BtaINT0010545 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004097 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr5:101529507-101531588:-
Coord C1 exon
chr5:101531421-101531588
Coord A exon
chr5:101529732-101531420
Coord C2 exon
chr5:101529507-101529731
Length
1689 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCTCTCTCTCTCTTTCTCAGGGA
3' ss Score
12.51
Exon sequences
Seq C1 exon
ATAAGAGTTAAGGGCCACGATGGCTCCCTCCTCAAGCATCATTCAGTGTATCTGGTGATTCATGGAGAAAATGGAGACATCAACCAGATCCTAACTACTGACAACAATGGCCTCGCTGCCTTCAATCTAGACACGGCTAATTGGAACGGGAAAAGTGTTTCTCTGGAG
Seq A exon
GTAAGCACTGGGAGTTCCCCTTTCCAGCACAGACCATCTGAAGGAAAACTTCAGAATGTCCTTGTTTCTCTCTCTGCCCTCCCGGTAAGTCCATCACCCCACTTAGTTACCAGTTCTGCCCTCCCCTCGATAGAAAGTTTTTCTTAGACACCACCATTTAAAATTCTCATCAAATAGATGACCCTTCAGATTAAAAAAAAAAATTGCTATTTCTATTAATTCATTTTATAACTTAACTGCCTCTCTATCTGGTTCTCTATTTGAAATCAGATTAGGGAGGAAAAAATGGTTCAGAATCATCTTCTTCCTCTTACTCCCCCTTTCCTTCTTCTTATTACTCATAAAAACAGCAAAGAGAATTCTAGATTTTGCACAACTTGAAAGGTTATTTGTACCACTTATCAATTGCTGCTTCACAAACAACTGCAGGGTAATTCCCTGGCTATCCCGTGGTTCGGACATGCTTTCACTGCTGAGGGTGACGGGTTCAATCCCTGATCTGGGAACTAAGAAACCAAAACAAAAAAAACCAAACTACAGAACTTCAGTGTTACACAACAGGAAGTATTTACTGGTCTTGTATCTGGGTAGTCTGATGGCGTCTCTGCCCATCTTGGTGGAGTTCCTTATGTCTGTGGACCAGGTGACTGTAGGCTTGTACTCCACAAGTCTCATGATCTGCGGAGACAGTACAGGTATACCAATGGTTCAGTGGGTAAAGAGTCCACCTGCAATGCAGAAGACACAGGGATGTAGGTTCGATCTCTGGGTCAGGAAGATTCCCCTGGAGGAGGATATAGCATCCCACTTCAGTATTCTTGCCTGAAAAATCCCATGGACAGAGAAGCCTTGGCGGGCTACAGTCCACAGGGTCTCAAAGAATTGGACATGACTGAGTGACTAAGCACATACCCATTCTCATGGCAGTGAAGAGATGCAAAAGCAAAAGACATGCAAGGACTTTTCTGAGCCTCTACTTAGCTCACATATTTGAATATCCATTCCCCAAAACAAGTCACCTGGTGGGTCCACAGTTAGACCAAAAGGGTCTATGATTCCCTGGTAGAGGATGTTGCTATGGGGAAGGAGGAAGAATTATAGCCCATAAGCAAATATGTACTATTTCTGTTGTGACTAATTTGCCTATTTCTGTACTCTAGGCATCACTCAATCACTCCTCTTAGAAACGATTATTTTCAGTCTTTTTTTGTATGTGTGACTGTTGGGCATGTAGGATCTAGTTCCCTGACCGGGGATCAAACCCATGCCCCCTGCATTGGAAGCATGAAGTCCTAACCACTGGACCACCAGGGTAGCCTGATATTGATTGATTGCTTTTCAGTCTTATTATCCTCTGTATCTAGTTTTCTTAGATTTGAGATACATTCTTTAATCTCTTAGTCAAACTTGTCTCTCCTTTGCATCAGTGTGTGAAGGTATATTATCGACAATTTTCTATTACCTGACAGCTATATATCAGCCCTTACTTTATACCCTGACATACCAAAATGTTGCTGCAAGTCACCACTATTATGGAGTCCTCAAACATTCTTGGTTGGACCTCTAGCGAAATATCTACACGCCACTGTTAGGGAGTACAGATTTGAGAATCACAACAGCCCTACCGGGTTGATATAGTTGGGGTACATGCCTTTAAAGGTCTTTTTTTTCTCTCTCTCTCTTTCTCAG
Seq C2 exon
GGAAGGTTCCAGTTGGTAGAAACACATGATCCAAAGCAAGTGCCTCGTTACTACCAAAATGCCTACCTGCACCTGCAGCCCTTCTACAACCCGACTCGCAGCTTCCTTGGCATCCGTCGACTGAGTGGCATCTTGGAATGTGGCCGGCCCCAGGAAGTGCTGGTGGATTACCACATCGATCCGGCTGATGCAAAGCCTGACCAGGAAATCACCTTCTCCTACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004097:ENSBTAT00000037825:11
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=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF077039=A2M_N_2=PU(26.2=52.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
AAGAGTTAAGGGCCACGATGG
R:
GCCGGATCGATGTGGTAATCC
Band lengths:
351-2040
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]