Gene detail

Detailed information of g19658.t1 in Montipora capitata

Genomic Location: Sc0001053:88541...97837
NR annotation: XP_015777964.1, PREDICTED: RNA-directed DNA polymerase from mobile element jockey-like [Acropora digitifera]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g19658.t1

atgatcaccgacctcagtcagagggaagagaaattgtccaaggaattacagagcgtgttaagggcgaaatgtgaagctacggaagtcgaggagaagttaaagcacgaaatgaacagataccaggatgaagtcattacattagaggaaaaacttcggcagaccgaagagagttttgctgggaaccaactgaacctcatcaaggtaaacacttcggtaggatctcgattaagtcactctcgtcttcgcctggctacatggaacattcgatcacttaacaaaaaagctgttcctgtttgtgatttggtcatatcaaagcgcatcgatatacttgctttgaatgaaacctggctatcatcttacaccaactctgacccaactgtggcaaatattatcagcacactacaggattataattttgtgcatcatcctcgttcttctagatcccgtggtggggttggtgttctactgaaatctagtttgaaggttaaatgcaatgagtctcacacgtttaattcgtttgagtatttagatctttttatcacttctggcagctcgtcttttcgtctactttgcatttatagaccaccaccatcgaaaaagaacaagttgactaccacgctgttctttgacgagttttctgtgctcgtgcaagaccttgcgattgcaacagaaactgtgatcattactggcgattttaatttccacgtcgaacgcccagatgctaatgctatgaaattcctggacatacttgatgctggtggctttgaccagaacgttaggggtatcactcacaagcatggacacacattagatcttattatcactcgtcaaggagacctgatcaaaactgatcctcctaaaatcgttaatggctgctttgatatctctgaccatttacccatcacttgcgacgtttacatacagaaaccaccacctacaaaaaaagagattagccaccgtaacctgcgtaacatcgacatagaggcgtggcataatgacttgaaaaaagcactgtctaatcctgtcagccctattaatgacgtaaatattgcttgtggtcatttcaatcagactcttctacatacaatggacaagcatgctcctattcgtacccgtctcgtaactctacgaccctatgctccttggttcgacgactcgttaagatccttaaaacgaaaaaagagacaacttgaacgtagatacagatcgactggtctggaagtacatcgccaagtttttagtgagcattgcaccctttattatgacgccattaaatctgctaaacaggattactatcgtaaacgaatatcaaactctgatcaaagtcagcttttcaaccttatagacgatcttctcacagtgaaatccgcgccgccattaccatcgcatgacagccctcaagtattggctaatagctttgcggatttctttgacaacaaaatagtttcactgaaggaacgtcttcgatcttctaacttcgttgataatgacctttctattgtgataaatcaaccatcatgcttgtcatgctttaacaacttctctgaagtatctgttgatcaaataactaagctcatcgcgaagtctaaaccaaaaaccagcaaactggatcctgcaccaactgggcaaataaaggcattggacgagaaagctgtgaaatcaaaagaggaatttggaaggcgccttgtggagacccagaaaaagctgacacaaacggaaatcaattttgagaaattcaggagcgaacatgaaatgaaaatgaacgagaccaacaaggaaatgaaaaagaaacttttttctgccgaggaagaggtcaataggttaaaatcggagttatcaaggcaaggtcgtgcagtgagaaactacgctcccactcaagagaagtctcatgtttatgatttcttttacagtaaacccacaaatgaagatctgttaaacgaatataaagccgacatagaaatgtggaaaacaagatacgaggagctgtggcaaaagattgagccgtttaaggatcagttagatgaatacgaagctgaaaggagggcccttctttgtcaaaacagtagagccaaagaggaggtaaatctcgtaaattga

