Gene detail

Detailed information of XP_068731597.1 in Montipora capricornis

Genomic Location: chr12:7196606...7230157
NR annotation: XP_044163517.1, splicing factor 3B subunit 2-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138027877

ATGGAGGAAACTTTGCCTTCCATCGATGAACTCAAAAAGCTGAAAGTTGTCGAACTTAAGGCGCGACTCGCATCGCTTGGACTTCAAACATCAGGTCTGAAGGCTGATCTGGTAGAGAGACTTCACGATCACTTTTTGTCGGTTCGGCAAGCACAAGGGCAATGTCCAGAGGGGGAAGAGGAACCAGACAAAGAATGCCAGCCACAACTAGAGTCAAATGCTGATCAAGTGACTGTTGATAGTGGTGAGGATGTTAAGCCACAAACATTGCCAGTAATAGAAACTCATTTTCCAATCCATCACTCTGGAGAAGAACATGTACCTGTGCTTGTTGTGAAAACAGAGGATGGACCTTTTATTGCTCACACACCAGTCATTGCACGGGAGGAAAGGCTACCTGTTAGTGAACAACAGGCTGTTATGGGCGAGGATTTACCGACAGAACATAAAGAACAGGAGTCAGTGGAACAAAGTTGTGATCAAGAAGCCATGGAAGAAAGTTATCACCAGTATGCTTTGGAGGAACAAGGAAGAGAACAAGAGGTTGAAGTGCAGGATGAGAATATTGAAAGTCAAGAGCGTGGTCTATTCCAGGAACAGACGGAGGGGTCCGGCATGTATGATCCCCATAACGTGGTTGAACAAGCCTCTCAGCAACTTCGTGGAGAGATGTCTGAGAGCATTTTAGCTGTTCGGGAAAGATTTCATCCTGAAGAGGAAAATATCGTTCCAGAGCAAGATTCTTCTGTCCCATGGAATGAAGAACCTGAAGCTGCAGAGACACAACATTCAGATGAGTTTTTCATAAGCAAGGAACAAAATATACCACAGTCACACTCTTTTGCTGATGTACATCAAGAAAAAATGTATAATGGAGATGTCATAGTGTCCACAGGGACTGGTGCGCCATGGGTTATGGTTGATCACCCACCTGCATTAGAACGAGAAAATTATGTCCCACGGCAGGATGAGATGGTAATTCACAAAGCGGAGCCAAGAGGGATGTCAAATGAGAATTTTGTTCCAGAAGTACAAGAAGCAGCAGATGAAACAGTGTACCACAATGAAGTGGAGAGTGCAGACATTGAAGAAGCAGGGGAAGCACCCATTGTTGAAAGCAGAGACAAAAAAAGGAAAAAGAAGAAAAAGAAGCGAAGAAAGAGGATTGAGTTTGTTCAAGATCAGCCAATTGAAGTCGAGGAAACAGATGATGTTGAGGTGGAATATGTGGCTGAAGGGCTAAGTCCCCTCGATCCTAACTACAGAGCTTTTGCCAAGATCTTTGAGGCTTTCAAGCTGACAGATCCAGTTACAGATGATTCATCACAGAAAAAGATGGACCAAAAGGAAGAAACTGCGGCATCAAAGAAAAGTGAAGTTAAGGATGATGCTATGGACAAATATGATGATGAGGATGATGATGACGACGAAGATGTGAAAAAACCTGAAGATGATCAACCAAAGCTGTCAAAGAAGAAACTGAGGAAGATGAACAGGCTTAGTGTAGCTGAACTAAAACAGCTGGTTCCAAGGCCTGATGTTGTGGAAATGCATGATGTCACTGCTCAAGACCCAAAATTTCTTGTTTTTCTGAAGTCATGTCGTAACACGGTCCCTGTGCCCAGACATTGGTGCTTCAAGAGGAAATACCTTCAGGGTAAAAGAGGTATTGTGAAGCCACCATTTGAACTACCAGAATTCATAAAGCGAACAGGGATTATGGAAATGAGAGAGGCAATGCAGGAGAAGGAAGATCAGAAGACGATGAAGGCAAAGATGAGAGAAAAGGTTAGGCCTAAAATGGGGAAGATTGACATAGACTACCAAAAGCTTCACGATGCCTTTTTCAAGTGGCAGACAAAGCCCAAGATGTTGATTCATGGTGAACTTTACTATGAGGGAAAGGAATTTGAAACAAGACTGAAAGAGAAAAAGCCAGGTGACCTATCAGACGAGTTACGGACAGCCCTTGGCATGCCAATTGGTCCTAACAGTCTACTGGTACCACCCCCGTGGCTTATAGCCATGCAGAGGTATGGGCCTCCACCCTCGTACCCCAATCTCAAGATACCAGGACTGAATGCACCCATTCCTGAGGGTGCCTCCTTCGGTTACCATGCAGGTGGGTGGGGAAAGCCCCCTGTGGATGAGCAGGGTAAGCCCCTGTATGGTGATGTATTCGGCATTCAGCTGCAAGAGGCTCCAGTGCTGGAAGAAGATGAACAAATCGAGAGTCAGCCGTGGGGTGAGCTCGAATCTGAATCAGAGGAGGAGTCGGAATCAGAGGAAGAATCAGAAGAAGAGGAAGATCAGACGGGCCTCATCACACCAGCAGACACTGGCTTAATCACTCCAAGCGGTTTGACATCCATTCCAGCCGGCATGGAAACCCCAGACATGATTGAATTGCGAAAGAGGAAGAATATCGAGGAAGCAATGGAAACTGGAGCGGAGCAGCAGACATTGTACACTGTGTTACCCGAGAAGAGAGTCAGCGTAGGCGCTGCTATGATGGGATCTGCGCATGTGTACGATATTACATCGGCGGCAGCCGGCCTACCAAGAAAGGCGGGTGCTCCTTTGACCGAAGGAGTTGAAGTAGCTCTGGACCCAAGTGAGTTGGAGCTGGATCCAGCCGCCATGCAGGCCAGGTACGAACAGCAATTGAAGGAAAGAGAGAGCCAGTTACAGAAAGAAGACCTCAGTGACATGGTTGCGGAACACGCGGCCAAGCAGAAGAAAAGAAAGAAGGCCACAGACAGCGGCAAGTCGGCCAAGAAGTACAAAGAATTCAAGTTCTGA

