BtaINT0072262 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001252 | HIVEP1
Description
human immunodeficiency virus type I enhancer binding protein 1 [Source:HGNC Symbol;Acc:HGNC:4920]
Coordinates
chr23:44140196-44142606:-
Coord C1 exon
chr23:44142113-44142606
Coord A exon
chr23:44140559-44142112
Coord C2 exon
chr23:44140196-44140558
Length
1554 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
GATTCCGTCTTGTCTTTCAGGGC
3' ss Score
11.49
Exon sequences
Seq C1 exon
ACGAGAAACAGAGGTTCAGTTTTGAGAGGTCTGGATACGACCCGGAGGAATCCGACGGCGCCGAGGACGACGACATCGAGAACGAGGAGGAGGACGAGGACAGCCAGGCCGAGTCGGTGCTGTCGGCCGCGCCCTCCGCCGCCGCCAGCCCACAGCATCTGCCGGCCAGGGGCGGCCCTGGGGACCCCACGGGTGCGGACGAGGATGCCAGCGCCCCCGAGGGTTCTCCTGGGGGGCCCACGGACGCGATGGACGTGCTGCCAAGGGCACTGCCCACGAAGATGACGGTGCTGAGCGCGCTGCCGTCCGACCGCGGCGGGAGCCCGGGGTCCCCTGGCAGCGCCGGGCCGCGGGCAGCGGGCAATGCGGAGGCAGCCGCTCGCCCACCCGAGGGGGCGCCCAGGTCCCCGTGTCACCAGATGTCTGTGGACTACCCCAACCCCAAGGAGATGCTGAGCGGCTCTGCAGCAGGAAAGGCTGTGGCTTTAACGCAG
Seq A exon
GTAATGGATCCGTAGCCGTTTTCCTTTTGACTTCAGGAGTAAATGTACTGAAATCGCTCATTTGTAGCTAGATCAGTTTTTTTTTTTCTTTTAAACCTTATTTTCTTTTGATTTAAGGCTAAAGGACATTTATGCCTTTTGGATTCGTGTTATGTATATTAGTCAGAGTTCATCTATTGTATTATAAATCTGTAAAAGAACCAAGTAGATCTTTGCAGTATGCTCATTTACTACTATTTGGTTTTTTATAAATATCTTGGAATAAAAAATATTTGTGTGCCAATGGAGAATATGTCTCGAGACCTCCATTGGAAAATGGCTTCCTCTGAGATGATCTTCCACTGGCATTGATATGATGGATTTGCACTAATTATCCAAAGGGTTTGTATGTTACCCTTATTGACAAGGCAGCTACCAGTTTGACACCCCCACCCCTCCCACCCAAAAGAAAAAAAGTATTAAGAAGTTCACTTTGCTTGAATCAGCAAATTGCTGTCACCACTTAGGAAAGCTTCCTGCCCAAGAACTACCTCAGAACCAGACTCAGGAAAGTCACCCTCCATGCCAGCAGTGAATGACATCCTGCTTTTACACACCCTGGCAGGCTCCTGAGAAATCTGTTTTCTCTCATGGACAGTTCTCTTACCTCTGGGATGAACTGAGGATCACCATAGCATTTATTTCTAAATGTGGCAGATTTTGGTTTGCTGGGTAACACTAGAGAAAACTCGGAAGACTATGAAAGCTTAAATTACTAGAGCCTATCCTACGTTAATATTATTTAATTAAATTACATTCATATTTAAGTAGCATTAATATTTAAATTAGTATATACATTAATGGAGTTCTGTAATGAGGACATATCAAGAAAAAGTGAATATTTAGATGATAATCCTGGGTGGGAAAATTGGCAGGATTTACTCCTACTGTTTCGTTCTTTTCCTATTAGTCACCTGTGCTCTAAGCTTCTGCCCCTAAGTCTCTCACACACTTACCGGTCGGTGTCTGGAGATCCGGTTTTCAGTAGACATTTCATCCACTTAGAATAAATGAACAAATGAAAACTGCAGACCTCTTCGTTAATGGAAGCTCTCTATTTCATAAATGAGTAGTCCTCCAGTTAATTTCCCCCCTCTGAGTCCATACTCATGGCCAACTAAGATCTCAGAATTTCTCAGTAATTCCAAATCTCTAAACTAGGGTGGAGCTAGAGGTGCCAGCAATAATAATAGCAGTGGAAGAAGATAATTATGGCCGCCTCTCAGGGTTAATTTTGTATAAATGAGATGATATCCAGGAAATCTGTGTGAAAATTAAGTACTATACAGAATCTGTGGCGGTTATTTATTCTAGAAAATAAAGAGCTTAAAGGGTGTAATAGGAATTTTGCTTTTAAAATCAACATACCAACATTTAGCAAGCTTATTTTTATGAAATCGTTGTTACACACTTTTACCTCAGGACAGAAGAGACTTTTTACAAGAGCTAAAACTTTTGCTCGGTGACTAATAAGGAAGCTGAGCCATGAAGAGATGATTCCGTCTTGTCTTTCAG
Seq C2 exon
GGCGCGCCATGCCTGAGCCTTCCTCCTCCCCCGGCGTCTGAGCGCAGCCCTCAGCCGGGAGGGGCTCCTCCGTCCACCTCGCCTCGGCCCGGCCCTCAAGAGCAGAAGCCGCAAGCCGCCCTGCCTCCGCCCGCAGGCCTGCCTTCTCCGCAGACGCACCTGTTCAGCCACCTGCCTCTGCATTCCCAGCAGCAGTCGAGGACACCCTATAACATGGTTCCGGTCGGGGGGATCCAGGTGGTCCCCGCCGGCCTTACTTACTCCACCTTCGTCCCCATCCAGGCCGGGCCAGTGCAGCTCACTATCCCGGCTGTCAACGTCATCCACAGACCACTGGGCACCCCGGGGGACTTAAGCGCGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001252:ENSBTAT00000001655:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.719
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACCCCAACCCCAAGGAGAT
R:
GATGGGGACGAAGGTGGAGTA
Band lengths:
343-1897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]