BtaINT0010517 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101324075-101325220:+
Coord C1 exon
chr5:101324075-101324303
Coord A exon
chr5:101324304-101325096
Coord C2 exon
chr5:101325097-101325220
Length
793 bp
Sequences
Splice sites
5' ss Seq
CGGGTAATG
5' ss Score
6.86
3' ss Seq
TATCTCACCCATGGTTTCAGGTC
3' ss Score
7.6
Exon sequences
Seq C1 exon
CTCTTCAGGTGTGCATGAAGTAGAAGTAACAGTCCCTGATACCATCACTGAATGGAAGGCAGGGGCCCTCTGCCTGTCCAGAGACACTGGACTTGGTCTCTCTCCGACCGCCTCTCTCCGAGTCTTCCAGCCCTTCTTTGTGGAGCTTACAATGCCCTACTCTGTGATCCGTGGAGAGGCCTTCACACTCAAGGCCACAGTGTTAAACTACCTTCCCAAATGCATCCGG
Seq A exon
GTAATGACCTCTCTTTCTTAAATTGAACACAGGATAACCATCCAATAAATTAAAAACTGCATTCCTGGGAATATTGACAAACTTCCTATTTATAAGATGGGCTCACCAGGAGAGAATACTGTCAGAAATATTCAGGTATTATATGACCGCAGTTTTTGATAGCTCCAAATACCAAATGACAATGTAAGACAAGGTTCTGACCTTATCATAATCCTCATGTCTTCTGTTCTCAAAGATTTCAACCTATGCATTCCTATATATTAATATTTAACTTTTCATATATGATTAATTATATTAAACTTAATTTTTAAATCTCACCATAACTGTTTATAAATCTTATATACTCTGCTGGGAGACCTGAAGGTGTGGTTGAGATCCTAAGCCAAGAGAGTGGGAAGGAGGTTCAGGAGGAAGGGGATTCCACTTAAGGCTCATTCACATTGTTGTACGGCAGAAACTAACACAACACTGTAAAACAATTATCCTCCAATTAAAAATAAATTTTTAAAAAAAATCCTAAGCCAAAGGAGTAGAGCTTCCACAGGCAACAAACCTACTATCATGACTTTTCTTCAACTCTGCTCCTACCACGTGAAAGAGCAGATTACTCCTAAATACTAAGATTTAGGTGTCAGATCCACCCATAAGATGCACAGTCCTCATTTATATTATCTTCAGTGTTAGGCAACCTGAAATCTACTTAATCCCCCAATGTGCTTTATTTTAAGCCATTCCCTCTTTGGTTCCCTTTTCCTCTGGTTCATTTGTCTCTTTATCTCACCCATGGTTTCAG
Seq C2 exon
GTCAGTGTGCAACTAGAAGCCTCTCCTGCATTCCTAGCTGTTCCAGAAAAGGAACAAGAGACTTATTGCATCTGTGGGAATGGCCGGCAGACTGTGTCCTGGGCGGTAACTCCAAAGTCCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:19
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=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGTGTGCATGAAGTAGAAGT
R:
GACTTTGGAGTTACCGCCCAG
Band lengths:
344-1137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]