BtaINT0068641 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017124 | GPSM2
Description
Bos taurus G-protein signaling modulator 2 (GPSM2), mRNA. [Source:RefSeq mRNA;Acc:NM_001192355]
Coordinates
chr3:34550770-34552031:-
Coord C1 exon
chr3:34551872-34552031
Coord A exon
chr3:34550988-34551871
Coord C2 exon
chr3:34550770-34550987
Length
884 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTTTCCCCCTCTATCCATAGCAC
3' ss Score
10.93
Exon sequences
Seq C1 exon
AAAATCAGTGCAGATTCTATCGGCGATGAAGGGTTCTTTGACCTATTAAGCCGATTTCAAAGCAATCGGATGGATGATCAGAGGTGCTGCTTACAAGAGAAGAACTCTACATCAGCTGCAGCGGCAGCTTCTTCCACTCCCCTCAAAAGGATGCTAAAAA
Seq A exon
GTAAGTTATCTGTGCCTCTCCTGCAGTTTGAGTATTCTCTTTGATATTCTTATAGTTATTTCTGAGAATTTAATTCTTATCATAGGAGGTACAATCAAGGAGCCTGAATCGAAGTATATTTGAAATGCTGGAATTTGTACAGCTTTAAACAAGGTTTTGTTTTAGTTCCCCTGAGTTTATCTGTATTTCTATCTAGTGCTGTGTACTTTCTAATAACTATATCATACTGCCTCCTGAGCTTCCTAGGGGTTGGGGAAAAGAAAATCTAACTTAACAATAATAAGGAAAAAATTTTAGTTATACATACCTTATGATTACATGTAAAATACGAATGTTTCATGCGTGGTTTAAAAAAGAAAAGCTTAGACAGACTGAAGTGGAATCTGTGGCTATGGCTGAACCTGAAGCTAAGGCTTGCCTGAGCCTTAGAAAGATTAAAATAGGTTGGCTACTTAAAATTTTCTATTTCAGCTATCAAAAGACTTCTGAAGATCAAGACTTGCCAGCAGCACTTATAGTTAGCTCAATGTCCTGACCAGAGCATGAAATAAAAATACTGTCCCATTCATCCTGGGCTGAGAAATTATGTAAGAAAAGCTATTTACCTCCAAAATCTAGCCCCATATCTTATAAAGTTGCATATTAGGTGCTATTAGATAAAGGGAAATACAGTCAAATCCGAATAACCATATGCAGTACTCTGAAATTGATTCTCCCTTCACCACCCATCTAGTCTGGCCCTAGCCTATCAGTGACGCTCAGCAACAGAGCTAAACTAGAGGGCAGGGAGGGCACTGGGACTGAATAAGGCAGAAATAAATTATATGTGTATAATATGCTTAAATGACTGTTATTTTGGGATTTTTTTCCCCCTCTATCCATAG
Seq C2 exon
CACCACCAGTTTCTGTGCTGTCCCCCAACACAGATGAATTTTTAGACCTTCTTGCCAGCTCACAGAGCCGCCGTCTAGATGACCAGAGGGCCAGTTTCAGTAATCTGCCCGGGCTTCGTCTGACACAAAACAACAGTCAGTCAGTACTTGGCCATCTGATGACTAATGACAACAAAGAGCCTGAGGAAGACTTCTTTGACATCCTCGTCAAATGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017124:ENSBTAT00000022762:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.466
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=42.6)
A:
NA
C2:
PF0218812=GoLoco=WD(100=31.5),PF0218812=GoLoco=PU(47.8=15.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGCGATGAAGGGTTCTTTG
R:
TGTCAAAGAAGTCTTCCTCAGGC
Band lengths:
342-1226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]