Transcript

rna-XM_068875496.1

TTTCAACCCCGAAAATCCAACATGGAGGAAACTTTGCCTTCCATCGATGAACTCAAAAAGCTGAAAGTTGTCGAACTTAAGGCGCGACTCGCATCGCTTGGACTTCAAACATCAGGTCTGAAGGCTGATCTGGTAGAGAGACTTCACGATCACTTTTTGTCGGTTCGGCAAGCACAAGGGCAATGTCCAGAGGGGGAAGAGGAACCAGACAAAGAATGCCAGCCACAACTAGAGTCAAATGCTGATCAAGTGACTGTTGATAGTGGTGAGGATGTTAAGCCACAAACATTGCCAGTAATAGAAACTCATTTTCCAATCCATCACTCTGGAGAAGAACATGTACCTGTGCTTGTTGTGAAAACAGAGGATGGACCTTTTATTGCTCACACACCAGTCATTGCACGGGAGGAAAGGCTACCTGTTAGTGAACAACAGGCTGTTATGGGCGAGGATTTACCGACAGAACATAAAGAACAGGAGTCAGTGGAACAAAGTTGTGATCAAGAAGCCATGGAAGAAAGTTATCACCAGTATGCTTTGGAGGAACAAGGAAGAGAACAAGAGGTTGAAGTGCAGGATGAGAATATTGAAAGTCAAGAGCGTGGTCTATTCCAGGAACAGACGGAGGGGTCCGGCATGTATGATCCCCATAACGTGGTTGAACAAGCCTCTCAGCAACTTCGTGGAGAGATGTCTGAGAGCATTTTAGCTGTTCGGGAAAGATTTCATCCTGAAGAGGAAAATATCGTTCCAGAGCAAGATTCTTCTGTCCCATGGAATGAAGAACCTGAAGCTGCAGAGACACAACATTCAGATGAGTTTTTCATAAGCAAGGAACAAAATATACCACAGTCACACTCTTTTGCTGATGTACATCAAGAAAAAATGTATAATGGAGATGTCATAGTGTCCACAGGGACTGGTGCGCCATGGGTTATGGTTGATCACCCACCTGCATTAGAACGAGAAAATTATGTCCCACGGCAGGATGAGATGGTAATTCACAAAGCGGAGCCAAGAGGGATGTCAAATGAGAATTTTGTTCCAGAAGTACAAGAAGCAGCAGATGAAACAGTGTACCACAATGAAGTGGAGAGTGCAGACATTGAAGAAGCAGGGGAAGCACCCATTGTTGAAagcagagacaaaaaaaggaaaaagaagaaaaagaagcgaAGAAAGAGGATTGAGTTTGTTCAAGATCAGCCAATTGAAGTCGAGGAAACAGATGATGTTGAGGTGGAATATGTGGCTGAAGGGCTAAGTCCCCTCGATCCTAACTACAGAGCTTTTGCCAAGATCTTTGAGGCTTTCAAGCTGACAGATCCAGTTACAGATGATTCATCACAGAAAAAGATGGACCAAAAGGAAGAAACTGCGGCATCAAAGAAAAGTGAAGTTAAGGATGATGCTATGGACAAatatgatgatgaggatgatgatgacgacgaagaTGTGAAAAAACCTGAAGATGATCAACCAAAGCTGTCAAAGAAGAAACTGAGGAAGATGAACAGGCTTAGTGTAGCTGAACTAaaacagCTGGTTCCAAGGCCTGATGTTGTGGAAATGCATGATGTCACTGCTCAAGACccaaaatttcttgtttttctgaAGtcATGTCGTAACACGGTCCCTGTGCCCAGACATTGGTGCTTCAAGAGGAAATACCTTCAGGGTAAAAGAGGTATTGTGAAGCCACCATTTGAACTACCAGAATTCATAAAGcgaaCAGGGATTATGGAAATGAGAGAGGCAATGCAGGAGAAGGAAGATCAGAAGACGATGAAGGCAAAGATGAGAGAAAAGGTTAGGCCTAAAATGGGGAAGATTGACATAGACTACCAAAAGCTTCACGATGCCTTTTTCAAGTGGCAGACAAAGCCCAAGATGTTGATTCATGGTGAACTTTACTATGAGGGAAAGGAATTTGAAACAAGACTGAAAGAGAAAAAGCCAGGTGACCTATCAGACGAGTTACGGACAGCCCTTGGCATGCCAATTGGTCCTAACAGTCTACTGGTACCACCCCCGTGGCTTATAGCCATGCAGAGGTATGGGCCTCCACCCTCGTACCCCAATCTCAAGATACCAGGACTGAATGCACCCATTCCTGAGGGTGCCTCCTTCGGTTACCATGCAGGTGGGTGGGGAAAGCCCCCTGTGGATGAGCAGGGTAAGCCCCTGTATGGTGATGTATTCGGCATTCAGCTGCAAGAGGCTCCAGTGCTGGAAGAAGATGAACAAATCGAGAGTCAGCCGTGGGGTGAGCTCGAATCTGAATCAGAGGAGGAGTCGGAATCAGAGGAAGAATCAGAAGAAGAGGAAGATCAGACGGGCCTCATCACACCAGCAGACACTGGCTTAATCACTCCAAGCGGTTTGACATCCATTCCAGCCGGCATGGAAACCCCAGACATGATTGAATTGCGAAAGAGGAAGAATATCGAGGAAGCAATGGAAACTGGAGCGGAGCAGCAGACATTGTACACTGTGTTACCCGAGAAGAGAGTCAGCGTAGGCGCTGCTATGATGGGATCTGCGCATGTGTACGATATTACATCGGCGGCAGCCGGCCTACCAAGAAAGGCGGGTGCTCCTTTGACCGAAGGAGTTGAAGTAGCTCTGGACCCAAGTGAGTTGGAGCTGGATCCAGCCGCCATGCAGGCCAGGTACGAACAGCAATTGAAGGAAAGAGAGAGCCAGTTACAGAAAGAAGACCTCAGTGACATGGTTGCGGAACACGCGGCCAAGCAGAAGAAAAGAAAGAAGGCCACAGACAGCGGCAAGTCGGCCAAGAAGTACAAAGAATTCAAGTTCTGATGGAGGCGTTCCTATTTTCGAAACGGCGTCATTTTATTTACTTGTAAATATGTGCTACAACACTTTTTAAGAGGGATCCGGCTTCCTAAGTATTGGAGCTTGTGGTTTTTCATTTTTGCGAGACGTTTGCGGTTCTTATAATTAAGTTCTTGTAAAGTTTGCTACACTAAAATGTAAAATACAATTTTGTCTTGGAAATTATCTAAGTAAAGCTTTCAGCATGGATACGGAACCCTCCAAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q3UJB0	Splicing factor 3B subunit 2 OS=Mus musculus OX=10090 GN=Sf3b2 PE=2 SV=1
