BtaINT0010552 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101521189-101522484:-
Coord C1 exon
chr5:101522367-101522484
Coord A exon
chr5:101521418-101522366
Coord C2 exon
chr5:101521189-101521417
Length
949 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
GAATTCTTGTGTTCTCACAGCTA
3' ss Score
7.78
Exon sequences
Seq C1 exon
TGAATGAAGCTCGTCCAATGGCTTTCAAGCCAGCTCCATTCCAGCCAGTTCAGCCGGAAGAGTCTCAGGTTCGCCAGTACTTTCCAGAGACTTGGCTGTGGGATCTGTTTCCTGTTGG
Seq A exon
GTAAGTGATACCTCAAAGGTATAACAAGATTATATATATACAGTGTGGAGTCAGGAGAGAGCCCAGACTCAGATAATTGTTTTAAATTAATTAATTTGACTGTACTGGGTCTTAGTTGTGGCATGTGGGCCCTTTAGTTGCAAAATGTGGGATCTAGTTCCCTGACCAGGGATCAAAACCAGACTACCTGCATTTCGAGCTAGACTTTTAGCCACTGGACCACCAGGGAAATCCCAGACTCAGATAATTTCTAATGAACCCAAGTCTCAAGCCAGAGAATAGTAAGGAAAGATAAGAAAGCCTTCTTAAGTGAACAATGCAAAGAAATGGAGGAAAGCAATAGAATGGGAAAGACTAGAGATCTCTTCAAGAAAACTGGAGATACCAAGGGAACATTTCACACAAAGATGGGCACAATAAAGGACAGAAAGAGCAAGGACCTAACAGAAGCAGAAGAGATAAAGCAGAGGTGGCAAGAATAAACAGAAGTCTCAAGCCAAGAAGGTTTAATGGAAATATGAGAACGTTTTTCTTCCTCTGGATTCTTAAACAATTGTAAACGATCATTCAAAACAAATCCACACATCTTCACATTTGTGCAGTGCAGACAGGGCAGGGCCACACCAACAGAAAGGCACATCTTGATGTTAGTTTGGTTTGTGCTCACTCCTTTCCTGCTTGTCCTGACAAACCATAAGGATGAATATTCTCACAGATTCGGAGGGCACTGGGCTGTCTTACAGATATGTTTACACACATACCGCCTCCCCCAATCCTCAGACACACACTTTTCCCATACTTGTACAGCCTCACCTGAAGACTCACAGTCTGAGATTCACTTAGGCCTCCAGTCCAGTTGCTTCCCTCCCACCCCACCCGCCATGCACAAGAGCAACAAAATATTCATTTCTGCAGGCGAATTTGTAGCTGAATTCTTGTGTTCTCACAG
Seq C2 exon
CTACTCGGGAGAGGAGTCTGTCCACATCACGGTTCCTGACACCATCACCACGTGGAAGGCCATGACTTTCTGCACCTCCCAGTCCAAGGGTTTTGGCCTCTCACCCACCGTTGGAGTGACTGCCTTCAAGCCGTTCTTTGTTGATCTGACGCTCCCTTACTCAGTGGTTCGTGGTGAATCCTTCCGTCTGACTGCCACCATCTTCAATTACCTGAAGAAGTGCATCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:18
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=PU(9.9=22.5)
A:
NA
C2:
PF0020717=A2M=FE(83.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGCTCGTCCAATGGCTTT
R:
CTGATGCACTTCTTCAGGTAATTGA
Band lengths:
342-1291
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]