BtaINT0010573 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101535988-101537390:-
Coord C1 exon
chr5:101537231-101537390
Coord A exon
chr5:101536073-101537230
Coord C2 exon
chr5:101535988-101536072
Length
1158 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
TCTCTTTCCACTCTTTCCAGTGC
3' ss Score
9.67
Exon sequences
Seq C1 exon
GATCCAAATAACAATAGGATTGCACAGTGGCTGAACGTGGTGCCCAAGCAAGGCATCGTAGACCTGTCCTTCCAGCTGGCACCAGAAGCAACGCTGGGCACCTACAGTGTGGCCGTGGCTGATGGCAAGACCTTCGGGACCTTCAGTGTGGAAGAATATG
Seq A exon
GTAGGTGGGAGAATTGGTAGGTCAGAGTGTTGGACTTGATCTTGTGTAAAAACCAGCAAAGGTCAAGTGAAACTTACTATGGAACTAGGTCAAAGATGGCAGAAGAGTTTACTTCCAGTGGAGCCTCATCACCAATCCAATGGACATGAACTTGGGCAAACTCTGGGAGATGAGGGACAGGGAAGCCTGGAGTACTGCAGTCCATGGGGCTGCAAAGAGTCAGACATGACTTGGTGACTGAACAACAACAACAAGATACACTCATTGTAACACATTAGCATAAGCTAAGTGACACACCCACTAGCGCCATGACAGTTCCCAGGCTGACCATCAGAGATAAGAAAGTGGGCTGTGAACCAGCCTGCAAATCTCCATCTCTTCCCCAAAATAGTTGGATTACTCTTCCTGCTCATTAGCCTATGAAATTTTTGCTGTTGTTTAGTTGCTAAGTCATGTCCAACTATTTGGTGACCCCATGGACTGTAGCCCTCCAGGCTCCTCTGTCGGTGGGATTTCCCAGGTAAGAATACTGGAGTGGGTTGCCATTTCTTTCTCCAGGGGATGTTGCTGACCAAGGGATCAAACCAGCATCTCCTGCATTGGTAGGTGGATTCTTTACTGCTGAGCCACCAGGGAAGCCCAGCCTATGAAATTACCTAGTCCATACAAACTAACCATCCCATATTTTCATGCCTCTCCCCTTCTGAGATGGCTCACACTCTGTCTGTAGTATGTGTTTCTTTTTAAATAAATCTAATTCTTACTTAAAAAAGGGGGGGGGGTTATTTATTCATTTTGGTGCTAAATCAGTAACTTTGGGAGGATTTTACCTTAATAATGCCCTGTTAATTTAATTAGCTGGGCTTCCTAGGTGGCCCTAGTCGTAAAGAATCCTCCTACCAATACAGGAGTCCTGGGTTCCATCTCTGGATCAGGAAGATCTCCTGAAGTAGGAAATGGTACCCCACTCCAGTATATTCTTGCCTGGAAAATTCCAAGGACAGAGAAATCTACAGTTCACGGGGCTGCAAAGAGTTGAACGTGATTGAGCAATTTAATTAGATAATTATTATCACTGTTTTATACCCCTCTGTTCACTACCTGTGTAGTCAAACTTTCTTCCTCTTCATTTTCCATCTCTCTTTCCACTCTTTCCAG
Seq C2 exon
TGCTGCCTAAGTTTAAAGTGGAAGTGGTGGAACCCAAAGAGTTATCAGTGGCGGAAGACTCTTTCTTAGTGAAAGTTTGTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:6
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:
PF0183514=A2M_N=FE(45.7=100)
A:
NA
C2:
PF0183514=A2M_N=PD(18.1=72.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAATAACAATAGGATTGCACAGT
R:
TCACTAAGAAAGAGTCTTCCGCC
Band lengths:
230-1388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]