Q13435	Splicing factor 3B subunit 2 OS=Homo sapiens OX=9606 GN=SF3B2 PE=1 SV=2
Q9UUI3	Pre-mRNA-splicing factor sap145 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=sap145 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004489 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02037 all species →	SAP	SAP domain	Domain	Interproscan
PF04037 all species →	DUF382	Domain of unknown function (DUF382)	Family	Interproscan
PF04046 all species →	PSP	PSP	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036361 all species →	Homologous_superfamily	SAP domain superfamily	Interproscan
IPR003034 all species →	Domain	SAP domain	Interproscan
IPR007180 all species →	Domain	Domain of unknown function DUF382	Interproscan
IPR006568 all species →	Domain	PSP, proline-rich	Interproscan
IPR052584 all species →	Family	Pre-mRNA Spliceosomal U2 snRNP Complex Component	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12785 all species →	SPLICING FACTOR 3B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005689 all species →	Cellular Component	U12-type spliceosomal 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
K12829	SF3B2, SAP145, CUS1; splicing factor 3B subunit 2	-	Spliceosome	ko03041	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068731597.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples

30TPM > 0

1Conditions

111.1Max TPM

38.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	30	38.80	111.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	111.15
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	88.74
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	88.65
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	75.63
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	65.18
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	61.06
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	57.76
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	57.52
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	56.13
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	55.87
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	48.39
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	47.39
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	47.07
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	45.63
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	44.44
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	42.89
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	42.83
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	34.54
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	32.94
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	31.56
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	30.66
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	30.44
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	30.32
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	28.29
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	26.27
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	26.18
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	23.79
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	22.32
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	22.01
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	21.21
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.