HsaINT0076972 @ hg19
Intron Retention
Gene
ENSG00000170144 | HNRNPA3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:HGNC Symbol;Acc:24941]
Coordinates
chr2:178080706-178081320:+
Coord C1 exon
chr2:178080706-178080916
Coord A exon
chr2:178080917-178081230
Coord C2 exon
chr2:178081231-178081320
Length
314 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTGATTGAAAAAAAATTTAGTTC
3' ss Score
0.21
Exon sequences
Seq C1 exon
GATTCTGTAAAGCCTGGTGCCCATCTAACAGTGAAGAAAATTTTTGTTGGTGGTATTAAAGAAGATACAGAAGAATATAATTTGAGAGACTACTTTGAAAAGTATGGCAAGATTGAAACCATAGAAGTTATGGAAGACAGGCAGAGTGGAAAAAAGAGAGGATTTGCTTTTGTAACTTTTGATGATCATGATACAGTTGATAAAATTGTTG
Seq A exon
GTAAGTAGCAATTTATGGTAACTTGAATGAGAAAGTAGAACTGGTTTTTCTGTTTTGAACTAAATTTGCTAAATTGTAATTTTCTGTTGCGTGTAATGGCATTTATAGTGTATAGTCAATTTTCATAGTGTCTGCCTGTGTAATCAGTATCCAGATCAAGAAATAAACATAAACATCTCAGAATGCTCCTTCATTACCAGAGTCACTACCTGATTATGTCTTAATGGGTTACATAATGACAGAGGGTATCTCATATATGTGCTTTTCCAAACATAAAATAACTTTTTGTTTTGTTTGATTGAAAAAAAATTTAG
Seq C2 exon
TTCAGAAATACCACACTATTAATGGGCATAATTGTGAAGTGAAAAAGGCCCTTTCTAAACAAGAGATGCAGTCTGCTGGATCACAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170144-HNRNPA3:NM_194247:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.097 A=NA C2=0.605
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(81.4=80.3),PF072928=NID=PU(34.9=21.1)
A:
NA
C2:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(62.8=87.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTAAAGCCTGGTGCCCATC
R:
CTCTGTGATCCAGCAGACTGC
Band lengths:
295-609
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)