HsaINT0039532 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:129982643-129985209:+
Coord C1 exon
chr3:129982643-129983327
Coord A exon
chr3:129983328-129985112
Coord C2 exon
chr3:129985113-129985209
Length
1785 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
ATTTTTTATTTTACTTTTAGGTG
3' ss Score
10.55
Exon sequences
Seq C1 exon
ACAAATGCAGACCAGACCCAGAATGCCCGGCTGGCACGCCGGGGCCCCAGGAGGTGGACGTGGACTTGGTATTTGTGGTGGACAGCTCCTATGGAGTGGATGCCGACGTGTACCGCGGGTCTTTGAGTCTAGCGGACGCCGCGCTAGAAGACCTGGAGGTGGCTGAGCAGCCGGGCGCGTCCCACCGTGGGGCGCGTGTGGCCCTGGTGACGCACACGACACCCAACTTCTGGCCGGGTGTGGGTTGCCTCCCTGTGCTCGAGGGCTTCCACTTGACCACCTATGGCAACCGGAAGCAGATGCAGAGACATGTGCGCGAGGCTTCAGCCCGCCCCTTACAGGGAACCGCCCCCCCTGGGCCACGCCCTGGAGTGGACGCTGGAGAATGTGCTCCTGGCAGCCCCTCGGCCGCGGAAGGCACAAGTCCTCTTCGCCATCGTGGCCAGCGAGACAAGTAGCTGGGACAGGGAGAAGCTATGGACTCTGTCCCTGGAGGCCAAATGCAAGGGCATTACCCTCTTTGTGCTGGCCTTGGGTCCGGGTGTGGGGACCCATGAGCTAGCCGAGCTAGCCGAGCTGGTCAGTGCTCCCTCTGAGCAGCATCTACTGCGCCTACAAGGGGTCTCAGAGCCAGAGGTTAACTACGCTCAGGGATTCACTCGGGCCTTCCTGAACCTCCTAAAAA
Seq A exon
GTGAGCAGTCCCCGGGAACTGGGGCACCTTGGGTGGAGTGGGGAGAGGGATTTACAGAGCCTGGCATTTGGGCATGCAGGTGCCTGTTGCAGATTCACTATTGCCTAATGTTTGTAGCCCAGCATCCCTGGGAAAAGCCAGGGAGCACCCCATTTCCTGAAAACCCTGCACTATTACCGCCCTGACATTGTGTCAAGCCTTGTGATGGTTTTTTGTCCTGAACTTCTCATAGGGGAGAAGTTCATGGCTGGGAGCCTCAGACTTCCACATAACTTTTCAATTTTCTCATTTGTCAAAATGAGAATTGCAGTCTTTTCTCTAATTGTGAAGCCATATGTTCAGGGAGGGGCTTTGAAAGCACCAATATTGTACACATATAAGGCATAGTTACTGCTATTACTATTTATTACTGCAGTTTCCAATAGTATTTGACAGTGCTTCTTAAGTTTTTACATGCACATGAATCTCCTGGGGATCTTGTTAAAATGTAGATTGTGATTCGGTAGGTCTGCATTGGAGACAAGAGTCTGCATTTCTTACAAGCTTGAGAATGATACCAATGATCCTAGTTTATTTGATGTTTATTTTAAAGTAGAGGTTGACATGGCAGTGTGGAGTCAGGGGTTTTCAGGGACTCACTAGGAAGTAAGGGAGACAGGACAAAAGTCTAGGGTCTTCCATTTCAGGTTGGATTGATGAAGCCAACAGTGAAGATTAAGGGGCAAGGGCTGTGCCAGTGGGTCCTAGCCAGAATTCTTTCCCATCCCCCTGCTCGAGCATCCTTAACTCCAATTAGAACTAGTGGAATTGTTATTGTTTTTTCTCTTATAACTAGATGAGTTAAATTCGTGGGCAGCCAAATCTGTATCCCTAGCATGATAATGGAGATTTAGAATTGCGATGGCAAGGGTATTATCCTGGTCACATTGTTAGCAGTTTGTCTTGGGTTTCATCCTCCAGTGCATAATTCAACTTATGTGCAGGGTGCTTTGCTGTAACATGTGGAGCCTCCTTGCCCTCCTTGCTTGGAGACTTTAGTTTCTCAGTTTATAGGTGGTTGTGGTAGCCCACTGGGAGCCTTGAGGGACATCTTCGCCTTCATCACTATAAGAATAAAAGGAGTTTGATGGACATCTTAGAAGTACTAACACAGCATTTGTACCTCTCCAATTTGAGAGGTACAAAGATCAGTGAATTAGTTCTAGTCCTAGCTCTGCCATTAGTGAGCTATGTGATCCTAGAAAAGTTCATGAATGTCTCTGAACCTTAGATTTCTTATATATGTGGGGAGTGGTAATAGAAGGCTGATGGCTTAGAGATTCTTTGAAGGAGAAGCGGCCTGAAGGAATCACTTTTCTAATCTGTTTTAATTTAATTTTACTTTATTTTTTATATTGTATTATGTTAGATTGTATTTTGTATTTTGTTTTTCTCTTAGGTTGGATTTTACTTTGCATTATTTACATAATAGGATACATTTTATGTTTTTATTTTGTTTTATTTGCTTTTATATTATATTTATTTTATGCTTTATGTGAATATATTTTATGTCTTTTTGATTTTATGTCTTCCAGGATTAAAAACATTAATGTTTTATTTGCTTTTATTTTTATATTGTTATGTTTTATTTCATTTTGTTTCATTTGTTTTATTTTATATTTTACACTTTGTTTTACTTGATTTTATGTTTTGAATTTGATGTCTTCATGAATAATATTTTGTTTTATTTTATTTTAGAATTTTATATTATTTTATATTTGACTTGATTTTTTATTTTACTTTTAG
Seq C2 exon
GTGGGACAAACCAGTACCCACCCCCAGAGCTCACTGAAGAATGTGGGGGCCTACACCGTGGGGACACTGTGCTGCAATTAGTCACACCTGTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
-COL6A4P2:NR_027898:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGGCACAAGTCCTCTTCG
R:
TAATTGCAGCACAGTGTCCCC
Band lengths:
353-2138
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)