Transcript

g19658.t1

ATGATCACCGACCTCAGTCAGAGGGAAGAGAAATTGTCCAAGGAATTACAGAGCGTGTTAAGGGCGAAATGTGAAGCTACGGAAGTCGAGGAGAAGTTAAAGCACGAAATGAACAGaTACCAGGATGAAGTCATTACATTAGAGGAAAAACTTCGGCAGACCGAAGAGAGTTTTGCTGGGAACCAACTGAACCTCATCAAGGTAAACACTTCGGTAGGATCTCGATTAAGTCACTCTCGTCTTCGCCTGGCTACATGGAACATTCGATCACTTAACAAAAAAGCTGTTCCTGTTTGTGATTTGGTCATATCAAAGCGCATCGATATACTTGCTTTGAATGAAACCTGGCTATCATCTTACACCAACTCTGACCCAACTGTGGCAAATATTATCAGCACACTACAGGATTATAATTTTGTGCATCATCCTCGTTCTTCTAGATCCCGTGGTGGGGTTGGTGTTCTACTGAAATCTAGTTTGAAGGTTAAATGCAATGAGTCTCACACGTTTAATTCGTTTGAGTATTTAGATCTTTTTATCACTTCTGGCAGCTCGTCTTTTCGTCTACTTTGCATTTATAGACCACCACCATcgaaaaagaacaagttgactacCACGCTGTTCTTTGACGAGTTTTCTGTGCTCGTGCAAGACCTTGCGATTGCAACAGAAACTGTGATCATTACTGGCGATTTTAATTTCCACGTCGAACGCCCAGATGCTAATGCTATGAAATTCCTGGACATACTTGATGCTGGTGGCTTTGACCAGAACGTTAGGGGTATCACTCACAAGCATGGACACACATTAGATCTTATTATCACTCGTCAAGGAGACCTGATCAAAACTGATCCTCCTAAAATCGTTAATGGCTGCTTTGATATCTCTGACCATTTACCCATCACTTGCGACGTTTACATACAGAAACCACCACCTACAAAAAAAGAGATTAGCCACCGTAACCTGCGTAACATCGACATAGAGGCGTGGCATAATGACTTGAAAAAAGCACTGTCTAATCCTGTCAGCCCTATTAATGACGTAAATATTGCTTGTGGTCATTTCAATCAGACTCTTCTACATACAATGGACAAGCATGCTCCTATTCGTACCCGTCTCGTAACTCTACGACCCTATGCTCCTTGGTTCGACGACTCGTTAAGATCCttaaaacgaaaaaagagaCAACTTGAACGTAGATACAGATCGACTGGTCTGGAAGTACATCGCCAAGTTTTTAGTGAGCATTGCACCCTTTATTATGACGCCATTAAATCTGCTAAACAGGATTACTATCGTAAACGAATATCAAACTCTGATCAAAGTCAGCTTTTCAACCTTATAGACGATCTTCTCACAGTGAAATCCGCGCCGCCATTACCATCGCATGACAGCCCTCAAGTATTGGCTAATAGCTTTGCGGATTTCTTTGACAACAAAATAGTTTCACTGAAGGAACGTCTTCGATCTTCTAACTTCGTTGATAATGACCTTTCTATTGTGATAAATCAACCATCATGCTTGTCATGCTTTAACAACTTCTCTGAAGTATCTGTTGATCAAATAACTAAGCTCATCGCGAAGTCTAAACCAAAAACCAGCAAACTGGATCCTGCACCAACTGGGCAAATAAAGGCATTGGACGAGAAAGCTGTGAAATCAAAAGAGGAATTTGGAAGGCGCCTTGTGGAGACCCAGAAAAAGCTGACACAAACGGAAATCAATTTTGAGAAATTCAGGAGCgaacatgaaatgaaaatgaacgAGACCAACAAGGAAATGAAAAAGAAACTTTTTTCTGCCGAGGAAGAGGTCAATAGGTTAAAATCGGAGTTATCAAGGCAAGGTCGTGCAGTGAGAAACTACGCTCCCACTCAAGAGAAGTCTCATGTTTATGATTTCTTTTACAGTAAACCCACAAATGAAGATCTGTTAAACGAATATAAAGCCGACATAGAAATGTGGAAAACAAGATACGAGGAGCTGTGGCAAAAGATTGAGCCGTTTAAGGATCAGTTAGATGAATACGAAGCTGAAAGGAGGGCCCTTCTTTGTCAAAACAGTAGAGCCAAAGAGGAGGTAAATCTCGTAAATTGA

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000015 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03372 all species →	Exo_endo_phos	Endonuclease/Exonuclease/phosphatase family	Domain	Interproscan
PF15908 all species →	HMMR_C	Hyaluronan mediated motility receptor C-terminal	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005135 all species →	Domain	Endonuclease/exonuclease/phosphatase	Interproscan
IPR036691 all species →	Homologous_superfamily	Endonuclease/exonuclease/phosphatase superfamily	Interproscan
IPR031794 all species →	Domain	Hyaluronan-mediated motility receptor, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46670 all species →	ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	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 g19658.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of g19658.t1 across 48 RNA-seq samples of Montipora capitata. 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.

48Samples

48TPM > 0

3Conditions

160.4Max TPM

92.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	88.32	155.34
whole organisms · low pH treatment	15	15	96.95	160.36
whole organisms · extra low pH treatment pH treatment	12	12	93.11	147.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	155.34
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	154.73
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	154.08
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	152.50
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	136.21
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	135.19
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	126.00
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	121.45
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	120.97
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	118.41
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	92.24
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	87.25
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	76.26
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	71.89
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	43.76
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	42.46
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	26.63
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	22.70
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	5.73
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	5.68
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	5.22
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	160.36
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	155.28
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	151.58
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	151.07
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	121.79
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	119.31
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	116.27
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	107.47
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	100.61
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	97.91
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	86.72
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	66.18
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	7.95
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	6.54
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	5.15
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	147.33
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	144.80
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	140.46
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	135.30
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	128.43
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	124.84
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	114.69
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	77.50
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	75.81
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	10.17
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	9.74
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	8.23

Source: CnidoSite RNA-seq expression matrices (MCAPI_TPM, StringTie quantification over 48 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.