Detailed information of OS493_025229-T1 in Lophelia pertusa

Genomic Location: scaffold_122:680258...695009
NR annotation: KAJ7383902.1, NineTeen Complex (NTC) component [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q6AYB3Pre-mRNA-splicing factor ISY1 homolog OS=Rattus norvegicus OX=10116 GN=Isy1 PE=2 SV=1
Q69ZQ2Pre-mRNA-splicing factor ISY1 homolog OS=Mus musculus OX=10090 GN=Isy1 PE=1 SV=2
Q9ULR0Pre-mRNA-splicing factor ISY1 homolog OS=Homo sapiens OX=9606 GN=ISY1 PE=1 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007253 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF06246
all species →		Isy1Isy1-like splicing familyFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR029012
all species →		Homologous_superfamilyHelix hairpin bin domain superfamilyInterproscan
IPR009360
all species →		FamilyPre-mRNA-splicing factor Isy1Interproscan
IPR037200
all species →		Homologous_superfamilyPre-mRNA-splicing factor Isy1 superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR13021
all species →		PRE-MRNA-SPLICING FACTOR ISY1Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000350
all species →		Biological Processgeneration of catalytic spliceosome for second transesterification stepInterproscan
GO:0000389
all species →		Biological ProcessmRNA 3'-splice site recognitionInterproscan
GO:0000974
all species →		Cellular ComponentPrp19 complexInterproscan
GO:0071013
all species →		Cellular Componentcatalytic step 2 spliceosomeInterproscan
GO:0071014
all species →		Cellular Componentpost-mRNA release spliceosomal complexInterproscan
GO:0071020
all species →		Cellular Componentpost-spliceosomal complexInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K12870ISY1; pre-mRNA-splicing factor ISY1-Spliceosomeko03041deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_025229-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples
109TPM > 0
7Conditions
22.4Max TPM
11.7Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
polyp at pH7 9 18 18 11.00 14.05
polyp at pH7 6 18 18 13.13 18.62
coral polyp · control treatment 16 16 12.83 22.36
coral polyp · oil and dispersant treatment 16 16 10.83 19.42
coral polyp · oil treatment 16 16 11.87 16.77
coral polyp · dispersant treatment 16 16 9.92 18.08
Polyp 10 9 12.07 19.49

