BtaINT0132574 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031171 | SH3GLB1
Description
Bos taurus SH3-domain GRB2-like endophilin B1 (SH3GLB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001077993]
Coordinates
chr3:57437988-57439692:-
Coord C1 exon
chr3:57439559-57439692
Coord A exon
chr3:57438081-57439558
Coord C2 exon
chr3:57437988-57438080
Length
1478 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TTTCTTTCCTATATTTATAGAAA
3' ss Score
8.02
Exon sequences
Seq C1 exon
GTAACGCCCTTATTAAATGTGGAGAAACACAAAAACGAATTGGAACAGCAGACAGAGAGCTGATTCAAACTTCAGCCTTAAATTTTCTCACTCCGTTAAGAAACTTTATAGAAGGCGATTACAAAACAATTGCT
Seq A exon
GTGAGTTGGAAAATGTTCATTTTTTTAGTAAAACAATTTAGGTATATACTTACAGGTTAAAAACTTGTAGTTTTTAATGAGCAGTTGCACTCTTAATGACTTTGTAGATATAGCAGATTAGAAGAATTAAATAATCAGAAGAACTAAACAATGTAGCAAGATGTATAATGCAACAGAATACAAAACTAACCAAAATAGAGGATTATTAATGATACAGACTCCACTTCTATGTCCCTGTAGTGTTATTGAGATGTCTTTACATCCATTTTTGTTCATTATCAGCCCTGAAATCTATATACAAATTCCTGGAATGATTATTAAAATGTGGCACAAATTATTGTCATAGTATAGCCATACATTTAAACTAGGAGCCAGAATCATAATGACTAGAAGCTATATTTCTGGCTATTAGACTTCCTGTCTTTTTGTATCCGTAGAAGTCTATTATCTTCTTTTAACACAGGTGTGTTTTATTTCTTAAATATAAGAAAAAAAAATCACTTCCCAAACCTAATCTATTAGTCTATTATTTTTTTAGTTTAAGTTGTGTTTTAAATGATGGGGAGTAGTGTCCTAGGTGAATATTTTTTCCCAAGATTTTTATTGTAAATACTCCTTCAAACTTAATTTTCATATTTCTTATTATAGAAACTTAGTATGTTTACATTGAATCTGTGTATAAAAAGTGTTTGGCCTGAAACAAAGGAAAAATCACAAAGATGAAATATGATTGAAAAGCTATTATATTATCAACAGGATGAAATTTGATATGTGGAATCTAAGAATTAACAAAGCAAACAGTAAGATCTTATAAACTAGTATATTATGAAGAAGCTTAACATTCCCCTGAGGAATTCTAAGATACCATACTAACATTTATTCATGGTTCATTCTAAATAAATGTGAAATTCTGTTTTCGGAGTAGCAGAGTTGCTTGTGGTGCTGCAGCACGGGGTTGCAAGGAGCCTTGCCCTAGGGCCTCTACCTTCTTCACCTTAGGTACTTCCTAGATTATCTGTAACAGGCTGAAACAGTTTCTCAAGCTGACCACTACTAACATTTTAGTTCGAGTAATTCTTTGTTGTAAGAACTGTACTACGTTGTAAGATATGTAGCTGTGTCTCTGGCTTCTACCCAGTGGATGCCAGTAACATCCGTCCCCAAATTATGACAACCAAGAAGATATTGCCAGGCATTCCTCAACAAAGAGCAAAATCACAGAATATTAAAACTAATATTCCTTTGTTTCTACCATCACCTGCCATCTTTCCCAGATCTAGAATGTCTGTATCGTTTTTAAATTGCAGATAGTGAGAAAATGGAGTCTGACACCTGAAAGGTCACTTAATGGCTAATTTTGTAATCATAGATGTTTGTTCATCAGATGATTGTTTAATGGGAGAATAGTACTTTAAATGTGTGTGCTCTTAGTGGATTTTTAACATCATTAGGCTTTATTTTCTTTCCTATATTTATAG
Seq C2 exon
AAAGAGAGGAAACTATTACAAAATAAGAGACTGGATTTGGATGCTGCAAAAACAAGACTAAAAAAAGCAAAAGCTGCGGAAACTAGAGCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031171:ENSBTAT00000044128:4
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=0.081
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(17.9=100)
A:
NA
C2:
PF0311413=BAR=FE(12.2=100)
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:
ACGCCCTTATTAAATGTGGAGA
R:
TGATGCTCTAGTTTCCGCAGC
Band lengths:
224-1702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]