GgaINT0048004 @ galGal3
Intron Retention
Gene
ENSGALG00000009250 | HNRNPA3
Description
NA
Coordinates
chr7:16932400-16933823:-
Coord C1 exon
chr7:16933671-16933823
Coord A exon
chr7:16932526-16933670
Coord C2 exon
chr7:16932400-16932525
Length
1145 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
ACTTCGTGAATTTATTTCAGGTA
3' ss Score
8
Exon sequences
Seq C1 exon
TCAAAGGTGGCAACTATGGAGGTGGTCCTGGCTATGGCAGCAGAGGGGGTTATGGTGGTGGTGGAGGACCAGGATATGGAAACCCAGGTGGTGGATATGGAGGTGGAGGAGGAGGATATGATGGCTACAATGAAGGAGGCAATTTTGGAGGTG
Seq A exon
GTAAGATGCTAGCTCAAATTAGCTGACCCTTTTCTCATTCAGGTCTGAGTAGGATAGTGCAGAATGCTGTGTTACACAATTCTCCTCCCTCTGGATCAACTTTGATTAAATTATGCAACACTAATTTGCTTGGAACTTAATTTTCACAGAGTAGCTGCTGTAAACGTGTGGTGGTAGAGTAGGAGAACTTCAGTTTTTGTCCAATTGAAATATGCCGTTGGGTATCAGTTTGTACCACGTGGATGGTGTCCTCCTTTGTGAGGACTAAATGTCTTATGTTTATGGAAGCTTTATTGTCTGGTTGTGAAATGAGGTTCCTCAATAATTTTTATAAGAGCAGTCCTTTGGCCTATTTTGCCTTTTGAAATAACCAGGAACCACGTTATTACGTGGCTGTTTTACAGCACTAGCAAGTGTAAACCCTGGATGGCATGGAAGACATAAAACAGAAGTCTAGCTGTGTCCTGTAAAATCAGTTCGGCCATGTTCTTATTCTGTGTTGTCAGTGTTAATATCTTTGCAGGAGTTTCAAAATGATATGGTTAGTTTCTAAATCTGTGATTGCTTCTGGAGAGGCCTTCAATGACGTGTTTCTTGTCAGGGTATACCACAAACACTAAAACATGCGTGGTTCTTGACTAGAATTTTTTGGGGAAGAAGCAGTAGGAACATGCAAGGACTCAGTGCGAGTTGAGGGGGCTAAGCTGCAAAATCTACTGCACAGTTACGAATACCTTCTGGGGTATTTATGCGCTCATTACAGTTTTATCACTTTTTACAGCAAATAAAAATTGCTCTTGGCTTGTAGTTTATGGGATTGTCACGTACAGAGCACTGAACAGTGGAAGAATGATGGTGAAACCGGAGTGTTTATCTGAGTTGGGAGGCATTAACTTTGGCCTACCATGTTAATTTCAAATTGCTACTCAAACCTGTATGAACTTTCTAAGATAGCCTGCTATTTTTCTTCTTCAGTGATATACCGACTTCTCATCTTGGGAATGCTAAGGGTTTTGCTGTCATATGTGCATTGCAAGTAGAGGTAGCGTGCTCAGTGCTTGCAAGTCTATTATAAATTGTTTGAAATAGCTGTTGCAGTTTACACTGAATGTCAGAGTTTCATGAACTTCGTGAATTTATTTCAG
Seq C2 exon
GTAATTATGGAGGCAGTGGAAACTACAATGACTTTGGTAACTACAGTGGACAGCAGCAGTCCAATTACGGTCCCATGAAAGGTGGTGGCAGTTTTGGTGGTAGAAGTTCAGGCAGTCCCTATGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009250:ENSGALT00000038715:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.773
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF116273=HnRNPA1=PU(94.9=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAGGTGGCAACTATGGAGGT
R:
CACCATAGGGACTGCCTGAAC
Band lengths:
278-1423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]