Per sample · hover a bar for the full sample record

Show the sample table (110 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR11359519 polyp at pH7 9 not recorded not recorded not recorded - 14.05
SRR11359522 polyp at pH7 9 not recorded not recorded not recorded - 13.24
SRR11359518 polyp at pH7 9 not recorded not recorded not recorded - 13.15
SRR11359520 polyp at pH7 9 not recorded not recorded not recorded - 13.05
SRR11359507 polyp at pH7 9 not recorded not recorded not recorded - 12.73
SRR11359521 polyp at pH7 9 not recorded not recorded not recorded - 12.44
SRR11359495 polyp at pH7 9 not recorded not recorded not recorded - 11.76
SRR11359523 polyp at pH7 9 not recorded not recorded not recorded - 11.07
SRR11359494 polyp at pH7 9 not recorded not recorded not recorded - 10.52
SRR11359496 polyp at pH7 9 not recorded not recorded not recorded - 10.42
SRR11359508 polyp at pH7 9 not recorded not recorded not recorded - 10.24
SRR11359499 polyp at pH7 9 not recorded not recorded not recorded - 10.18
SRR11359498 polyp at pH7 9 not recorded not recorded not recorded - 9.92
SRR11359510 polyp at pH7 9 not recorded not recorded not recorded - 9.85
SRR11359506 polyp at pH7 9 not recorded not recorded not recorded - 9.70
SRR11359509 polyp at pH7 9 not recorded not recorded not recorded - 9.45
SRR11359511 polyp at pH7 9 not recorded not recorded not recorded - 8.79
SRR11359497 polyp at pH7 9 not recorded not recorded not recorded - 7.41
SRR11359525 polyp at pH7 6 not recorded not recorded not recorded - 18.62
SRR11359524 polyp at pH7 6 not recorded not recorded not recorded - 17.97
SRR11359512 polyp at pH7 6 not recorded not recorded not recorded - 17.89
SRR11359529 polyp at pH7 6 not recorded not recorded not recorded - 17.40
SRR11359513 polyp at pH7 6 not recorded not recorded not recorded - 16.23
SRR11359528 polyp at pH7 6 not recorded not recorded not recorded - 15.04
SRR11359504 polyp at pH7 6 not recorded not recorded not recorded - 14.40
SRR11359501 polyp at pH7 6 not recorded not recorded not recorded - 13.60
SRR11359505 polyp at pH7 6 not recorded not recorded not recorded - 13.29
SRR11359515 polyp at pH7 6 not recorded not recorded not recorded - 11.52
SRR11359503 polyp at pH7 6 not recorded not recorded not recorded - 11.38
SRR11359514 polyp at pH7 6 not recorded not recorded not recorded - 10.28
SRR11359526 polyp at pH7 6 not recorded not recorded not recorded - 10.22
SRR11359502 polyp at pH7 6 not recorded not recorded not recorded - 10.18
SRR11359527 polyp at pH7 6 not recorded not recorded not recorded - 10.18
SRR11359517 polyp at pH7 6 not recorded not recorded not recorded - 9.74
SRR11359516 polyp at pH7 6 not recorded not recorded not recorded - 9.60
SRR11359500 polyp at pH7 6 not recorded not recorded not recorded - 8.83
SRR16705973 coral polyp · control treatment coral polyp polyp control treatment SRP344271 22.36
SRR16705965 coral polyp · control treatment coral polyp polyp control treatment SRP344271 18.97
SRR16705974 coral polyp · control treatment coral polyp polyp control treatment SRP344271 17.46
SRR16705960 coral polyp · control treatment coral polyp polyp control treatment SRP344271 17.27
SRR16705972 coral polyp · control treatment coral polyp polyp control treatment SRP344271 15.05
SRR16705990 coral polyp · control treatment coral polyp polyp control treatment SRP344271 14.74
SRR16705946 coral polyp · control treatment coral polyp polyp control treatment SRP344271 13.73
SRR16705971 coral polyp · control treatment coral polyp polyp control treatment SRP344271 13.40
SRR16705957 coral polyp · control treatment coral polyp polyp control treatment SRP344271 12.83
SRR16705942 coral polyp · control treatment coral polyp polyp control treatment SRP344271 12.02
SRR16705989 coral polyp · control treatment coral polyp polyp control treatment SRP344271 9.50
SRR16705975 coral polyp · control treatment coral polyp polyp control treatment SRP344271 8.45
SRR16705992 coral polyp · control treatment coral polyp polyp control treatment SRP344271 8.27
SRR16705970 coral polyp · control treatment coral polyp polyp control treatment SRP344271 7.98
SRR16705991 coral polyp · control treatment coral polyp polyp control treatment SRP344271 7.00
SRR16705943 coral polyp · control treatment coral polyp polyp control treatment SRP344271 6.20
SRR16705977 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 19.42
SRR16705995 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 17.06
SRR16705982 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 12.83
SRR16705979 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 12.57
SRR16705993 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 12.00
SRR16705945 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 11.68
SRR16706005 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 11.46
SRR16705948 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 11.31
SRR16705944 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 11.10
SRR16705976 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 10.54
SRR16706004 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 10.18
SRR16705997 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 8.34
SRR16705978 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 7.77
SRR16705947 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 6.56
SRR16705996 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 5.38
SRR16705994 coral polyp · oil and dispersant treatment coral polyp polyp oil and dispersant treatment SRP344271 5.12
SRR16705999 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 16.77
SRR16705981 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 15.26
SRR16705983 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 15.04
SRR16705984 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 14.39
SRR16706001 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 14.07
SRR16706000 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 13.58
SRR16705998 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 13.49
SRR16705949 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 12.56
SRR16705950 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 12.44
SRR16705952 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 12.26
SRR16705961 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 10.78
SRR16705951 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 9.99
SRR16705964 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 9.74
SRR16705963 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 7.89
SRR16705980 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 6.56
SRR16705962 coral polyp · oil treatment coral polyp polyp oil treatment SRP344271 5.07
SRR16705958 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 18.08
SRR16705959 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 17.41
SRR16705954 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 16.55
SRR16706003 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 11.77
SRR16705966 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 11.31
SRR16706002 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 10.88
SRR16705956 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 10.34
SRR16705986 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 10.06
SRR16705988 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 9.05
SRR16705969 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 8.91
SRR16705967 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 8.34
SRR16705955 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 7.66
SRR16705968 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 6.10
SRR16705953 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 5.87
SRR16705987 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 4.33
SRR16705985 coral polyp · dispersant treatment coral polyp polyp dispersant treatment SRP344271 2.11
SRR23025710 Polyp not recorded not recorded not recorded - 19.49
SRR23025713 Polyp not recorded not recorded not recorded - 17.89
SRR23025709 Polyp not recorded not recorded not recorded - 16.70
SRR23025712 Polyp not recorded not recorded not recorded - 14.79
SRR23025708 Polyp not recorded not recorded not recorded - 14.71
SRR7746667 Polyp not recorded not recorded not recorded - 14.05
SRR23025711 Polyp not recorded not recorded not recorded - 10.37
SRR7746668 Polyp not recorded not recorded not recorded - 8.11
SRR7746666 Polyp not recorded not recorded not recorded - 4.61
SRR7746669 Polyp not recorded not recorded not recorded - 0.00

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.

TOP