BtaINT0078283 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044027 | ITGBL1
Description
integrin, beta-like 1 (with EGF-like repeat domains) [Source:HGNC Symbol;Acc:HGNC:6164]
Coordinates
chr12:82107148-82108529:+
Coord C1 exon
chr12:82107148-82107261
Coord A exon
chr12:82107262-82108257
Coord C2 exon
chr12:82108258-82108529
Length
996 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCG
5' ss Score
6.46
3' ss Seq
CCCTGTGTACTCTGCTGCAGGGA
3' ss Score
9.56
Exon sequences
Seq C1 exon
GCTCCTGCCACTGTGGAAAGTGCCTTTGTTCTGCTGAAGAATGGTACATTTCAGGAGAATTCTGCGACTGTGATGACAGGGACTGCGACAAACATGATGGGCTCATTTGCACAG
Seq A exon
GTGCCGTATCAACCAACCCTAATCACTCTTTGTCATAGTCGGCAGTGGAGACCACACTCACTGTGCCCTGCCGCAGATGGCAGGGCAGGAGAGCCTCCTTGCAATCAAGACCTACTGTTCATTGAAAGTCACTACAGAAGGGGAGGGGCATTGATTCCCAAATCCAGAGGAATGCACAAGAATAAAGCCAAATTATATGGCTGTTGGGAAACTTCCACAAAGTAACCCCTCTCCCCTATTTACGCAGAAAAGAGAAAACAATGGTCTTGAGAACCATTTTACTTTGAGCCAGATGTAGGCAATGGAATATTACTTTAAACAGGTCCCAGGTGCCTCTTCCAAAGACCATTGGTTGATGTGTTGGTTGTGTGCAAGGAATGGGGTGTGTGTTGAGGGGATGGGAGCAATGAGAACACTTAGCAGTGTAATAGCTATTGCTTTCTCGAGTTATTGAATCCCGATAATCAGTTATGTCAATAAAATACATCCCCTTGAATAAGCTACAGGGAAAAGAGACATATATATCTGCTCTCCTTACTTCCAGTGGCAGGTAAAAGATGAAAGCTTCCATGTCATTAAGCTAGACCTTCACTTTCAGTCCACCCCTATGAAACAAGGCTCCTCTTCTGATTCCTCAGCTTACCTCATTCTATGTCAAGGGACTTGGTAGTTTTCCACATTTATTCATAAGTCAGACATAACTTGCTGTCTACAGGAAAACGAAATTATGACTTGGAAGCCACCTGGAGTGACACAGGATGGTCACTCTTAGATGCTACACACAGGGTGGCATCAAGCAGCTGCCATTAATTGTGTGAAAAATTAGATTTCCCATAGCTGCTAAATGAGATAAGATGGTTACAGAATAGAATCAGAAAATTTGCAGAGGATGAATGAAATGGTCTTGCTGATGAACAGCTACAGTTTGGAATGACATATTTTATAATGTGGTGCCTTTCTATCATGATGATGACTGCCCTGTGTACTCTGCTGCAG
Seq C2 exon
GGAATGGGATCTGTAGCTGTGGAAACTGTGAATGCTGGGACGGATGGAATGGAAATGCCTGTGAAATCTGGCTCGGCACGGAATACCCTTAACGATTACGTGGCAGGGAACCGGGTTCTTTCTTCTCGGCCCTCAGAACGTATAAATGCAGAGGAAACCATGTATAATCACCACTACAACAGGTCAAACAAGACTATTGTATGTTTTTCTCTTTCTGAATGCCTGAATGAAATCTGGGTACCCATTAAAAATGAGTTAAGCAAATTCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044027:ENSBTAT00000061277:8
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=PD(61.8=53.8),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
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGCCACTGTGGAAAGTG
R:
GGTACCCAGATTTCATTCAGGCA
Band lengths:
355-1351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development