DreINT0134409 @ danRer10
Intron Retention
Gene
ENSDARG00000045294 | sh3glb1a
Description
SH3-domain GRB2-like endophilin B1a [Source:ZFIN;Acc:ZDB-GENE-050417-89]
Coordinates
chr24:28305965-28307806:+
Coord C1 exon
chr24:28305965-28306098
Coord A exon
chr24:28306099-28307713
Coord C2 exon
chr24:28307714-28307806
Length
1615 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
TTGCATCTACTTCTTTACAGAAA
3' ss Score
8.16
Exon sequences
Seq C1 exon
GAAATGCTCTGATAAAGTGTGGCGAGACAGAAAAGCAGATTGGAGGAGCGGAGCGAGAGTTCATTCAGACCTCTGCCATTAATTTTCTCACGCCTTTCCGCAACTTTCTAGAAGGAGACTTCAAGACTATATTG
Seq A exon
GTGAGATCAGGCAGCCACAAGAATTGGCGAAACATCGATTTCTAAAACTTCCGGAAACATTACTAGATGTTTAATACTGTTTAGTATTGTTTTTAACCTTTGTGTGCTGTAATATCCTATCCTTTTATTATATTCGTGGCCCCATTGACTTCAATTATAATGCCATTTTTTTGTAGCAAAGCCATGACAGCATATAATCATGCATTCTTGATGTTGGTGGTTTTCCCTGTTGGGAAGAGGTAAAATGTGTCATTTTTTTACTGTTGTGTTTTGTTAAAAACTGTGTCAAAATAAGATTTATCATCAAAAATAATTCAATTTGCTGAATACAGAGAAAGTTGTGGCCAAATTAAGACTTAAAATCACCCCAGTGGATGAAAACATCCCCAACAGCACATAAGGGTCAAGTTCAAACACTTAACAAAAACTGCCTTCTTTCATCTCCACAATATTGCACAGATTAGGCCATTTCTCTCACGACCTGATGCGGAGAGGCTTATCTATGCCTTTATCACATCACGTCTTAATTTTTGTAATTCACTTTTTGGGGGTTCACCTACAAGTCCTCTCAGTAGATTACAGTGTATTCAAAATTCCCCTGCACGGGTTTTGACACACACATCATCACACCACTATATTACTCCTGTACTTCAACAACTACACCGGCTTCCTTTTAAGTCACCGATTGATTTTAAGACCTTGATTTTAACCGTCAAACAGTACATGGGCTAGCACCTGGTTATATTTGTGACCTGGTGACTCTCGCCACTTCAGCCCGCAGTCTTCGTTCGGCATCAAGATTTACCCTGTATCAGCCGCGCTGTAAACTCAAGACCATGGGTGGTAGGTTGTTCTCATACAGTGTGCCCAAGCTGTGAAATGATCTACCCAACAGCATTAGGAATGCCACTTTTCTGGACTGTTTTAAGAAACTTCTTAAGACTCATCTTTTTAGCATTGCTTTTGACTTAGGATGACCATTTTGTTACCTTTTTTATTTTATCTTATTGTTGATATTCTTATTGTTTTATTGCATCTTTTTTATTCATGTGCTGTTTCTGCTATTGTTGGTATTTTGCCTTGTATTGTTAGTATTTTGACTTGTGCTTTTAGTCTAAGAAAAGCGCTTTACAAATAAAATGTATTATTATTATTATTATTATTATTATTAAGTTGCTTTTTCAATCACCACGATTCATGCAATGTAAATATAAAAGGTGTTCATTTTGGATCTTTTTTTCGCAAGTCTGCAACTTGCTGATGGAAAAGAATTACACAGCTTTGACATCTCATAATCTACCTCAAACTTAAGCAGAAACATAGAAACTGAGATATGTTCTGCCCAAGTCGTGTTTGTGGTTAAAGTTTGGGGTTTAGTGTAATAAATGTGATGTTTTGATCACAATTTCAAATCTATTAATTAAATTATTTTTATTATAAGTAAAAAAACTAAACTAAACATTTTGAAATCTGAACAATTCTAAACAAAAGAAATGCTGTTTGTCAGTCTTAAAGTATATGTAAGATGTATATAAGTAAGATATATTTTGTTAAGGTCAGTTTTTAATATCAGAAATTCGAGTTTAACAAACTAATTGCATCTACTTCTTTACAG
Seq C2 exon
AAAGAGCGCAAACTGCTTCAGAACAAACGATTGGACCTTGATGCGGCAAAGACCAAGCTAAAGAAAGCAAAAATGGCTGATGCCAGAGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045294:ENSDART00000018095:4
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=0.000
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(18.0=100)
A:
NA
C2:
PF0311413=BAR=FE(12.3=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:
TGCTCTGATAAAGTGTGGCGA
R:
CACAGCTCTGGCATCAGC
Band lengths:
223-1838
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]