HsaINT0039516 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:15216270-15219694:-
Coord C1 exon
chr3:15219092-15219694
Coord A exon
chr3:15216859-15219091
Coord C2 exon
chr3:15216270-15216858
Length
2233 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TTTTGCCGTCTCTCTTATAGCTT
3' ss Score
11.28
Exon sequences
Seq C1 exon
TCTGCAGGGAAGCCTCTCTGGGAGATGTTGTGTTTCTGGTGGACACCAACATCAACCCCCAACATGCACGCAGTGTGCGGAACTTCTTGTACATTCTGGTAAACAGCTTCAACGTCAGCAGTGAGACCATCCGTGTGGGTCTGGCCAAGTATAGCGATGTGCCCCATTCAGAGTTCTTGCTTTCCACCTACCACCGCAAAGGTGATGTGTTGAGACACATTCGGCAGTTTCAATTTAAGCCTGGGGGCAAGAAGATGGGCCTGGCCCTGAAGTTCATTCTAGACCACCACTTCCAGGAAGCATCAGGGAGCCGGGCAAGCCAAGAGGTACCTCAGATCGCCGTGGTGATCAGCAGTGGGCCAGTTGAGGACCATGTCCATGGACCTGCGAAGGCATTGAGGAAGGCAGGCATCCTGCTTTATGCTATTGGCGTCAGAGATGCAGTTTGGGCAGAGCTCAGGGAAATTGCCAGTAGTCCTCAGGAGAATTTTACCTCCTTTGTTCCTAACTTCTCTGGTCTGAGCAATCTCGCCCAGAAGCTGCGGCAGGAACTCTGTGATACGTTGGCAAAGGCAGCTCCACATGTTGACCACGTCTCTCCAG
Seq A exon
GTACAAAGGCTTTTTATTCTTAATTTCTGATCTGGAAGTCATGAAACTCAAAGCTTGGTCTCTTATTCATCCCTCTGCCCATCCTTCTTATTTTTCATATGTGTGCATGTTTTAATTTTAAAATTAAAATTTCATGAAGCCAACCCTATGCTCCTCTTCAATCACTGACCAAAGCCTCATCAGCTCTTTTTATAAATCCTGTGGGCCTTATGCTGGTTCTATATACGATATAGTATAAGTCCATTTTTGAATGAAGATTTATTTGTTTCTAGAATGACATTATTATTCCTAGGTTAACTTACCCATGTTGCCTGGATGAAGGATGGGAAGGGAGAGGGGCAGTAGTTCCCCTAGGATGTTTGCTAATTTAACTGCAAGCCTGTTGGTTTAATATACTGGTTAAGATTATAGATTATTAATTTAGGGAAAATAAAGATCTGTGTTCAAATCTTACAAAGTAGAGAAAGGGTAATCTTAGACAAGTTACTTTACCTCTCTGAATCTAAATTTTCTTCCTAGGATGATAGTACCTGCCTCAGAGAGTTGTTAAAAACATTAAACAAAATTGTGCAAGTAAAGTGCTTGGCACTATACCTGGCCAACCAGAGGTACTCATAAACATTACCTGTTATTACTTGTCATAACCTGTGATGATGATATGCCTGTCATCAACTTTGTGCTTCTATTGGTGATAGGGCATAAAATGGTGAAAATTCTTTATAAATTAATTACTAACCTCCATAATAAAGCATACAACTTTGAGTAGAGAAAGAGAAGAATGCTTGTGGGCTCCATCAAAACCCACAAAAGGACAGACTCTTCATGATTTATTCATTATTTTGGTATTTCTGTATAGGGTATTTTAATTGGAAGAAGTGCTAAAACTTTTGACCCATTGATGCAGCAGGTGTGTGGTGGTAGTATTGCATTTGTATGGGCAAATAAATATTATATATCTTCCTTTTGTACAGCACTTCAAGGTTTACAAAGAAATTTTATATTCATAGTAATAATAGCTACTATTTGCCTGGCGTTGTATAGTTTTCAAAACTTATTTATATTGCTCATCTGACTGATCATCTCAACTTTGTTAGATACGTAGGGTAATTAGTATTATTGTTTGCATTTTTCAGATAAGAAAACTGAAGCCAAAGTTACCACAAGTGGATTGCAGAACTAGGGACTTGATCCCAGATCTTTTAGAGCAGAGCCATTCCACTAGAGCAGGGCTGTTAGGTTGTATTCCTGGGGAGCAGGGCCTGAAACAAGAATTTGGATACACATGATTTGCTAAGGAAGAGCTCCCGGGGCAATGGTCAGTAAGGATGTGGGGTATTCAGGACAGAGAAGTAGAGAAAAGTAAGGAAGGGTGTGATTTCAGGCAAAAATTCTGTAAGGGATTTTAGCCTGATCCTGCAGGGGAGTTTGGTGTACATTATGCCTCAAAGTTGTCTTGACCCTGAATCTGGGTCAAGCAAGGATCTGGGCTTTTAAATATTGTGAGAAAAGTAGCTTTACTAGCTGGAGGGTAGTTTTCCAAAGAGCAGTGCATAGAATGGTAAAAAAGAAATCCAAAAGGACTGAGCAGAACATGACATTGTCTGCTGCAGTAGATTATCTTATTTTATCCTCAAAACAACCTTGGGAGAGTATGAGGGTTGGTGTAAAGATTTCAGTGCTGCAGAGAGGAAAATTAAATCTCAAAGAAGTGAGTGTTAAATAGGTCACAGAGCTATTAAATGATAGAGCTGCAATAAGATGTGTCAAGGAACATGGGATATATTCCAGCTTTCTGACCAGCTGGTGCCAGCACACTCCTAGATATGAGGTTTCTTTGTCAAAAGATAGGAGGCTGATGGCTTTTTCTGACTGGAAAGAATACATTCCCTTTCTCAGCATGTTGCTTAATTTACAGAGTGCTTTTCTTCTTAATAAAATTTAAGGGATTATCTAAGTGGATTTCAAGGTTGGAAGTATCGGTAGAGCAGGTCTGAAATCTCAGAAGGTGATGGAGCAGAGAGAAGGAAAGGTACAGGGGGATGTTAATGTTATTGCTCTGAGCACATTGTCATTTGGGGTGAGGGTAGCGTCTGAGGACCACTAAGTATAGGCTGCCTGCCATTATTCTTCTTTTCTGCGTTGGTTCCAAGCAGCTTGAACCATTTGTTCAATGGTTCAAAGCATTTTGAGTGAAGATCCAGTAATCCAATCCCTTTTGCCGTCTCTCTTATAG
Seq C2 exon
CTTGCAGAGAAGCAGCCCTGGCAGACATTGTGTTTCTAGTAGACAGTTCAACTAGCATCGGACCCCAAAACTTCCAGAAAGTCAAGAACTTCCTTTACTCCGTCATCTTGGGGCTTGACATCAGCAGTGACCGTGTCCGAGTGGGACTTGCCCAGTATAATGACAACATCTACCCAGCCTTCCAGCTGAACCAGCACCCTCTGAAGAGCATGATCTTGGAGCAGATCCAGAATCTGCCATACCGCACAGGAGGCACAAACACAGGGAGCGCCCTGGAGTTTATCAGGACCAACTATTTGACTGAGGAGTCTGGCAGTCGGGCCAAGGACAGAGTTCCTCAGATAGTTATCCTGGTGACTGACGGGGAGTCAAATGATGAGGTCCAGGAGGTGGCTGACCGGTTGAAAGAAGATGGAGTTGTTGTGTTATGTGGTAGGGGTCAATGTCCAGGATGTCCAAGAGTTGCAAAAAATAACCAGTGAGCCATTTGAGAAGTTTCTCTTCAACACTGAAAACTTCAATATCCTGCAGGATTTTTCAGGAAGTATTCTTCAGACTCTGTGCTCAGCAGTGGAGGGTAAGATAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
-COL6A4P1:NR_027927:2
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
(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)