HsaINT0014174 @ hg19
Intron Retention
Gene
ENSG00000119787 | ATL2
Description
atlastin GTPase 2 [Source:HGNC Symbol;Acc:24047]
Coordinates
chr2:38522029-38525717:-
Coord C1 exon
chr2:38525286-38525717
Coord A exon
chr2:38523733-38525285
Coord C2 exon
chr2:38522029-38523732
Length
1553 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
CAAATCACTTCATGTTTTAGGTG
3' ss Score
8.81
Exon sequences
Seq C1 exon
GTATGTGGAGGGGACAAGCCTTACATTGCACCTTCAGATCTGGAGCGAAAACACTTGGATCTCAAGGAAGTGGCGATAAAACAATTTCGTTCAGTAAAAAAGATGGGTGGAGATGAGTTCTGCCGTCGTTATCAGGACCAGCTTGAAGCTGAAATTGAAGAAACCTATGCAAATTTTATAAAGCACAATGATGGCAAAAATATCTTCTATGCTGCTCGTACCCCAGCCACACTGTTTGCGGTCATGTTTGCTATGTATATAATCTCAGGACTGACTGGCTTCATTGGCCTAAACTCTATAGCTGTCTTGTGTAACCTTGTCATGGGGTTAGCACTGATATTTCTTTGTACTTGGGCATATGTTAAATACTCTGGGGAGTTCAGAGAAATTGGAACAGTGATTGATCAGATTGCTGAAACACTATGGGAACAG
Seq A exon
GTTGGTATCTATCTTTTGGTTTTTTAGTGACTAATCTTATTTTCCTGTGACTTTCCATCCTTTGCAGTATTTGTACTCCGACTTTGCCTTCATGTGAGGAATGTCAAAAGGATGTCTTCTGTTTTGTTCAGATGTAGAATCTTTATGAATTGAAGATTTTTTCTTTAAAGTTATAATTTTAATGTACTTTGGTTAGCCTAAATCTGTACTATCCTCTGGATAGATTCTTAGTTGTAGGCCTGATTGTATCAGACGGTGGGCAGGGTCAGAGTCTGTAATGATTTTTTTCTTTGAGGAAAGAAAATATAAACAATGAATGATTTTCAAGGTAAGGAAAAGAAGTTTGGAAGTGGTGCTTTCGGAAAGCAAAAGAAGTTTCTTCCTAATATTGGCAAGCAGCAATGCAGGAGAAATGCTGGATGGTAGACAGGTCTTCATTGCCTTCCATGAAGATGGTAGTGATTTCCTGATGTACTATGAGGAACAATCCCGTAGGGATTTCTTACCAAGGAAACTTTGACCTTTGTGTTTTGGAAATATTAATTAGTAAAGCAAAGCGCCATGAACAGAGAACCATGCTCCGTCGTAATCTTTTACCTCGAACCAGAATTCAAAGCCCCAGGCTGTGAACTCTTGCCTGCAAGTATCTGCTAAGGAAAGCCATTTTGTGTATCTGCCTCCGGTGTGCTGGAATTACCTGTGGACCGCTTATGGATGTCATTAAGATGATCTTCGTGAAATACTTGAACATCATGTCAAGGACCAGAATGAAAGCTACGGTTATTAATGACGAACGCTATAATAGGCATTTGAGATGCCATTTTTGGGCTCATGAAATATTGAGCTTATTTTGAAGATCTAGGATATGCAGGTCCATGTTTGTTTTGGCTATAAACTTGAAGACCGAAGAAGCAGACCATTTTTTTTGAAGAAAGTTGATTGGATATTGACTTTTCTTGTAATGATGTTATTTTATAAAGTGACCCACTATATTAATTTGGATTTTGTGTTTACTCTTTAGAGAAATGCTCTATTCAGATCCGATTGGGAAGTTTATGTTTGGATATTTATTCTATTTAAATTTTTATCTCAATCTCACTACTTGATGTTTCTTTGATATCTTCTAATAGAAGATGGATGCAAAGCTATCGCAACTTCACTTTTAAGAAAAAATTAGCTATTTTAAAATTTTGGATCATTTTCTGCAATATAATTTTCAATAATTGTACAATATCTTCTTTTGAGAAATATTCATCTCTTAAACAGCATTGATTCTAGGATTTTGGAGGTACCATTATTACAAAACAATTAAATGGAAGAATCTAAAGTGTATAAAATCATTTTCAGTATAGTTTAGGTAAGGTAATCAGCTAGTCAGAGATCTGTGCTGTGTCAACAAACCTTGTCTAAATTTCTTTGCATTTCTCTTTTCTTTTGCTTCAGAGGAGTCCCAGGAAGGTGAGAAACCTACAGTCTCAAATTCTTGTAGTCTTAAACTCTTTAGCTTCGAGGCACTCTGATTCATTCTCCTAACAAATCACTTCATGTTTTAG
