BtaINT0026372 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021077 | BOLA-DQB
Description
Bos taurus major histocompatibility complex, class II, DQ beta (BOLA-DQB), mRNA. [Source:RefSeq mRNA;Acc:NM_001012676]
Coordinates
chr23:25385435-25388620:+
Coord C1 exon
chr23:25385435-25385545
Coord A exon
chr23:25385546-25388089
Coord C2 exon
chr23:25388090-25388620
Length
2544 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
GATCACTCTCTCTTCTACAGGGC
3' ss Score
10.38
Exon sequences
Seq C1 exon
GGGCTCAGTCTGAATCTGCCCAGAGCAAGATGCTGAGTGGTGTTGGTGGCTTTGTTCTGGGCCTGATCTTCCTTGGTCTGGGCCTCATCGTCCGTCGCAGGAGTCAGAAGG
Seq A exon
GTAAGGAACTCTGGGGAAATGGGAAGATGAGCTGTGACTGAGACCTCTGTTCAGGGAGGCTTCTGTCTCTAGATGTAGCTCTTTCCTCCTGACATTGAAAGGAAAGAGGTGAGACTGGTGGTGGGAGGAAATGGAACAATCTAGGGAGACATTGGAGTCTGATTTTACTGGTTGAAAGGTAGCCCTGCCACAGAGGTGACAGGTTGAATTTATTTTAGGGGTTCCTTATAATTCATCTTTGTCTCAGGGGCACCTTTCCAAGAGCTTCCTCCATTAAGAGGGTCAGAGCATTTCTTCCTTTCCTTCTAGCAACAGTTTCATTCATTTGGGGGGATTTTAGCTTAGATCAGTTAGTGACCTCTGTCTCTAGATATAGTTCTTTATTTTTTGGGGCTCTAAAATCACTGCAGACAGTGACTGCAGCCAAGTCTTTCTTCCAAAGATGCTTGCTCCTTGGAAGAAAAGGTATGGCAAACCTAAATAGCGTATTAAAAAGCAGAGACATCACTTTGCCAACAAAGATCTGTCAAGTCAAAGCTATGGTTTTTCCAGTAGTACAGATGTGAGAGCTGAACCATAAAAAAGGCTGAGCACTAAAGAGCTGATGCTTTCAAACTGAGGTACTGGAGGACTCTTGAGAGTCCCCTGGACAGCAAGGAAATCAAACCAGTCAATCTTCAATGAAATCAATCCTGAATATTCATTGAAAAGACTGACGCTGAAGCTGAAGCTCCAGTACTTTGGCCACCTGATGGGAAGAGCCGACTCACTGGAAATGACACTGATGCTGGGAAAGATTGAAGGCAGGAAGAGAAGGGGATTGGAGAGGATGAGATGGTGGGATGGCATCACTGATTTGATGGACATGCATGAGTTTGAGCTAACTCTGGGAAATAGTGAAGGACAGGGAAGCCTGGTGTGCTGCAGTCCATGGGGTCACAAAGAGTTGGACATGACTGAGAGACTGAACAGCAGTTAGTGCATTGTGGCCAATGCATATAGAGGAAATATATTTCCCATTAAGTTGTGTATCCCATTTCCCTTTAGGGTGAGTGAGGCACTGGCTATTTGCATTATGAGACCTTTTGTAGGAGCTTTTGTAGTGGGCCTCTGCACCAGGTGCTATATTTCTGCTCTGTGTCATTGGAGGTTATGGGAACAGGTAAAAAAGAAAAGGGGTGCAAAGTGAGTGTGACTGACCACAGTGGCCTCATTCATGCCTTATTTCCCATTATGGTGATAGCATACGGTGAACGATGTCAGATTTGTGATGTCCGAAGAAGACTTAGCTCAGGATCAGGGACCAGGCTTGATCACTCAAGAGCTTTTGTGTGACAGTTTTATTACAGTGAAAAAGGACAGAGAATGCTTCTGATATAGACATCAGAAGGAGGATGGAGAATGCCTCCCTCACTAGTCTTATCAGGGCCTTACATACTTTTACCAGACCCGCTCCCACAACATATATCTTAAATTAACAAGATCAGAACTAACAATAGAAAGGTATTACCAGACCCACTCCCACAACCGAAGAACTGATGCTTTCGAACTGCAGTGCTGGAGAAGACTCTTGAGAGTCCCTTGGACAGCAAGGAGATCAAACCAGTCAATCTTAAATGAAATCAATCCTGAATATTCATTGGAAGGACTGATGCTGAAGTTCCAGTACCGTGGCCACCTGCTGGATGGGAAGAGCTGACTCACTTGAAACGACACTGAGGCTGGGAAAGACTGAAGGCAGGAAGAGAAGGGGATGACAGAGGATGAGATGGTTCTTATCTTAAGATAACAAGATTAGCCAGAACATGTCCTTGAGCAAGATACATTGTTGTTATATAATCATTGGTACAGAATTTAAAGAAAGACAAACCCTTTGAGCAAGAGGAATTGTTTTGTTGTGTGATCATTAGCTCTGGGCTTAAAGAAAATGACTTATGTGTCTAAGACAAAGCAATGTTGGAAAAAACATCTGTCCTTTTCTCCTCCTTGAGAGCCCCAGACCCATTTCTCCTCCTGACGGCCCCAGACTCCTTATCAATCTACCTAAGAATTAACTCTCTCAATGGGATCAAGAGTTAGGGGAAAGAGATTACCCAGTTTCTGTCAGAAGCTCCTGAAGTTGTTCCCCAGAACCGGACCACAGCTTTGGTGGCATCTTTCTGTGAAACTTGGAACCACATCTTGGTTGTAGACAGCAGGCACCCACTTTGTGCCACATGTTGGTGGCTACTGCCTGTGGACATTTATAGTGACTGATATAAGCTACTAGTGGTGGAAAGCAAGTGATTTATCATTAAATTTACTAAAAAGATTGATATCTTTGTATCTCCCAGAAGAATAACAGCTACTCCACAGCTTCCCACGCATCTGTGTCAGGCTGGAGTGCTATGTCCTTTTGAGCAGATTCAGCTTTACAAGGATGTTAGGGGAGGTGCTGATGACATGCCCCAGAGTTCAGCTTTCTCTGATACTGCAGGGATCTGAGAGGAGGTGAGGGAGGGTAGTCTCTCAGGGTGCTGTGTGTGATCACTCTCTCTTCTACAG
Seq C2 exon
GGCTCATGCACTGACTCCTGAGGATGCTTTGATGGGGATTGGTTTTGCTCTTCTGTAATAGCTGCCTGTTCTTGTCCAGAATTCTCAGCTGCCTGCCATCCTGTTCCACTGAGATCAGGTCCTACAGTGACTCTGACGCAGTCATCAGGTCACTTCCTGTGACCCCTGCCTCAAGGATCTGGCTGCTTCTTGCACTGACCCCTGAAGCCTCTTCTAGCTGCATCTACTCAGACCCCAAGAGTTTTTCTGTTTCCATTTTTCCAGAGCAGACTGTGGGAGAGAAGCACATTGAAACCATTTGCCTGGCTATAGAATTTTTTTATCATGATTAAACATGATTATGAGTTACCTGTATTCTTAAGCTCCTTAAATGCATGGAGGTAGGGAACCACTGCAGAATGAAGGAACACATTTTGAGGTGACCCAGACAATTGGCAACTAGAAGGAGAAGTTATTCCCTGAAGGATACTAGAAGCATCATGGTGTGCCATGTAAGCATGGATAGAAGAGAAATAAAATCAATTTTTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021077:ENSBTAT00000046279:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
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]