BtaINT0010525 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101331521-101332928:+
Coord C1 exon
chr5:101331521-101331608
Coord A exon
chr5:101331609-101332771
Coord C2 exon
chr5:101332772-101332928
Length
1163 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
3' ss Seq
CCACTTCCTCTCCCCCACAGGCT
3' ss Score
11.54
Exon sequences
Seq C1 exon
GTTACCAGAGACAGCTGCTCTACAAGCACTTCGATGGCTCTTACAGCACCTTTGGGGAGCATCGTGGCAACAGTGAGGGCAATACTTG
Seq A exon
GTAAGGGAAAGAAAGCTTTTTCAAGCTTCTATTTTTGTGTCAGCTCTCTTACATATATAATCAAAATTATATTCCCAGTAACCCTATCAGATATTATCATTAAGCCTATAGTTATACTGGATAAATATACAAGACTAGCAAGGCAACAAGCAAAAAAGCTGAGATTTGAATACACATATGTTAGACTTGTCCCCAGAATTCATCCTGTTCATAATACACCAAGGTATTCTTTCTGAAATAGCTATTTTTTTAAAACAGCCTCCATAACCATGACTTTTTAAATGAGATAGCCAGTGACCATATCACATAACTTCCAAATAAACTGTGTTAACTTCAGATTATGTTTTTTAGATCAGATTCATTTTGATCACTAGCGAACTAATAGTGAGGAAAGAAATGAGATGGTCCCAGTGATATCAAACATTATTTTAAAATCCCTAAGGTAGGAACATCCCCAGTGGTCCAGAGGTGAAGACTGCCTTCTAACACAGGCAGTGTAGGTTCGATCTCTGGTTGGGCAGCTAAGATCCCACAAGCCTTATAAAACAGAAGCAATATTGTAACAAACTCAATAAAGACCTTTAAAATGGCCCACATCAAAAAAAAATCAAAAAAAGAGATACCTCAGGCAAAACAGTGTCAAAAGGTACCACATGTAAGAGCTGTATATGAGAAAATTCTACCATCTACAAAGGAAAATCACTAAAGATTTAAAGCCTTAATCAAACAGAAAAAAAAAAAGAAGTAACATTAGGAGTACAGCTGACCCTTGAAAAACATGCAGGTTATGGGTGCTGACCTTCAGCAGTAGAAAATTCTACACTGTCACTCTACAGTTGGCCCTCTGTAACCCAGTTGTCCATCCACAGATTCAACCAAATGGGGATCATGTAGTACTGCAGTACATATTTGTTAAAAAAACAAACAAAAAAACCATTGAGTAAGTGGACTCATGCAGTTCAAACCATGTTGTTCAAGAGTCAACCGTACTAAATCCAGCAGATTCATCAAGTAAAGGCAATGGAAGCTCTGAGTACACGAGTATGTCTATTAGATGACTCACATCAGTGTATGAGACGTGTCCTGTGCAGGCTGCTGCTGTGAAGTGGTTATGAAACCACTGTACCAACATAGATGTGATCACCACTTCCTCTCCCCCACAG
Seq C2 exon
GCTCACGGCCTTTGTACTGAAGAGTTTTGCCCAGGCTCGAGGCTATATCTTCATTGATGAAGCACATATTACTGAAGCTCTCACCTGGCTGGCCCAAAAGCAAAAGAGCAATGGCTGTTTCAGGAGTACTGGGACTCTGCTTAACAATGCCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:26
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(11.3=100)
A:
NA
C2:
PF076789=A2M_comp=FE(20.2=100)
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:
ACCAGAGACAGCTGCTCTACA
R:
ATGGCATTGTTAAGCAGAGTCCC
Band lengths:
238-1401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]