BtaINT0010508 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018137 | A2M
Description
Bos taurus alpha-2-macroglobulin (A2M), mRNA. [Source:RefSeq mRNA;Acc:NM_001109795]
Coordinates
chr5:101309858-101312312:+
Coord C1 exon
chr5:101309858-101309967
Coord A exon
chr5:101309968-101312150
Coord C2 exon
chr5:101312151-101312312
Length
2183 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
CTACAGCTTTTAATCTTCAGGTG
3' ss Score
6.74
Exon sequences
Seq C1 exon
AGGTGGAATTAACTGGAAAGGGGGCCACTGAAATAACAACAACCATCACCAAACTCTCATTTGTCACAGTGGACTCAAACCTTAGACGAGGAATTCCTTTCACGGGGAAG
Seq A exon
GTGAAGTATTTTTCAATTCATGTGTCAAACCATAGTCTCCCCCAATACACACAACATATTCTGCTAAAACCACATTTGGCTGGTATTATCCATTGATTAGTATAATCAAAAGCATGTGCGTGTGTGCTCAGTTGTGTCCAATTCTTTGCGACCCTATGGACTGTAACCTGCCAGGCTCCTCTCTCCATGGGGATTCTCCAGACAAGAATACTGGAGTGGATTGCCATGCCCTCCTCCATGGGATCTTCCCAACCCAGGGATTGAACCTACATCTCTTATGCCTCCTGCACTGGCAGGGGGGTTCTTTACCACTAGCACCACCTGGGAAGCCCCTAGTCAAAGGTATAAAACTGCATAAAATAGATTTGTTCCTCGGTAAATTTGTATATCAAATCTATAAAAACCATGCTAAAATTAGAAGGTTTTTAAAACAGCCCTGTGTGTTACCATTCAAACTCTTTCCCATGGCTTACCATACAGTCTCAGATTTTTATATTTTTCCATAAGCATCTCAAAATTCATGCTGGCCAATTACATTATCTTTCCAACATTAATTTTGTATGGAAATGATGGATAGGTGGCTTTTATTTTTATTTTGAAATATAAGAGGTTCTACTGTTTTCCGATGGCTCAGCCGGTAAAGAATCCACCTGCAATGCAGAAGGAGATCGGGGTTAGATTTCTGAGTCAGGAAGATTCCCTGGAGGAGAAAATGACAACCCACTCCAGTATTCTTGCCTAGAGAATCCCATGAACAGAGGAGCCTGCCAGGCTACAGTCCATGGAGTTGCAAAGAGTTGGACATGACTGAGCACATGGCAATCACTGTACCTGTTGTTTCTTTCATGGATTTTGTATTTATATTACTCTTTCTATAATAGCAAGTATATTTTAAAAACACTACATAGAGGGGTAAAATACTGCTATTTAAGGTTTACCCTTCCAGGTGGTGCCAGTGGTAAAGAATCTACCTGCCAATGTAGGAGATGCAAGAGACCCAGGTTCAATCCCTGGGTTGGGAAGATCCCCTGGAGTTATGAAATATTATAAAATATTTGCTTAGGTGGCTCAGAAGATAAAGCATCTGCCTGCAATGCAAGAGATCCGGGTTCGATCTCTGGATCAGGAATATACTCTGGAGAAGAGAATGGCAACCCACTCCAGTATTCTTGCCTAGAGAATTTCATGGACAGAGGAGCCTGGCGGGCTACAATCAATGGGGTTGCAAAGAGTCAGACATGACTGAGTGACTAATACTTTAACTTTCACCAGATTTTAAAGATACAAATTCTTTCTCTCAAATCTACAAAAAAAAAAAAAAAACTTCTCCTGTTATTTTTCTATTATATGTAAAAATACTAATGGAGTTTTCAGACTACGGAAGTCTAAGATGACAGTCATATGTACCTACAAGTATAATCACCATGCATCTCGTCTTCAATAGAAACGTTGTGTCAGCTGTGGAGAGTGTAAAAAACAGAAGGATCAGGCTATAGAGGAGTGGTGGAATAAATTTTAGAATGTTTTGATTTTGTTATGACAGCACACATGTTCAGAAACTTTGGTCACTTCCTAAAATGAAAGTTCACTTTTTCAGATTTCTCAGAGATATATTGTACTTTTTGAGATTTTATTCCTGCTAAATAACTATCCCATTAGTCCCATTTCTAATCAAAAGGGAAAGAATTTTGGTGTTCTGGTCTTCATACATGCAACTGACATTTCATTGGCAAACTCAGATTTTGTTGAAATTGAAAGTGTTAGTTTCTCAGTCGTGTATGACTCTGTGACCCCATGGACTATAGTGCACCAGGCTCCTTTGTCCATGGAGTTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATTTTCTTCTCCAGGGGATCTTCCTGACCCAGGAATCGAACCCACGTCTTCTTCATTAGCAGGCGGGCTGTTTGCCACTGAACCACCAGGGAAGCCTAGCTACCAGGGAAACCCATTACTTACACATTTATTTAGCAGCTATCTCTTTTCCTGGACTGGATGCTCAAAGACAGAAGGAACTTTGTTTTGTTCACTGCTGTAGCCTCAATGCCTGGAACCACCTTCAACATATTGGACACAATAAATATCTGTGCTAAAATGAATGTTTGCTGCCTATTGGATATTAGCCACAAAACTGATCTACAGCTTTTAATCTTCAG
Seq C2 exon
GTGCTCCTAGTGGACGGGAAAGGTGTCCCCATGCCAAATAAAGTCATCTTCATCACAGCAAATGAAGCCAACCACAACTCTAACACCACCACTGATGAGCACGGCCTGGCACAGTTCTCCATCACCACCACCAAAATCAAGGGCACCTCCCTCAGTATCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018137:ENSBTAT00000006167:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.259
Domain overlap (PFAM):
C1:
PF0236911=Big_1=PU(34.0=86.5)
A:
NA
C2:
PF0236911=Big_1=FE(56.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]