Gene detail

Detailed information of evm.model.Ap4.5357.1.5f15e1f0 in Astrangia poculata

Genomic Location: Ap4:38315217...38342594
NR annotation: XP_022794768.1, FACT complex subunit SPT16-like isoform X1 [Stylophora pistillata]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap4.5357.1.5f15e1f0

atggccgcctcaaaaatctccctcgacaaagacgccttttttcgacgaatcaaaaggttttacgacgcctggaagaaagaggaaacggctgaaggaaatggggcagcttttccaagtgttgatgctgttgtgattgcagtggggcaagatgaagatgtcatttacagcaaatcgacagcaatccagcaatggctgtttggctatgaactggcagacactgttacagtgctaagtgaatcgtcagttcacttccttgcaagtaaaaagaaaattgattttctgaaaccactgcaagaaatgcaaaagaaaggcaacatttctccttcaatacaactacacttgagagacaagactgaccaagacaaggagaatttccaaaaacttgttagtgctatgaaggaaagtaaatctggaaaaacagtgggtgtttttgtgaaagataatttccaaggacaatttgtggatgagtggaaaaatgcatttgaaaaggagtcatttgagaaggttgacattagcagtgctgtagcatacattatgtcagtaagagaggacaatgaacttacccatgtcaagaaagcttcacaagtttcttcagatatttttgtcaaatacttcaagaagcaaatcatggaaattgtggacgatgagaagcgagtcaagcattctaaaattgctgatggaatagagggagctttggagtccaagaaatttctacaagctggcatggatgccgaccaagtcgaaatgtgttattctcctataatacaaagtggtggaaaattcacacttaagtttagcgccgtcagcaatgaagacaagctccactatggtacgataatctgttcacttggtgttcggtataagtactactgttccaacattgtcagaacaatgttgtatgagccgtcacaggagcaacaagacaactatgactttctgctggaaacattggatgttattttggacaagctaagacatggtgtaaagctttgcgatgtttacaatgctgcccttgaccatgtcacaaaaaagaaacctgattttcaggctaattttgtgaaaaatgttgggtttggaatgggaattgaatttagggaaggctctttacttataacttcgaaaaacaatcatgttgcaaaaaaaggaatggttttcaacataaatgcagggttctcaggcttggttaatgagagttctgaggacagcgagagcaagaactatgcactgtttgttggagacacagtgttagtcaatgaggatgctccagccacattactcactgtcgccaagaaaaagatcacaaacattggtatctttctcaaggatgaagaagacgaaggagaagatcaacaagagaatggagaggctgaagaggaccttctattgggtcgagaggggaaaggagcattacttgaaagcagaacaagatattctgcagagctgagaacttcaggaatcactactgaaatgacagcagaggaaagaaggaaaaaacatcaactggaactaaaagaacagttgcatgaagaggcaaagagacgtcttctggagtcaaaaggtgatacagatgcagttgctaaagtgaagccatccaatgtagcctacaaacatccttccctagttcccagggaaaatgatgtcagagagctcaaagtatttgttgacaagaaatacgaggctgttgttttgccgctgtttggagtggctacaccatttcacatatccaccatcaagaacatcagttccagtgatgaagggggatatacctacctcagaattaatctgttttgcccaggaagtgctgtaggccgttctgaaggaagcctgtttgcacaacctgaggctacgtttgtaaaagaagtcaattaccgaagttcaaacacaaaacagcacggagcacatcagccgccagcctacaacctgaccacagcatttcgtctgataaaagaagtacaaaagaaattcaaaacaagagaagctgaggagaaagagagacagggcgtggtacaacaaggtaaccttattttaaacccaaacaaaggaaatcctaaactgaaagatttgtacatcagaccaagcatcacaaatagaaaatcgccgggtacattagaagcgcacacaaatggttttaggtttggaatgtatcgaggagaacatgttgacatcttgtacgggaatgtaaagcatgcattctttcagccgtgtgatggagaaatgatcattctgcttcactttcacttaaagcatcctataatcattggcaaaaagaaatacagagacatacaattctacacagaagttggcgaaatcacgacagacttgggaaaacaccaacacatgcatgacagggacgatcttcaagcagaacaggccgaaagagagttaaggcagaggttaaaggcagtcttcaagaatttcatcgacaaagtagagggaataacacacggccaagtggagtttgatgttccctttagagacctcgggttctcgggtgtaccatcacggagtacagtattactacaaccaacaacgcattgtttagttaacatcaccgaacagccgacgtttatcatcactttggatgaagtagaactcgttcactttgaacgtgtgcagtttcatctcaagaatttcgacatggtgtttgtgttcaaagactacaaacgcaaagtggaacacgtgaatgccatacccatgacgtcacttgattccgttaaggactggttaaattcatgtgacattaaatacactgaaggcatccagagcttgaactgggccaagattatgaagacgattaacgaggatcctgaagcgttcattgagaatggtggatggagtttcttggatccagacagcagcggtgacgaggacggaggcagcgaggatgaagcagaaagcgattacgcaccaacaggctcagaggaagaagaagaatcttctcaagaggaatactcttcagagacagagacaagcgaggaggggtcagatttggatgaggagatgggaagcgaagaagaaagtggaaaagactggtccgagcttgaagaggaggctgcaagagctgaccgcgataaaggacacgaccaaccagaacaaacaaagaagagaaagaaatcgagcagcaaacacgaatctccgcgcaagaaaaaacgcaggagttaa

