HsaINT0076950 @ hg19
Intron Retention
Gene
ENSG00000139675 | HNRNPA1L2
Description
heterogeneous nuclear ribonucleoprotein A1-like 2 [Source:HGNC Symbol;Acc:27067]
Coordinates
chr13:53191605-53196399:+
Coord C1 exon
chr13:53191605-53191817
Coord A exon
chr13:53191818-53196123
Coord C2 exon
chr13:53196124-53196399
Length
4306 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
TCTTTAATGCATCTTTCCAGGAC
3' ss Score
9.07
Exon sequences
Seq C1 exon
AGACCAGAAACGGAAGAGAGCGCGGGGGATGTGTTTGGCGTGGGGCGCACTGTTCAGTTGCTCTCCTGGATGGCTTTATGTCTCCGCGGTGTTTCCTAGAGTCTCGGCGTTTCTACCTCTTCGCACCCTTTCCTGCCACCCTTTGTCCCCTGGAAGCCCGGAGACATCAGCGGCTGCAATTTTGCTACTCGCTGCTCGGCGTGGAACTGTCAG
Seq A exon
GTACCGCAGTTCAGCACTTTTGGCTCCGCAGGTCCTCGGGCATCCCTGTGCCCCGTGCTGTACATTCAGTTATCCTCCAACTTCCTGGTGTCGATGTTATTACCTGCTGGGTTTTAGAAGCTATTGCTTTAAATCTGAGAAAAGAAAAATCCCAGAAAGATAAGATGACTTGCCCAAGGAAACATAGCGTGCGTGGAAGACAGAGCTCCAATTACAAGCCGGGTCGCTGTGCCTCATTCGTCTTGTCATCAACTCCTGTCAGTTTATCCAAGCTCCAAAAGCGAAGTTGTTTTAGCTTTTGCTTCCCAAGATTTATGTGATAGTCTCATTTCTGTTTCCTTCATTTATTCTTTAGTTCATTATTGGAAAACTTTACAGCGTGCCAGTACTGGTCATAAACCCCAAGTAAGACAGTCTTGTCATCACGGAGCGTGTAGTTCCAGCAAGTAGACAATTTAAGTGCTGTGTAGTGAAGTAATTGCTGAGATAGTGTATGGAAGCACAGAGTACACCATTCATCCAACAAGTAATTGCTGGAGGAGCAAATAGGGACACCTAACCATTGCAGGGGCGACTCAGGATATCCTTTCTGGAAGAAAAGTCTGATGAAATCTGAAGGACCACTGGTTGAAGTTAGCCAGGAAAGAAAACGTGTTGCAGCATACTTGGTTTTGCTGTTTATCCTCCGAGTACTTTATTGTTATGAAAGCCTAATTCCACTGTGTAACTTCCATGCATAACACTCAGAAGCCAGTTAAGTACAGTGCTGAAGCAGGTTAGTAGCAGTGAAGATGGGAAGGACCAGCTGAATGGAGGAGAAAAATTGCCCAGGTAGAATTAAGGGGATGTGACATCATGGGATAATGGTAGGGTGGTCAGAGATAGCAAAGATTTCAACTGGCTGCTTTGGAGGATTATGGTATCCTTAACGTTAGCAGAAGAATGCAGATCCGGGGTTGAGAAAGATTTTTACGTATGTTATAATTTTTGGAAAACAGAAAAAATCTGTTTATGTCAGGGGGCATTTTAATATAGAAGTGTGAAAAATGGAAAATCAGTCTGAAAGGGGACGTCTTAAATGTCGTTTTGAAGGTGTTGCATTTGAAGTACTGATGAGATACTGTCAGTGGAAACAAACTCAGGTGGGAGGTTAGGTTTAGAATTTTATGTTAGTGTTATGGAGTTACTTATACATAATTTTCCTGTAATGTAGATTGCTTTCTGTGGTATGAAAGCAGTCTTGAAAGGAAACATTGTAGTAAAGATTATATGTGAGATTCATTCCCCTGATTACCACCTTTCTGTTAAAGTACCTTTAATATTAACTTTATTTTCTTTTTTTGAGACGGAGTTTTGCTCTTGTTGCCCAGGCTGGAGTGCAATGGCACGATCTCGGGTCACCACAATCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCATGCCCCAGCTAATTTTGTATTTTTAGTAGAGATGGGGTTTCTCCATGTTGGCCAGGCTCCAACTCCCGACCTCAGGTGATCGGCCCGCATTGGCCTCTCAAAGTGCTGGGATTACAGGCATGAGCCACCACGCCCGGCCAACTTTATTTATTGTTATTATTATTACTAATTATTTTTGAGATGGAGTCTCACTCTGTGGCCCAGGCTGGAGTACAGTGGCAGGATCTTGGCTCGCTGCAACCTCTGCCTCCCTGGTTCAAGCGATTCTTGTGCCTCAGCCTCCTGAATAGCTGGGACTACAAGCGTACGTTACCACGCCTGGCTCATTTTTGTATTTTTAGTAGAAACGGAGTTTCACTGTGTTGGCCAGGCTGGTCTCGAACTCCAGACCTCAGGTAATCCATCCGCCTCGGCCTCCCAAAATGCTGGGATTACAGGCGTGAGCCGCTGCACCTGACCAGTGTTAACTTTAAGTGTAGAATAATAGGCTGGGCGTGGTGGCTCACGCCTGTAATCCCAACACTTTGGGAGGCTGAGGCAGGCGGATCACAAGGTAAGGAGATCCAGACCATCCTGGCTAACATGGTGAAACCCCGTCTCTACTGAAAACACAAAAAATTAGCCGGGCGTGGTGGCGGGCACCTGTAGTCCCCGCTACTCGGGAGGGTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCTGAAATCGCGCCACTGCACTCTAGCCTGGCGACAGAGCGAGATTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGAATAATAATTATTTTCTTAGATTGTACCATATATTGAATATTATGAGAGTCCTGTGTACTTATTATGAGGATACTAGTTTGGCAATTGTTTTTTCATTCTAATTTTAAAGTGCCTGATTTGATAGCCTCTGACGTTTTCATAAGCAGATCAGATAGTTTCAGCATTTTTTGAAATTGCCGTTTTCTCTTTCATGCAAGTGTCCTTAGCCTGTGGCTACTATTTTCTGGCTTTGAGAACTTGATATAGTATTTAACCTAAGGTCTGATACAGGCTCTTGAGCTCACCTGCATCAGAAGCACCTGGGTCTTATTTAACATGCTGATTCCTGAACCCCATTCCAAACTTACAAACTAAGAATCTTAGGAATCTGTGTTTTAAGTCAGCTGCCTATGTGATTTGTATAACCTCTAGAGATTCATAACCACTGACCTAACGTCTGTGGGCAGCAGTTTGTTCTGTAAAACGAGAATAATAAAACCTATCCTTTAAGATTGTAAGGATTAAGTAACATAGGTAACATAGCTACTGTAATGTGGTCCCCTGATCAGCAGAATTAGCAACACCTGGGAGCTTGTTAGAAATGCAAATTCTCAAGTGTCTCCTGGAAACAGCTACTGAATCAGAGTAGTTTGGTGGGACCAAAGAATCTGTATTTTAGCAAGGAGCATAGATACTTTCTGTGGGCCAGGCACAGTGGCCCAGGCATGTAATCCCAGCACTTAGGGAAGCCTAGGTGGGTGGTGGGAGTTCTAAGTGGGCAGATCCCAGGAGTTCCTGTGCAACATGGGAAACCCATTTCTACAAAAAATTAGTCCCAACTACTCAGGAGGCTGAGGTGGGAGGATCGCCGGAGCCTGGGGAAGTCGAGGCTGCAGTGAGCCAAGATCACGCCACTGCACTCCAGCCTGTGTGACAGAGCGAGACCCTGTCTCAAAAAAAAAAAAATAATTTCTATATATATTAAAGTGTGAGAAGCAGTGCTGTAGCACATCAGCTTCATATAAGTAGGGACTATGAAATTCTTATTTACTAATATATTGTCAGTACCTAGTATAGTGCCCAGCACAGAGTAGATATTCACTATATTTAATGAATGATTTTTAAATATATTATACCCTCTTACTGAAACTAACACATTCAAAGAGTTTTTAAAGTTCTTTAGTAATCAAGTGCCAAAAGAGGTTTTTAACTCCACAGAATAAAACTGGATATTTGAGTTACTTAGAATTAGGACATCTTTTGCATGAGTCTAGTATAGATGTAATCATTTGTGGTGTTCTCTTTCATAAATGTATCTAATGAGGAAAGCAAAAATGACATTTATAGCCATCGATTATTTTCTTTTCTGTTCCATTTTAGCTTAGCTTACAAGTGGTTATGGGTTAAGTGGCATGTAGCTTGATGAGAATGTTGATCAGATTAAAACAAGACCCACTCAGTTTTTTTTAAAGTAATCTTTTTGATAGAAATTTATTTTTGTATTATTTAATTATAACTTTTTAAAGAGGTGTTATGTTAAGATCAAGGACTTGCAGTCAGTCAGATCTGGGTTTGAGAATAATAAATTGTCATTTATTAACCATGTCAGAGTTTTTCTACCGAACTCTGGGGTAAATGGTGGGAAGGAACAGATTTGGGAGCACCAGCACCCCCAGGCCTCCCCTGGCCACCCCAAGGAGCAGGTGATCAATATCTCAGCATACCTCTACTTATTTGTGGCACCCCAGTGTGTCTTAGGCCTTAATGGGCTGTGAGGTGCATGACCTTAGGTAAGTTACTTCTCTGATTTTCAGTTTCCTTATCTGCAAAATGGAGACCTTAGGGAGTTAATGTGGGTATGAGAAATGTGCATAAAACATATTGCACGAGGTTGAGGCATATAGTATGTGCTAATAAATGGTAAGTTGCTGCTGCTATGGTTGTTAATAATTATAAAAAGCAAATGGAAAGGGCTTGAATTGAAAAAAAATTTAGATACACGGTTTTTTGCTTTATTAGCCTGCATTGTATTTTTCATTTTTTTTCTTTAATGCATCTTTCCAG
Seq C2 exon
GACAAAAAATAATATCCAAAGATATTTTGGCACTAACGGCGCTATCTGTAGCAAGAAAGTTGAGCAGTGTGAACTGTTGAGACTTCCAAGGAGACTTCAGACAACCAAGACAGTGTAAAGGAAAACAGAGAAAAAGACTTGTTAGACATTATTAAGGGCACGAAAGTTGAATTGAGCACAGTAAATGTACAAACAACAAAGCCACCCAACAGAAGTTCACTTAAAAGCTACAACTGGCGGGCCTCAAAGAGCTTTAGGACATGCTCCAAAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139675-HNRNPA1L2:NM_001011725:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]
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)