Seq C2 exon
GTGTTTTCCAAACTGTTTGAAGTTACTAGACGTCGAATGGTTCACCGTGCTCTTTCATCAGCACAGCGACAGAGACTGTCATCCAACAATAACAAGAAGAAAAATTAGACAGTATTTTTAACCTTTTTCTCTATCTGAAGTGTTCACACTTACACATGTAGGACAATAAGCAGGACCGTCTGGGCCGGTCTGCATAAATGCTGTATACATACCAGATTTGATGCTGCATATAGGGTATGGAATTGCACATCCATCTCATAGGAATTGTAAATGGTTTGAATAAGAGGAAAGTAATTTTTGTTGCATTATAAAATGTCTAGTAGCATCATAAGTTTTTTTGAGAGAAGCATCTTTTTATTTCCCATATTCCTGGTTATTTTCATCATTGCTTTGAATTGAATTTTTATATCTATTTTTATATGTAACTCTTTTTTTACCTCATGTTTTTGTTTGTTTTGCACATTTCTCATACCACAGGTATTGAAGCCCCTGGGTGATAATTTGATGGAGGAAAACATAAGGCAGTCTGTAACAAACTCTATCAAAGCAGGCCTGACTGACCAGGTGTCTCATCATGCCAGATTAAAGACAGACTGACAGTTCATCTCCTCACGGACTCCACTCTCTTTTTTTTTCATGCTTGCTGTACAATGAGAACTCAAATAAAAATAAACCAAAGTTTACAATCAACTGTAGAAGTAGTTTAGTGTAACTGGCTTCACAGATGGCTGCCACAGAGTGTGAAGATTGTTTGTTAGTTTTAAGCATTCTTTTAATGGCTCCTAAGACATGCAGATGGACTGAGGAGCATTGGTTAATCATGCACCTTTGTGCCATGTTTAACTCTTTTATTTCTTTTTACTTAATCTAATGTTAGTGAATTTGTCTTATGTAAAAGGATATTTCAGGGAAATATTTTCAGAAATCTATTTAGAGTCTCTTTAACACAGTGTCCCATTGAAATTTTAATTTTTAGAGAATTTATGAATCACTGTTTCAAGAACCAGATTGGAAAGACAATGAAGCCTTTATTGAGCCACTACATTAAAAGTATATATTGCTTTACTGCCTTCAATACCAGTATTACATCAATGCATGTATCAGAAACTTCACAGAAATTACATGGCAACTCTTGTAGCTAAGAAAGTAATTCTGAGGTGTACATTTGTCTTGCCTTTTTAAATTTATAAACTTGCCCTAAAAGGAGATGCATATCTGGGAAACTGAACTGTCTTTTTGCAGTTTAGCCTTCATGTATATAAAATATGCCATTAATTTTATTGGGGAAGAAATTCCATCCAAAAATGTTGCCTACAGCTATGAGTTAAGAGTGTCTGTACAGTGTGTAGCTTTTATTTTCTAAAATCACAGATAGGGCATGTATATGACTTATAAATATATAAATACGATTTTGTATTAAAAGTTTTGTAGTTTATGGCAAAATCTGGTCCTGTGGTAGGCTAAATAAGTACTGTCCCTGTGAAAGGAATGTTTGTGGCTCATGTCAGTGTGTGAATGCATAGACAATTTGAAGTTTTTGATATATTTGTGATATTTATCTTGAGCACTGCAATCTCACCCCCCCCCCGCCCACCAAGGGAATTCAATGGGAATGTTTATTGTGACTTTGTCCTCTGTTGCATTTTAAAGTTATTTCCTGTAATTTATTTTCAGTACATAATTAAAAATTTGTTGTATATATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119787-ATL2:NM_022374:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.238
Domain overlap (PFAM):
C1:
PF028419=GBP_C=PD(55.0=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCAGGACTGACTGGCTTCA
R:
CCCAGACGGTCCTGCTTATTG
Band lengths:
354-1907
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)