BtaINT0068644 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017124 | GPSM2
Description
Bos taurus G-protein signaling modulator 2 (GPSM2), mRNA. [Source:RefSeq mRNA;Acc:NM_001192355]
Coordinates
chr3:34569913-34570542:-
Coord C1 exon
chr3:34570407-34570542
Coord A exon
chr3:34570056-34570406
Coord C2 exon
chr3:34569913-34570055
Length
351 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CTGCTGATACCTTCATCTAGGTG
3' ss Score
8.12
Exon sequences
Seq C1 exon
GACTATTGGAGACCAGTTGGGGGAAGCTAAAGCTAGTGGTAATCTGGGAAATACTTTAAAAGTTCTTGGGAATTTTGATGAAGCTATAGTTTGTTGTCAGCGACACCTGGATATTTCCAGAGAGCTTAATGACAAG
Seq A exon
GTAATGAGGAAACGTTAGATGGTAGGCCAAATGTTTTCATTGAAATTGCTTTGTGTTTTAATCCTATTTAATTATTCTGTAGTTTATCTAAAAGTTAATACCAAAAAGAAAGTGAGAGAAGAGAAAATGAGAAGAGAAACAAAAAAAATTTTTAATAGATGAGAAAAAGAAATAGTAAGAGGTCCTTCTTTCATACATGGTCATATGTTTTGTGGTTCTGTATGGATGGCTGATGTAAACATTTTTTTCTCTTGACCATAATATCAAGGATGTTACAAATAAGTATATGTGATAAGCATTGTAATACTGGCCTCTGATTTCAAAATGTAAACTGCTGATACCTTCATCTAG
Seq C2 exon
GTGGGAGAAGCAAGAGCACTTTACAATCTTGGAAATGTGTATCATGCTAAAGGGAAAAGTTTTGGCTGCCCTGGTCCTCAGGAGGTAGGAGAATTCCCAGAAGAAGTAAGAAATGCTCTGCAGGCAGCTGTGGATTATTATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017124:ENSBTAT00000022762:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(0.1=0.0),PF134241=TPR_12=PU(64.5=87.0)
A:
NA
C2:
PF134241=TPR_12=PD(32.3=41.7),PF134241=TPR_12=PU(18.3=22.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTATTGGAGACCAGTTGGGGG
R:
TCATAATAATCCACAGCTGCCTGC
Band lengths:
278-629
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]