GgaINT0098562 @ galGal4
Intron Retention
Gene
ENSGALG00000011036 | HNRNPA2B1
Description
heterogeneous nuclear ribonucleoproteins A2/B1 [Source:RefSeq peptide;Acc:NP_001026156]
Coordinates
chr2:32320866-32322781:-
Coord C1 exon
chr2:32322635-32322781
Coord A exon
chr2:32321077-32322634
Coord C2 exon
chr2:32320866-32321076
Length
1558 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
TTGAAGAATTCTTTTAATAGGAA
3' ss Score
5.01
Exon sequences
Seq C1 exon
GTAATGCGGGATCCTGCAAGCAAAAGATCAAGGGGATTTGGTTTTGTAACATTCTCCTCAATGGCCGAAGTTGATGCAGCCATGGCTGCAAGACCTCACACAATTGATGGAAGGGTGGTGGAGCCTAAGAGAGCTGTGGCTAGAGAG
Seq A exon
GTAAACATGGGACTGAAAGCAGATACTTTTCATGCTCTGAGAGACTACTCTGTGTTTTGGTTATGCATTCTTCAAACTGTCCGTTATCTTGAAAGGGTGTGACTGGGACACTGTTTCCACATTTCTAGTCTGTTCATTGACTGTTATCGCTATAGTGGCTATATATTATTCTGGTTATGAATTATGTCTGCAAGAGACGCAAACTGAGGTCTGAAAGTATTCTTAGCTGAAATGTGTTGGATGTCTGTAATTAGGTAAATTATAGACCATCTTTTCTCTGGGATCATTATTGTTATTAGACCTCAAATTAATGGACTATTGTTAATCTTCTGAATATTTCTGTAAGCTCTGACAGAAGTGATAAAAAAGAGAGAACACGGTATTGGGAACTGTGCTTTTCTTCCAGTGGTGACAATCAAAATCAGCCTAAGACTATTCATGTTTTTGCTCCTTGCACATCTGATTTTAAAATCCAGGCTATAAATTAGATGGGCACACACAGTATGGCAGTATACCTGGGTTACTGTAGCATTGAGATATTTGAGCAAGTGCACATTAGTGTTTTCTGCATTGTTGGAGCTCTGAGAGGATTTAACCACTTCAGGCACAAAGTGTGACCCACATTTTTAATGTGTTTGGATTGATGAATTGCAACTGAATTAGGTGTTGGGTGGTAATTTCCATTTTCCCTGATGTAGAAGTGGTACTTTTATTAGCAGTTTTCATTCAGTTTTCAGAAGAATGCAGTGTTGACTAGCATTTTGAAAAACATAACTAAAACAAAGCAGGACGTGTGCGTACTGTTTATACACACAAAGCTGTTACTGGGCTTTAGGGATAAATCCTTCCTACCTAGTGCAGCTGCTTAAATATTATGCTCAAAATACTTCTTTCTTCTCAATTTTTTTTAAGGAATGTGGAGAGTTATATTTGTTCTAGTGCAGAGCTGTGGGTATGCTGCAGTTGAAGCAGCTTTGCTATTAAGTGGAATGCAGTCTTCATTGCCATTAGAGAGGTGGATAGAGGAAGTCAATATATTTCTAAGTTAACTAAAGCGTGGTTTTTGGTGGTTTTTTTTGTTGTTATTAAGGAATTGTTCAAACAGTTGGTCTCACAGTTTTCTCTAAATTTATTTAAAGGGTTTTCATTTGCTTTTATACATTTCATTATACAACACAAAAGTACAGAAAAGCTTGGGCTGGAAGGAACTTCAGGAATTATCAAGCTCCAACCGCCCCCCTGCCATAGGCAGGGTCACCAACCTCCATGTGTAATACTAGATCAGGCTGCTCAGGGCCCCATCCAACCTAGCCTTGAACACCCCCAGGGGCATCCACAACCTCTTCTCCCCCCCCAGTCATTTTTCAGTGCATTTAAAACCTCCACGTGGGTTTGGGGAGAACAGCTACTACCTTCTGCCCCATAAAGAGGTTTTACGAACATGCACTGAAATCTACCTCAGTGTCTGAAAACCTTAGTATTCCATTCCCAAAATCCTGAAAAAAATGATTTGCTAAATTGCTTTTCTTTGAGGTAATTTGAAGAATTCTTTTAATAG
Seq C2 exon
GAATCTGGAAAACCTGGTGCTCATGTTACTGTGAAAAAACTATTTGTTGGCGGTATTAAAGAGGACACTGAGGAGCACCACCTTCGTGACTACTTCGAGGAATATGGAAAAATTGACACTATTGAAATCATTACTGACAGACAGTCTGGTAAAAAGAGAGGGTTTGGATTTGTTACATTTGATGACCATGATCCTGTGGATAAAATTGTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011036:ENSGALT00000017975:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.141
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PD(57.1=81.6)
A:
NA
C2:
PF0007617=RRM_1=PU(81.4=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGATCCTGCAAGCAAAAGA
R:
ATCCACAGGATCATGGTCATCA
Band lengths:
342-1900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]