Transcript

evm.model.Ap4.5357.1.5f15e1f0

ATGGCCGCCTCAAAAATCTCCCTCGACAAAGACGCCTTTTTTCGACGAATCAAAAGGTTTTACGACGCCTGGAAGAAAGAGGAAACGGCTGAAGGAAATGGGGCAGCTTTTCCAAGTGTTGATGCTGTTGTGATTGCAGTGGGGCAAGATGAAGATGTCATTTACAGCAAATCGACAGCAATCCAGCAATGGCTGTTTGGCTATGAACTGGCAGACACTGTTACAGTGCTAAGTGAATCGTCAGTTCACTTCCTTGCAAGTAAAAAGAAAATTGATTTTCTGAAACCACTGCAAGAAATGCAAAAGAAAGGCAACATTTCTCCTTCAATACAACTACACTTGAGAGACAAGACTGACCAAGACAAGGAGAATTTCCAAAAACTTGTTAGTGCTATGAAGGAAAGTAAATCTGGAAAAACAGTGGGTGTTTTTGTGAAAGATAATTTCCAAGGACAATTTGTGGATGAGTGGAAAAATGCATTTGAAAAGGAGTCATTTGAGAAGGTTGACATTAGCAGTGCTGTAGCATACATTATGTCAGTAAGAGAGGACAATGAACTTACCCATGTCAAGAAAGCTTCACAAGTTTCTTCAGATATTTTTGTCAAATACTTCAAGAAGCAAATCATGGAAATTGTGGACGATGAGAAGCGAGTCAAGCATTCTAAAATTGCTGATGGAATAGAGGGAGCTTTGGAGTCCAAGAAATTTCTACAAGCTGGCATGGATGCCGACCAAGTCGAAATGTGTTATTCTCCTATAATACAAAGTGGTGGAAAATTCACACTTAAGTTTAGCGCCGTCAGCAATGAAGACAAGCTCCACTATGGTACGATAATCTGTTCACTTGGTGTTCGGTATAAGTACTACTGTTCCAACATTGTCAGAACAATGTTGTATGAGCCGTCACAGGAGCAACAAGACAACTATGACTTTCTGCTGGAAACATTGGATGTTATTTTGGACAAGCTAAGACATGGTGTAAAGCTTTGCGATGTTTACAATGCTGCCCTTGACCATGTCACAAAAAAGAAACCTGATTTTCAGGCTAATTTTGTGAAAAATGTTGGGTTTGGAATGGGAATTGAATTTAGGGAAGGCTCTTTACTTATAACTTCGAAAAACAATCATGTTGCAAAAAAAGGAATGGTTTTCAACATAAATGCAGGGTTCTCAGGCTTGGTTAATGAGAGTTCTGAGGACAGCGAGAGCAAGAACTATGCACTGTTTGTTGGAGACACAGTGTTAGTCAATGAGGATGCTCCAGCCACATTACTCACTGTCGCCAAGAAAAAGATCACAAACATTGGTATCTTTCTCAAGGATGAAGAAGACGAAGGAGAAGATCAACAAGAGAATGGAGAGGCTGAAGAGGACCTTCTATTGGGTCGAGAGGGGAAAGGAGCATTACTTGAAAGCAGAACAAGATATTCTGCAGAGCTGAGAACTTCAGGAATCACTACTGAAATGACAGCAGAGGAAAGAAGGAAAAAACATCAACTGGAACTAAAAGAACAGTTGCATGAAGAGGCAAAGAGACGTCTTCTGGAGTCAAAAGGTGATACAGATGCAGTTGCTAAAGTGAAGCCATCCAATGTAGCCTACAAACATCCTTCCCTAGTTCCCAGGGAAAATGATGTCAGAGAGCTCAAAGTATTTGTTGACAAGAAATACGAGGCTGTTGTTTTGCCGCTGTTTGGAGTGGCTACACCATTTCACATATCCACCATCAAGAACATCAGTTCCAGTGATGAAGGGGGATATACCTACCTCAGAATTAATCTGTTTTGCCCAGGAAGTGCTGTAGGCCGTTCTGAAGGAAGCCTGTTTGCACAACCTGAGGCTACGTTTGTAAAAGAAGTCAATTACCGAAGTTCAAACACAAAACAGCACGGAGCACATCAGCCGCCAGCCTACAACCTGACCACAGCATTTCGTCTGATAAAAGAAGTACAAAAGAAATTCAAAACAAGAGAAGCTGAGGAGAAAGAGAGACAGGGCGTGGTACAACAAGGTAACCTTATTTTAAACCCAAACAAAGGAAATCCTAAACTGAAAGATTTGTACATCAGACCAAGCATCACAAATAGAAAATCGCCGGGTACATTAGAAGCGCACACAAATGGTTTTAGGTTTGGAATGTATCGAGGAGAACATGTTGACATCTTGTACGGGAATGTAAAGCATGCATTCTTTCAGCCGTGTGATGGAGAAATGATCATTCTGCTTCACTTTCACTTAAAGCATCCTATAATCATTGGCAAAAAGAAATACAGAGACATACAATTCTACACAGAAGTTGGCGAAATCACGACAGACTTGGGAAAACACCAACACATGCATGACAGGGACGATCTTCAAGCAGAACAGGCCGAAAGAGAGTTAAGGCAGAGGTTAAAGGCAGTCTTCAAGAATTTCATCGACAAAGTAGAGGGAATAACACACGGCCAAGTGGAGTTTGATGTTCCCTTTAGAGACCTCGGGTTCTCGGGTGTACCATCACGGAGTACAGTATTACTACAACCAACAACGCATTGTTTAGTTAACATCACCGAACAGCCGACGTTTATCATCACTTTGGATGAAGTAGAACTCGTTCACTTTGAACGTGTGCAGTTTCATCTCAAGAATTTCGACATGGTGTTTGTGTTCAAAGACTACAAACGCAAAGTGGAACACGTGAATGCCATACCCATGACGTCACTTGATTCCGTTAAGGACTGGTTAAATTCATGTGACATTAAATACACTGAAGGCATCCAGAGCTTGAACTGGGCCAAGATTATGAAGACGATTAACGAGGATCCTGAAGCGTTCATTGAGAATGGTGGATGGAGTTTCTTGGATCCAGACAGCAGCGGTGACGAGGACGGAGGCAGCGAGGATGAAGCAGAAAGCGATTACGCACCAACAGGCTCAGAGGAAGAAGAAGAATCTTCTCAAGAGGAATACTCTTCAGAGACAGAGACAAGCGAGGAGGGGTCAGATTTGGATGAGGAGATGGGAAGCGAAGAAGAAAGTGGAAAAGACTGGTCCGAGCTTGAAGAGGAGGCTGCAAGAGCTGACCGCGATAAAGGACACGACCAACCAGAACAAACAAAGAAGAGAAAGAAATCGAGCAGCAAACACGAATCTCCGCGCAAGAAAAAACGCAGGAGTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9Y5B9	FACT complex subunit SPT16 OS=Homo sapiens OX=9606 GN=SUPT16H PE=1 SV=1
