BtaINT0010553 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101520519-101521417:-
Coord C1 exon
chr5:101521189-101521417
Coord A exon
chr5:101520646-101521188
Coord C2 exon
chr5:101520519-101520645
Length
543 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CTTTCAAATATCCTCTTTAGGTT
3' ss Score
9.39
Exon sequences
Seq C1 exon
CTACTCGGGAGAGGAGTCTGTCCACATCACGGTTCCTGACACCATCACCACGTGGAAGGCCATGACTTTCTGCACCTCCCAGTCCAAGGGTTTTGGCCTCTCACCCACCGTTGGAGTGACTGCCTTCAAGCCGTTCTTTGTTGATCTGACGCTCCCTTACTCAGTGGTTCGTGGTGAATCCTTCCGTCTGACTGCCACCATCTTCAATTACCTGAAGAAGTGCATCAGG
Seq A exon
GTAAGAGCTGGGGATGTAGGAAGCAGGTATCAGCCCCTACACTGGAGGCATACCCATCTCCCCAGAGAAGAAGATGAGACATCAGTGTCTTGGCCCTCCCATCTTCCTAACCTTCTGTGCATTGTCTGCTTTACTCATATCCTTTATTATTTTTTAAAACTTATTTTAGTTAATAGATTTATTTTGGCTGTGCTGGGTCTTTGTTGCCACTTGGCCTCTCTCTGGGAGGCTTTCTCTAGTTGCAGTGAGTGGGGGCTACTCTTCATTGTGGTACGCGAGCTTCTCATTGTGGTGGCCACTCTTGTTTCGGAGCACAGGCTCCACGCGGGCTTTAGTAGTTGTAGCATGAGGGCTCGGTGGTTGTGGCTCCTGGGCTCTAGAGCACAGGTTTGTGGTGCATGACCTCAGTGGCCCCTCAGCACGTGGGATCTTCCCAGACTAGCGATCGAACCTGTATCTGCTGCATTGGCAGGCAGATTCTTAACTGCTGGACCACCAGAGAAGTCCTACTCATATCCTTTGTCTTTCAAATATCCTCTTTAG
Seq C2 exon
GTTCAGACTAACCTAGCTAAGTCAGAGGAGTACCGAGTGGAAACGCAGACAGCCACTCGGGCCTCCACCTGTCTGTGTGCTGACGAAGCAAAATCCTATCACTGGAACATCACGGCTGTCAAACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:19
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:
PF0020717=A2M=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.3)
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:
GGAGTCTGTCCACATCACGGT
R:
CCAGTTTGACAGCCGTGATGT
Band lengths:
344-887
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]