HsaINT0039572 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:130187639-130189811:+
Coord C1 exon
chr3:130187639-130188325
Coord A exon
chr3:130188326-130189714
Coord C2 exon
chr3:130189715-130189811
Length
1389 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
CCAGCCCACTCTCTCTCCAGGTG
3' ss Score
11.63
Exon sequences
Seq C1 exon
GACATGAAAATTATGGCAGAAAAGAAGAACCAGATCATACTTATGAACCTGGAGATGTCTCTCTTCAAGAATATTACATGGATGTGGCTTTCCTCATAGATGCTTCCCAAAGAGTAGGAAGTGATGAGTTTAAGGAAGTAAAAGCTTTTATAACCTCAGTGCTTGATTACTTTCACATTGCCCCCACTCCACTGACCTCCACCTTAGGAGACAGGGTTGCTGTCCTGAGCTACTCTCCTCCAGGCTATATGCCTAACACTGAAGAATGCCCTGTCTACCTGGAATTTGATTTGGTTACTTATAACAGTATACACCAAATGAAACATCATCTCCAAGACTCTCAACAGCTCAATGGAGATGTTTTTATTGGCCATGCCTTGCAGTGGACAATTGACAATGTCTTTGTAGGAACCCCCAATCTGAGGAAAAACAAAGTTATCTTTGTAATATCTGCTGGCGAAACCAACTCTTTAGACAAAGACGTCTTAAGGAATGTGTCTCTGAGAGCCAAGTGTCAAGGCTACTCCATATTTGTGTTTTCCTTTGGCCCTAAACACAATGACAAAGAATTAGAAGAATTAGCCAGCCACCCTCTGGATCATCACTTGGTCCAACTTGGCCGAACCCACAAGCCAGATTGGAACTATATCATCAAGTTTGTCAAGCCATTTGTCCATTTAATCAGAC
Seq A exon
GTAAGTCATTAATTCTCTTTGATTGCTTTTGCAATAGATTTAATGTTTCTGTGTACAGTCCATCAGCAGACTTAGTAAAATGATCCTCACTTCAGTTAAGAGTGGTAGAGTATAAGTGAGTAGGAGGCAGTAAAAAATCTCAGAGAAAATTCCCAGATTTTTTGACCATGAGCCTTGCTGCTGTGCTGCCAAAGTTTTAGCCAGGAAATCCTCAAATGGATGAAAAGTGCCCTTTAGCCCTAACCCGTGAGTGTTTACTATGTGGCAGGTTCTTTAAATTGATTGTGTCATTTAATCTTCAGTGCAGTCCTCAGAGGAAAGTATTCATAACCCCATTTTGCAAGTGAAAAGACTGAGATTCAGAAATGTTAAATAAAGTGCTTAAAATCTCACAAGTAATAATTAGTAAATTCTAGACTCAACCCCTCACATTCTGACCCCAGGGCTATGCTGTTGTCTAGTAAATCACACTTTAATTACTAAACCCTTAGCAAGGTGTAATGGTGTAATAAATAATATCACACTGACACTGCCCTCCACCTACTCCAAGGACTTCTATTTTGTCTTGTCATTATAAATTAACCTAAGTTCTGACTTGAATTCTTATGAGCCATAGGGACAAATCTCCTCTACAGCCTCTATGCCAGACAGCTGGTAGGGATTTTTTAGGGTGTCTTTACACAGTGGGGCTTTAAGGGTGGCTGCCCCAGCCTCTGCCCATGTGTTATGACTTTAGACATGCATATAGCAGCACATCCAAAACCTTGTAAGATCAAACAAGTCCTAGCGTGTGCTGGGAATTAGGAATGTGGCAGAGGCTACTTTGAATGGTCTCTGCAGCTCCTGTAAACTTACTAGAGAATCACAAGGTTGCAGGTTTTCTGGCATGCATAAAGCCCCAGGGCTTACACAGTTCGCAGGAATCTTGGAATTTAGCAGTTATGTTTAGTAGCAAGTAAAAATGTGCCTTCTCCCAACCCGAAGATAAGTAGGGCAGACAATTTCAATAGCTAATAGAGTCTTCTCCCAGAACTTAAAGTATAATTAAAAAAAAAATAAAATATAAACATTTTTTAAAAAATAGTCTTCTAGAAAGATCCTCCTTTTATAGAGAGAGAAAGAAATGATAGAAAGAATTTAGAGATGTCCTTAAAGTATATCACAAATTTGTGATAGAGCATTGGAATTATTTATTCAATGACTGGCTGTATCTTCTTGACTTTGCCAAGAACAAAGAATTTCCATGTCAGAGTGTGCCTATTTTGTGAAGTCCGTTATAAAAGTTGTTCTTGAAAACACTGCCAACCACGTGAAAACATGATCTGACTTTGGGTGAGATAATAATGTAGGTGGGTAAAATTTAGACTAACCAGCCCACTCTCTCTCCAG
Seq C2 exon
GTGCCATCAACAAATATCCCACCGAAGATATGAAAGCCACATGTGTTAACATGACCTCTCCCAACCCAGAGAACGGTGGCACAGAAAACACTGTATT
VastDB Features
Vast-tools module Information
Secondary ID
-COL6A5:NM_153264:38
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAACCCCCAATCTGAGGAA
R:
TGGGTTGGGAGAGGTCATGTT
Band lengths:
349-1738
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)