Q920B9	FACT complex subunit SPT16 OS=Mus musculus OX=10090 GN=Supt16h PE=1 SV=2
Q9W603	FACT complex subunit SPT16 OS=Xenopus laevis OX=8355 GN=supt16h PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003211 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08644 all species →	SPT16	FACT complex subunit (SPT16/CDC68)	Domain	Interproscan
PF00557 all species →	Peptidase_M24	Metallopeptidase family M24	Domain	Interproscan
PF21091 all species →	SPT16_C	FACT complex subunit SPT16, C-terminal domain	Domain	Interproscan
PF14826 all species →	FACT-Spt16_Nlob	FACT complex subunit SPT16 N-terminal lobe domain	Domain	Interproscan
PF08512 all species →	Rttp106-like_middle	Histone chaperone Rttp106-like, middle domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036005 all species →	Homologous_superfamily	Creatinase/aminopeptidase-like	Interproscan
IPR029148 all species →	Domain	FACT complex subunit Spt16, N-terminal lobe domain	Interproscan
IPR013719 all species →	Domain	Histone chaperone RTT106/FACT complex subunit SPT16-like, middle domain	Interproscan
IPR013953 all species →	Domain	FACT complex subunit Spt16 domain	Interproscan
IPR000994 all species →	Domain	Peptidase M24	Interproscan
IPR040258 all species →	Family	FACT complex subunit Spt16	Interproscan
IPR048969 all species →	Domain	FACT complex subunit SPT16, C-terminal domain	Interproscan
IPR029149 all species →	Homologous_superfamily	Creatinase/Aminopeptidase P/Spt16, N-terminal	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR033825 all species →	Domain	FACT complex subunit Spt16, peptidase M24-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13980 all species →	CDC68 RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006368 all species →	Biological Process	transcription elongation by RNA polymerase II	Interproscan
GO:0031491 all species →	Molecular Function	nucleosome binding	Interproscan
GO:0035101 all species →	Cellular Component	FACT complex	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K25639	SUPT16H, SPT16; FACT complex subunit SPT16	-	Chromosome and associated proteins	ko03036	deepkoala

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.Ap4.5357.1.5f15e1f0 across 49 RNA-seq samples of Astrangia poculata. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

4Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole organism · cold control	14	0	0.00	0.00
whole organism · heat control	12	0	0.00	0.00
whole organism · cold challenge	12	0	0.00	0.00
whole organism · heat challenge	11	0	0.00	0.00

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

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

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.