BtaINT0010560 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101512642-101513656:-
Coord C1 exon
chr5:101513575-101513656
Coord A exon
chr5:101512799-101513574
Coord C2 exon
chr5:101512642-101512798
Length
776 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
TTTCCCTCTTTACCATATAGGCT
3' ss Score
9.82
Exon sequences
Seq C1 exon
GGTACCAGAGGGAACTGATGTACAAACACAGTAATGGCTCCTACAGTGCCTTTGGGGAGCAAGATGGAAATGGAAACACATG
Seq A exon
GTAATGTTGCCCAATTCCCAGTGAGTTCTGCTCCTCAGAGCATAATTCCAGAACCCTTTGGAATTATTCCTCTATCCTCCCCTGCACCCCATTCTTGCTTTCTATCCTTTACCACTTAAACATATTTTAAAAATAAATTTTATTTTTTTATTTATGGCCGTGTTGGGTTTCTGTTGCTCTGTGGGCATTCTCTAGTTTTGGTGTGTGGGGTTTCTCTTGTTGTGGTGTGTGGGTTTCTCTTGTGAAGCACAGGCTCTAGGTGTGGGCTCAGCAGCTGTGGTACATGGGCCTTAGTTGCACTGTGGCATGAGGAATCTTCCTGGACCAGGGATGGAACCCATGTCCCCTGCATTGGCAAGTGGATTCTTATCTGCTGTGCCACCAGGGAAGTCCTCCTCTATCACTTTAATACTATTTATTTCAGCTTCATGTATGGTCAAACCCCTTACCCTTCTCCCCCACCTTGAACCTACCAGTTCTTGTCCCCACGAAGGCCAAGTAAGGCCTCCCTTTTCCAGGCTTACTATGGCATTATGTTTCCTCAACTCCTCTTCTGGAACCACACACCAGAACAAGCTGTAGAACTGTCACACACCCTGGAGGAGGAAATGGCAACCCACTCTAGTATTCTTGCCTGGAGAATCCCATGGACAGTGGAGCCTTGTGGGCTATAGTCCATGGGGTGGTGAAGAGTCGGACACTACTGAATCAACTTAACACATTGAACCCTCACCTAGAAATCTGCCTTAATGTGCATTTCCCTCTTTACCATATAG
Seq C2 exon
GCTGACAGCCTTTGTCACCAAATGCTTTGGCCAGGCTCGGCAATTCATCTTCATTGACGACAAGAACATCCAGGATGCTCTTGAGTGGATGGCAGGAAACCAGCTCTCCAGTGGCTGCTACGACAACGTGGGAAAGCTCCTTCAAACATCTATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:25
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:
PF076789=A2M_comp=FE(16.2=100)
A:
NA
C2:
PF076789=A2M_comp=FE(31.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCAGAGGGAACTGATGT
R:
TTCATAGATGTTTGAAGGAGCTTTCC
Band lengths:
238-1014
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]