GgaINT0120718 @ galGal4
Intron Retention
Gene
ENSGALG00000016867 | ITGBL1
Description
integrin, beta-like 1 (with EGF-like repeat domains) [Source:HGNC Symbol;Acc:HGNC:6164]
Coordinates
chr1:142614261-142615975:-
Coord C1 exon
chr1:142615862-142615975
Coord A exon
chr1:142614353-142615861
Coord C2 exon
chr1:142614261-142614352
Length
1509 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
ATTTATTCACTCTGTTCTAGGTA
3' ss Score
10.55
Exon sequences
Seq C1 exon
GTTCCTGCCACTGTGGAAAGTGCATCTGTTCACCACAGGAATGGTACATTTCAGGTGATTTTTGTGAATGTGATGACAGAGACTGCGACAAACACGATGGTCTCATTTGCACAG
Seq A exon
GTGCAGTACAGGCTAACTCTTAATTGCTTTAAGAAACAAGCTGTGCTGATGAGGATTATGTTAGACAAAGCCTATCTTCTTTCTCCACTTATGGAGGAACTGCATTTTCAGGTTATTCAGATCCACTAAAATTGTTTCCTTATGCAGAATGATAATCAGCTTAAGGTTTCAAATCAACAGTAGAAAGTCTGAGTATGAATTTAAGTAAGCAAACCAGATACGAAATCCATCAACTATTTTCATTGTAGTAGATTACAATTTACTCCTCTTTGCCAAAGAATGTACAATGGAAGCACTGCCATCACGAGATTTCTTCAAGTTTTAGATTTTCTTTGTGTGTAATATATTTAAGTAATAGAAAACATTCACTTGCTTGCTGATCTTTGCTAGGTGAGAGATATAGCTATGCTGGGCAGGGGATCTTCTGGCAATCATATAGCTCTCAGTGGGAGGCTGAAATACCTGACAGTTTTTCTTATGGCATGATGGCTACTGATTAAAGTGGTGCCACCCTAACACTGTCCAAGTGCTCGGGTGGCAGATGCAAATAGACATGGGCAGGCTGCCAGCAAACTCTCATGACAACTCTAGTGACAAGTAGCAACATGGGAATCGTTAAATTAACTTGCTGGCTGCTTCTTGTTACAGATCTTAATTTTAGAAAATCTTTGCTGAGCAATTATTAGATGTGGAAGGAATCTGTGAGATAATTAGAGTCAGAGCAAGCAGGCTGACACTAGTAATGCTGTCCACAAATGCGGTCTCCCAGCTCACCCAATTAGCAAGTGGTCTTTTCTGGGGCAAGTAGGCAGTACGGAGGCATCAGGAGCCTGAGCTGCAGCTGCAGTGGTCATTCACAGACCTTCATAAAGTCGATAGCATAAGCAGCACACATTGGAAACCCAGGATGTACAAGTCCCCGGCTGGGCACCCTGGAGTCATGAAAAACATTGAAATAAATAGAAAACGTGGGTCTCAGTACTTAATGTTTCTATGTTTCTATCTGCAAAAAAAGATAAATGCATTTCTCATCTAATAGTGAGCTTGAGATATTATTTATTCGTACAGCACTTCTGAGAATTTAGGCTTAAAGATTATTAGGTTCAAATGCTTATTACTGTTCTGTTTGTAACTTTTTATCTCCACATCGTAGTTAAATGTAATTCTTGTTGTTTTTTTTTTTTTTTCTTTTTTCTTGTACATTAAAGTACAGTGTGAACAGTGAGCTTCAACAGCTGGGTGCACGTAGTAGTAGCATAATTGCAGTACTTGCAATTCTGCTGATGAAAGGATGCTATTAATTCTTCATAAGTGTAGGCCTGAGGTGGCTTCTTAATGCAATGACACAGTAATTATGCTTCCTTGAAAAAAAAAAAAAAAAAAAAAAAAAGTAGGGGAATGCTAAAGGAACAGTGCAGCTACTTTATCATGGTTTTTACTTCCCCTAAGACACATTTTAATGTAGTACATTTCAATTATGATAATTGCCATTTATTCACTCTGTTCTAG
Seq C2 exon
GTAACGGTGTTTGTAACTGTGGAAACTGCGAGTGCTGGGAAGGATGGAATGGAAACGCTTGTGAAATCTGGCTGGGAACAGAATACCCTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016867:ENSGALT00000027247:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=PU(32.3=25.6)
A:
NA
C2:
PF079748=EGF_2=PD(64.5=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCCTGCCACTGTGGAAAGT
R:
TTAAGGGTATTCTGTTCCCAGCC
Band lengths:
206-1715
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]