BtaINT0010564 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101542895-101543824:-
Coord C1 exon
chr5:101543662-101543824
Coord A exon
chr5:101542948-101543661
Coord C2 exon
chr5:101542895-101542947
Length
714 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TGACGCCCATTTCCTTCTAGTGC
3' ss Score
8.65
Exon sequences
Seq C1 exon
GTACCACTTCCTTCTGGTGGCACAGAAGAAGTAGCCACCGTCCGGGTGAGAGGAATTGGACATAATGTCTACTTTGAGGAGAAGAAAAAGGTTCTGATTCAGAGGCAGCAGAATGGCATCTTTATACAAACTGACAAACCTGTCTACAGCCCAGGGCAGGAAG
Seq A exon
GTAAGAGGCACACAGGTGGGATGAGACAAAAGCCAGGGAGTATCTTCACACATTCTTAGAGGGGCTTTGCAGATTGGTGGTAGCCCCATGGACCAAGGAAAGAGATGGAGGGATGGAGGAAGCCTGGAGGGATAAACGGTTATAGATGCTGCATGCAGGCAGTGCTGTACAAGCAAGAGTAGTGGGTGGAGCTGCTACTGTGTGTGTGTGTAAAACAAAATACAGGGAATTCCCTGGCAGTCTAGTGGTTAAGACTCTGCATTCTCACTACGGTGGGTCCAGGTTCAATCCCTGGCTGGAGAACTAAGATCCTACAAGACCCACTGCATGGCCAAAAAATTCCCAGTAAATAAGTAAAACAAAATACAGATTTCTCCTGGAAAGGAATTTGGTGGGTGTAACTGAATCGCTTGGTCTCATAGCAAGCTGCCTGTGTAAGAATCAGAAAACAGTCAAGGGCATTTGGCCCAAGCCCTAGGATTTATATTTGCTCCCTCTTCTTTGAAGCAGATTCCATCCTGAACTTTCAAAGTCAGGAGCCGTGACTGTTGGGGTGTTAGCTGTCTCTCAGACTCGGTTTTATTTCAAAAGTAAAACCTGGTAGGATTTTGCTGACTCAGAAGTATGTATGAGGAAGCAAAAAGGTGGAAAAAAGAAAGATTCTGAGGTGGGGGGTGGAAAGCTCTTTTGCTAATGACGCCCATTTCCTTCTAG
Seq C2 exon
TGCATTTCCGTATTGTCACCCTCACCAGCGCCTTTGTTCCAGTGAACGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:3
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=PU(13.8=29.1)
A:
NA
C2:
PF0183514=A2M_N=FE(14.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
CCACTTCCTTCTGGTGGCAC
R:
TTCACTGGAACAAAGGCGCTG
Band lengths:
206-920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]