BtaINT0010512 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101316096-101317387:+
Coord C1 exon
chr5:101316096-101316238
Coord A exon
chr5:101316239-101317237
Coord C2 exon
chr5:101317238-101317387
Length
999 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTTGTCCCCAATTCCACAGGTG
3' ss Score
10.32
Exon sequences
Seq C1 exon
TGCAAGGCCATTTTTCCATGTCAGTCCCCGTGGAGTCAGACATTGCTCCTGTCGCTAGGCTGCTCATCTATGCCATTTTACCTGATGGAGAAGTGGTAGGGGATTCTGCAAGATATGAAATTGAACACTGTCTGGCCAACAAG
Seq A exon
GTGAGTGTTTCATATGGTAAAATTTTCAACATTTAAAACTAGAAGTTACTATCACTATCAATTATTTTCTACACTTGCGCATTGGGGTCAAAGGGGTTAAATGAATTCTCCAGAAATTTTCAGCAAGGTAATGGCAGATCACACTAAGAAGCCACGTCAAGAGAAAAACAAATATCATATATTAACACATATTTTTGAAATCTAGGAAAATGGTACAGATGAACTATTTGCAGGGCAAGAATAGAGATTTGCAGATGTAGAGGACAGATGTGTGAACAAGGAGGGGGTAATGAGGGTGGGATGAATTGGGAGATTAGGATTGATGTATACGCACTAGCATGTGTAAAACAGATAGTGGGAAGCTTCTGTAAGGTACAGAGAGCTCAGCTTGGTGCTCTGTGATGACCAGGATGGGTGTTGGAGGAGGAGGATGGGAGGGAGGTACACGAGGGAAGGGATATATGTATACATATAGGTGATTCACTTCATTGCACAACAGACTCTAACACAACATTGTAAAGGAACTATACCACAATTTAAAAAAAGAAAGAAAGAAGCCATGTCACTTGACTCCTAGCACAAAATCCCCATGCATTATCTCTTACCCAGTTCACAGTACCTTGTTCCCTTCTTTTATGGTGAAGTGTTGGGAAATATGCAACCAAGTTTTAAGACTACAAAAGAGCCAAAGAAAAATACAAGAGTGTCTAGAACCATTTGCATTCTAGCCACAGTTAATGAACACCTCATCATGTATCAAAGGTGGACAGTGGAGTCTCAAATTTAATAACTTATAAAAATAGATATCACTATAATGGCTCAACTGATGAATATCAGAGTGACACATAGGGAATCAAAGGCCTCAAGACTCACGTGGCGCCAAACATCAACAAAGTCAAAGTGATTTTGCACCAAATTTGAGGAACAGCCAGGAAAGGCTGGTGAATCCATGGATCAATCAGGAAATTTCTTCTTCTGACTTTGTCCCCAATTCCACAG
Seq C2 exon
GTGGGTTTGAACTTCAGCCCCGGACAAAGTTTCCCGGCCTCCCAGGCCCACCTTCGAGTCACCGCTTCCCCTCAGTCCCTCTGCGCCCTCCGCGCCGTGGACCAAAGTGTGCTGCTCATGAGGCCCGAAGCTGAGCTCTCAGCAGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:14
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=0.020
Domain overlap (PFAM):
C1:
PF077039=A2M_N_2=FE(31.5=100)
A:
NA
C2:
PF077039=A2M_N_2=PD(26.2=78.0)
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:
TGCAAGGCCATTTTTCCATGT
R:
CGTGGCTGCTGAGAGCTCA
Band lengths:
293-1292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]