATGGATGTAGCTCACGGGTCAATAATGGGTGGACACATGGGCATAAAGAAGACAGCTGACAAAATTCAGGCTGCGTTCTACTGGCCTGGTATCCAAGGAGATGTCACGCGACATTGTAAATCCTGTGATGTATGTCAGAAGACCGTACCAAAGGGATCAGTCCCCAAAGTCCCGTTGGAGAAGATGCCGATAATTGACAAGCCGTTTAAGAGAGTAGCAATCGACCTGATTGGTCCGATAGGCCCGCCAAGCGAGGAAGGTCACAGATACATACTGACGCTCGTGGATTATGCAACTCGATACCCAGAAGCTGTCCCGTTGAAGAACATTGATACAGAAACCGTTGCAGAAGCCCTAGTAGACATCTTCAGCCGCCTTGGAGTACCGGAAGAGATCCTTAGCGATCTGGGAACACAGTTTGTCTCTGAATGTATGAAGGAGGTAATGCGTCTCTTGAGCATCAAGCAGCTGACGACAACTCCGTACCACCCCATGTGTAATGGTATGACCGAAAAGTTTAATGGATCACTGAAGTTAATGCTGAAAAGATTGTGCAGTGAGCAGCCAAAGCAGTGGCATCGCTACATCAACCCGCTGCTGTTTGCCTACCGTGAAGTTCCCCAGGAGTCTACAGGATTTGCACCGTTTGAGCTATTGTATGGGAGAGCTGTCAGAGGACCCATGTACATTCTGAAGGAACTGTGGACGAAAGAAGTAGAAGAACCAGAAGTAAAGAACAGTTACCAGTATGTCTTCGAGCTGCGCGAGAAGCTAGAAGATACTCTCAACCTTGCCCACAGTGAGTTGCAGAAATCCCAGCAGAAAGGGAAGCACTACTATGACCGCAAAACGAAGGTCCGCAAGCTCCAGCCAGGGGACAAGGTACTTGTATTACTGCCAACTGACCACAACAAGTTGCTAATGCAGTGGAAAGGCCCTTTTGAAGTCAGCGCTGTTGTAGGCCTTAACGATTACAAGGTCAAAGTCAAGGGCAAAGAGAGAGTTTACCATGTCAACCTCCTCAAGAAGTATTTTGAGCGAGAGGAGCCAGCAGAAGTGTCAGCGGTGGCAATTGAGGCTGAGACTGAGGAGACAGAAGTTGAAGCCGACTTCCTGGAGATTGGAGGATATGTACCGAAGGAGTCTATCCGTGACGTGACTACAGGACCCAATCTTAGAGATGACCAAAGAGATGAGTTTATGGACTTGGCACACCAGTTCTCAAGTCTATTCACCGAAGCGCCTGGTACCACGAACTTGGTTCAGCACCACGTCAAGCTTACGTCAGAGGAGCCAGTCAGATCTAAGCCGTATCCTGTTCCGTACAGCCTCAGAGAATCTCTTAAGGAGGATATTAACGATATGATTAAGATGGGCGTGGTCAGAGAATCTAATTCGCCGTATTCGTCACCCGTTGTTGTTGTGAAGAAAAAGGATGGGACGAACAGGGTATGCGTTGATTACAGAAAGTTAAACAAGCTAACTGTATTTGATCCTGAACCAATGCCAACTGCAGAGGAGCTTTTCCAGAAATTAAACGGTGACAAGTACTTTTCGAAGATTGACCTTAGCAAAGGATACTGGCAGATAACCATACCGGAGGAAGATATCCCGAAGACAGCCTTTGTAACGCCCGATGGGTTGTATGAGTTCTTGAAAATGCCATTTGGGATGGTTAATTCCGCAGCAAACCCTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8I7P9	Retrovirus-related Pol polyprotein from transposon opus OS=Drosophila melanogaster OX=7227 GN=pol PE=4 SV=1
Q7LHG5	Transposon Ty3-I Gag-Pol polyprotein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=TY3B-I PE=1 SV=2
Q99315	Transposon Ty3-G Gag-Pol polyprotein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=TY3B-G PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000010 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00665 all species →	rve	Integrase core domain	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF17921 all species →	Integrase_H2C2	Integrase zinc binding domain	Domain	Interproscan
PF02023 all species →	SCAN	SCAN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001878 all species →	Domain	Zinc finger, CCHC-type	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR036875 all species →	Homologous_superfamily	Zinc finger, CCHC-type superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR041588 all species →	Domain	Integrase zinc-binding domain	Interproscan
IPR038269 all species →	Homologous_superfamily	SCAN domain superfamily	Interproscan
IPR003309 all species →	Domain	SCAN domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46888 all species →	ZINC KNUCKLE DOMAINCONTAINING PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

No KEGG orthology assignment for evm.model.Ap6.2259.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of evm.model.Ap6.2259 across 49 RNA-seq samples of Astrangia poculata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

49Samples

6TPM > 0

4Conditions

39.3Max TPM

3.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organism · cold control	14	2	5.04	39.25
whole organism · heat control	12	0	0.00	0.00
whole organism · cold challenge	12	2	4.46	27.90
whole organism · heat challenge	11	2	4.39	26.69

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR10674736	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	39.25
SRR10674750	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	31.24
SRR10674714	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674715	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674724	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674733	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674734	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674735	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674737	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674739	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674743	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674746	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674747	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674748	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674706	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674707	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674708	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674717	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674718	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674720	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674721	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674725	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674731	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674741	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674752	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674753	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674723	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	27.90
SRR10674745	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	25.61
SRR10674711	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674712	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674713	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674722	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674730	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674732	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674738	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674740	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674744	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674749	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674742	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	26.69
SRR10674727	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	21.63
SRR10674709	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674710	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674716	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674719	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674726	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674728	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674729	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674751	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674754	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00

Source: CnidoSite RNA-seq expression matrices (APOCU_TPM, StringTie quantification over 49 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.