HsaINT0094197 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr12:9808469-9811008:+
Coord C1 exon
chr12:9808469-9808575
Coord A exon
chr12:9808576-9809516
Coord C2 exon
chr12:9809517-9811008
Length
941 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
ATTTTTGTGTTTGGATTTAGGCT
3' ss Score
9.1
Exon sequences
Seq C1 exon
AATTTCCTGAAAAGATACAAAGGCCCTTCTGACCATTGGATTGGCCTTAGAAGAGAATCATCCCATCGCATTTGGAAATGGACAGACAACATGGAATATAATAACAT
Seq A exon
GTATGTTTTGAGACTTCTCATCTTTTGCTGTGTTTATGTATGGTTATGTGTGTGAGTTGTGTTTATGAGATAAGAAATGTAGTATCATGGAAAACTTACTGCAATATGAGGTAAGAAATCTAAACCCTTTTTATGCTCTTCAGTTGGTTAGCTGTGTCTTTGGGAAAGCTTTACCTGTGATTTCAGTTGAAGTCTTTAATGTGACAGTGACATTTCTCACAATTTTACACTTTCATCCACTGATTTAAAACTGCTGAAATCCCTACTTATAGCTGATGTGCAACAAAGGTTCTACAATCATAGGAAGCCACTGAGGAGCTGATATCCACAAGGCTGTTAAGCCCACTCTTGCAGGTGTTGCATCCATTTACAATAGGAAAGCATCCAGGGAACTCATGGGAATCTCTCCCTCCTAAAGCTTTATCACCAGAAGGAAACTAGTAACAGTTCCTTGGACTGTGAACATTTCAAAGGGGTATTTTGAATATAATCATTACATTGCAGCAGATAAAATGTAGGAACCCAGTCATATCCATTAATCAAAGCTAAGCCCTTTCAGGAATTTACTAGTTTTTTTTTTTTTTTTAGTTTTCACACATTTACAAAACAATTTGGGAGGAGGCTGGAAATCATCTTGACTGAAGACCACCAATGGCAGCAGTTCATTTGGGTACAGCAGCAAGCATCAGTTAAATACCTATCAACATAGCTGGGCTTGGTATGGATGAATGATAAGCTTGTGATTTTCAAGCAAGGACCTTGAGGACATAAAGGACACTAAATACAGAAATGGTTTATATTACTATGAAGCAATATTAATGACAGACTTTTGCTTTTCTCTTATTCACATTGAAATATGGAGGGGTTGCAGAAGATGATGGGGAGGAACAAATGCAGGTGTCTAACTTACAAATATTTAATATTTTTGTGTTTGGATTTAG
Seq C2 exon
GCTTGCTATCAGAGGAAGTGGAGAATGTGCCTTCCTGAATGACAATGGAGTCAACAGTGGCAGAATCTACATGAACAGAAAATGGATTTGTAGCAAGCCAAACAATTATGTCTACAGTTGCCAGTTATGTCCCCACTGGGATACTACCTAGTAGAGCTGTGAGAAGAGGGCCACCATCCTCCAGACTCCAGAATGGTGGAATCAGCAGCAGCTTCCACCATGCCCCTGGAAAAACTGCAAGTAACAGACCTGCACATGTATCCCCTACATCTAAAATAAAAGTTGGAAAAAATGGAACTTTGATGTTAAGATGCACTGATACAAAACTTAAATTTTGGTCTCCTACATTAAAACAATATGAGTCTCTTAAAATATTGATTTGTTCTTAGTAAGATTACAAGAGGCTTTGATTTTTAATTCTGCAATGTTTCCTTAACAGCCATTCTGAATTACAAACTAATTCCTATTTCTGCCACATTCCTTCCTGAGAACTGTCTAGTCCTGGTTTGGGATTTATCTTAAAGGTCTAGAAAGGCAACATTTTACTTCAGCAAAACTTGATTCTATATTGTTGTTTTTTCTTAATGTGTCAAAATTGTTTTGTTACTAGGATTTCCTATGTTGTTATTAAATGTATTCCCCTGATCAAGGTCACTGGCCTAGAAAACAAAGATTCTGTGTTTTACCAAGATAATTCCCAGTGCTTCATGGTGTCTTTATTAGGCTTTGACTGCTTAGGGAAACTGAGCCTTAAAAGGGTAAAAGTTTTTCCATCCATGTAACTTTCTGAGGTCTTTAGGTTGTCACTCTGATTAAATGAGTAGTATTCTTAGCAGTGACTTATTATCTGTTGAAGGAAGTATTTTAAGCTTTTTGACATCTTTGGCAGGTTTCTCTAGAATCCAAATCCTAAATTAAGCCTTTTGGCCTAAAAATGACTGGGATTTTTCCAGGTGGACCCCCTAGATATGCTCCTCCAAAGGCTTGTCTTTCTTGTAGAGTTATTAAATGATTAGGCTTATTTGGCAAATACTGCTAGAAGCATTGTCAAATAAGAAATGGTGTTTTACCTTTCTTTAAGCTGTGTTTGTGTAAGTTCATCATTTATAGAAATGTGAAATTTTATGAGATTCCTAAGATACTGACATGCTGAGATACCTGTAATAATTGCAATTTTTATGTTGGATGATTGTATGCCACAGAAGCACTTAAATTTCCTGGTTAATTGGTAACGTTAATCAGATCTTTACCTATGGCTGTTCTGGGTTTTTGTCATTCACAGTTATTATTTTAATTTCTTCTTTGGAAGCGTTCGCAATCAGCTATAGTCCAAAATTGCTAATTAAGATCAAGCAAAACAAAATTAATTACGTAAAATTAATTTATAAGGATGTTTTTATGACGTAAATGTTTTATTTTCCAGAGCCAAGGAAATTTTCTGTCACAAGCTATCTACCGTTTGCAATAATTTGATAAATAATCCTTTGTGAAC
VastDB Features
Vast-tools module Information
Secondary ID
-LOC374443:NR_002814:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NA
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
Other assemblies
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:
AGGCCCTTCTGACCATTGGAT
R:
AGGGGATACATGTGCAGGTCT
Band lengths:
353-1294
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)