DreINT0050263 @ danRer10
Intron Retention
Gene
ENSDARG00000079752 | col6a6
Description
collagen, type VI, alpha 6 [Source:ZFIN;Acc:ZDB-GENE-041111-303]
Coordinates
chr16:36755139-36757919:+
Coord C1 exon
chr16:36755139-36755804
Coord A exon
chr16:36755805-36757810
Coord C2 exon
chr16:36757811-36757919
Length
2006 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGG
5' ss Score
4.69
3' ss Seq
TAGTTTCTTTATGAATGCAGAGA
3' ss Score
1.93
Exon sequences
Seq C1 exon
ATCCCTGCAGACCAGCTAGAGAATGTGAGGGCACCAACCTGCCATCTGCACCTCAGGAGCTGGACATGGACTTTGTGATGGTTGTGGACGGGTCCCGTAGCATCCTGGCTGACGAGTTCAAGGGTGTCAAGGAGGTGCTCGGCGGTGTGCTCGATCAAATTGTTGTGAGCAGTCAACCCACCAGGGCTGACAGACAGGCCAGAGTGGCTCTCTACCAGCAGACGTCTACCTATAGTGACCCCCAGCCTGCACACGAGATATTCAGCTTACGTGAGTTCTCTGATCGCAATCTAATGAAGACAAGCATCATCCAAAAACTAAAGCAAACCGGAGGATCTCATGAACTGGGTTCTACTTTGGAGTTTGCTTTCAAGAAGTGTTTCAACGCAGTTCCAGAAAGTCGCAAGAACAAGATGCTGCTGGCCATCATTGGGGAGGAGACAGCGTTACAGGAGAAAAAACGTCTGGACTCTTTCTCCAGGTTGGCGAAGTGTAGCGGCATTGTTCTTTTCACCTTGACAGTGGGAGACTCCATCGCCTCTAGTCAGGTGGAGGAGCTTGCCAGCTATCCTTTAGAACAGCACATCATTCACCTGGGCCACTTGAAACATGGAGAACAGGAGTACACACAACGCTTCATGAGGACTTTCTTCCATATACTGAGCA
Seq A exon
GTAAGGAGTGTTTCATGTTAATGCTGATTTGATTTGGGTCAAAAGAATTGCAGTAGTTATTCTGGTGGCTATCTTGCCTCTCTAATGTTGCTCAGAAAATGCAACAAACATCATAAAAGGTATCATTGTGAGCCTTATAGCTTTACAATAGCTTTATGTGAGGAACAAGTCTAATTTCAGTTTATACCATGCTTTTTGGTAAACCAGGGCAATGTCAACAGAACCTGACTAAAATGTAACCCTGGACCACAAATGTTGCGCAGGTATACACATTTTATTGGTCAAAATGTGGCCAAAATGATCAAAAATATGACTAAAAATCAATGTTTCATGAAGATTTCTTTGTAAATTTTCTACTGTAAATATTAAATCTTATTTTTTATAATAATATTAATAATTCCTTACATTTATACAGTTCTTTTCTAGACACTTACAGTGCTTTTCACATTGGGGGGAACCTCCGCATCCACCACCAGTGTGCAGCATCTACCTGGATGATGAGACGGCAGCCATATTGCACCAGACTGTACACCACACACCAGCTGATTGGTGGAGAGGAGACAGAGTGATGAAGCCAGTTATTATATGGGGATGGTTAGGAGGCCATGATGGACAGAGGTCAGTGGGTAAATTTGTCCAGGATGCCAAACCCCTACACTTTTCGAAAGATATCCTGTGATTTTTTTTATTGATTATCATCAATATACTGGGGCGTTAGGACCCACACAGACTGCAGGTTGAGCGCCCCTGCTGGTCTCACTAACACCACTTCCAGCACTAACCTAGCTTTCCCATGTGGTCTCTTATGCAGGCACTGACTGGGTGCAGCTTCCGTAAGCAGCCATGTGAGAGTTGATAAATTAGTACTATGCTAAGAACTACATTTAGACAACTTTAAAGCGATTATTATTATAACTTTTTTCAGAACAGAAAATCATCCAGTGTGATTGGCCCTTAGTAACAGAACGCAACAGCAAAAACGTGCCATCAGAAAACCATTAAAAAAACTAACAGAAAGATAAAGCCACAGTCGGTTGATAATGGTAAGACATTTGTTACCCCAAGGAGTCCAACTGAGGACTATGACAGGTAGCTTTCTGCAATTCTCACATGGCTGCCCACTGAAGCTACGTAAGCACGGCTGCACCCGGTCAGTACTTGGATGGGAGACCACATAGGAAAGCTAGGTTGCTGCTGGAGTGGTATTAGGCCAGTAGGGAGCTCTCAACCTGTGGTCTGTGTGGGTCCTAACACCCCAGTATAGTGAAGGGGACTCTATACTGCTCAGTGAGTGCTGTCTTTTAAATGGGACGTTAAACCAAGGTTCTGACTCTCTGTGGTCGTTAAAAATCCCAGGATTTCCTTCGAAAAAGATTAGGGGTTTAACCCCGTTATCCTAGCCAAATTTGCACACTGACCTCTGTCCATCATGGCCTCCTAACCATCCCCATATCATAACTGGCTTCATCACTGTCTCCTCTCCACCAAACAGCTTGTGTGTGGTGTGCGGTCTGGCGCAATATGGCTGCCATCGCGTTATCCAGGTGGATGCTGCCCACAGGTGGTGGATGAGAAGATTCCGCCAATGTGTAAAGTGTTTTTTAGTGTGCTAAAAAGAGTTATATAAATGTGAGGAATTAATATTATGACTAGAATTTCTAGTAGATATCAATTCTTTCTAGGAACAAACATAATTGTGTAGTTGTTCTGCAGTCATTTTATTCAAAAAGCCAAATCAGCCTGAAAGTGAGTTCCATTAGTAGCGTGCTGTTCTCATGTCTGAGATTTTCATAGATCAGATGTACAGCACAAGCTGTAAATTATATATATATAAGCTTTTTGTTTTTCAAAACATGCATCATGTTTATTTAAGCAATATGGCTGTGAGTGAATGATGAAAATATTATAGTTTTGGGTGAACTTTTGCGTTGCGATTGACTTTTCATGTGTTTTCATTTTGAGTGTCTAGCTGTGAGTGTTAATATATAGTTTCTTTATGAATGCAG
Seq C2 exon
AGAATATGAACACCTACCCTCATCCATCACTCCAGAGTCAGTGCAGGAATTTTCAAGAAAGTCCAGGCCAGCGTTTGGACTTTGAAGCTGCAGAGAGACCAGTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079752:ENSDART00000109703:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.270
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=82.4)
A:
NA
C2:
NO
Main Inclusion 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:
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]