BtaINT0010548 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101525243-101526225:-
Coord C1 exon
chr5:101526080-101526225
Coord A exon
chr5:101525393-101526079
Coord C2 exon
chr5:101525243-101525392
Length
687 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGTCCTTTTCTCTACCCCAGGTT
3' ss Score
11.59
Exon sequences
Seq C1 exon
GACTGAAAGGCTCCTTCTCTCTCCCACTGGTCTTCAACTCTAGATTAGCCCCTGATCCTTCCCTGGTGGTCTACGCTGTTTTTCCCAATGGAGGTGTCATAGCAGACAAAATCCAGTTCTCAGTGGAGATGTGCTTTGACAATCAG
Seq A exon
GTAAAATGGCAGTTAAGGCGGTTGAAGGAAAGGTCTGGGCAGAGAGAGGGAGCTTGTGTATCCTGGGCGTGGAGGGAGATAAGACAAGGCCACTAGGGAAGGCAGGGGATAATGTTGAAGCTGGATGTCATGTTCTGTATCTTTAGCATGGTTTGTTGAACTGTCTCTCCTTCTTCTTTTAAAAGGTCATGCTGGGAAGTCACATGTTCTGTAGATCTATTCCATAAATTCTCTTTCTACTTTCTGTCTTTTAAACTTCCTGTATTATTCTACTGTGCTGCTTACTTTTTCCAACTGTATCACAAGACACTGCTTCTAAAGGGCAAGACTTTACAAAGAAAAATCAGTATAAAAGTGAAGGACTCGGGGGAATTCTCTGGCAGTCCACTGGTTGAGACTTCATCTTCCAATGCTGGGGGTTTGGGTTCAATCCCTGGTCAAGGAGTTAAAATCCCACATTCTTCATGGCCAAAAAAACAAAATATTAAACAGAAGCAATATTGTAACAAATTCAATAAAGACTTTAAAAATAATCCACATCAAAAAAAAAAAAAAAAAGACAAAGTGACCCTTAAAAAAAAAGTGAAGGAGTGGGCTAGGGACCGTACTTAGGGCATATGGCTGATGACTGTTTCTCTTCCTCTCTAGCCTGACCTGATCCCCATGTTGTCCTTTTCTCTACCCCAG
Seq C2 exon
GTTTCCCTTGGCTTCTCACCTTCCCAGCAGCTTCCAGGAGCAGATGTGGACCTCCAGCTGCGGGCAGCCCCTGGGTCCCTGTGTGCAGTCCGGGCCGTGGATGAGAGTGTCTTGCTGCTTAGACCAGAGAGCGAACTGAGCAATAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:14
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:
PF077039=A2M_N_2=FE(32.2=100)
A:
NA
C2:
PF077039=A2M_N_2=PD(26.2=78.0)
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:
AAGGCTCCTTCTCTCTCCCAC
R:
GCTATTGCTCAGTTCGCTCTCT
Band lengths:
287-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]