RnoINT0040282 @ rn6
Intron Retention
Gene
ENSRNOG00000023007 | Col6a6
Description
collagen type VI alpha 6 chain [Source:RGD Symbol;Acc:1309172]
Coordinates
chr8:114380070-114386821:-
Coord C1 exon
chr8:114386759-114386821
Coord A exon
chr8:114380133-114386758
Coord C2 exon
chr8:114380070-114380132
Length
6626 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
TGACTTAATTCTGCTTTGAGGTA
3' ss Score
-0.05
Exon sequences
Seq C1 exon
GGTGATATTGGGGACCCTGGCGATCCAGGAGAGGCTGGTCCCAAGGGAGCCAGAGGCAAAACG
Seq A exon
GTAAGCTATCCAGAATAACTTTGGTTCATATGTGTGTGTATATATGTCTGTGTGGGAGAGGAGGGAAAGAGACGAGTTGATTGATTATGTTCATGTGTATGATGAGTGTGTGTGTGCACACATGCCTATTGCATGGTCATGTATGTGTATATACAAACAGGGGTCAGATGCCAATGTTAAGTGGCTTTCTCAATCAATTGACATTTTTTGTTAATATTTAATAATAAAAAAACCATTGTAAGTATCTGTTTGCCCACATATTTCAAAGTTTACTTGTGAACGCCTGCTGCCCACAGAAATCAGAAGAGGGCATCAGATCTGCAGCTGGAGTTACAAGTGGGTCATGGTCATGAGTGGCCAAGTGGCTGTCCAGGGACCAAATCCAGGTCCCAAGCAAGAGCAGCAAGTGCTCTTCACTGCTGAGCCATCTCTCTGCCACTGCCATCTTCGTGTCTAATTCAGGCTCTCTCACTGAACCTGATACCTACAAATTCAGCTAGACTTGCTGGCCAGCAAGCCCCTGGAATCCTCCTGCCTCTGCCTCCCTTGTTCTGGGGCCACCATATGCAGCTTTTATATGGGTGTTGGAATTTAAGTCAGTCACTCACCTTGTACAAGGAACATATCCTTACCAGCCATCTCCTCAGCCGCTTTAGCAGATCCTCTTCTGGGTTACTGGTCATTAGAGTTGTTACCAATTCTTAAAAAACAGACAAAGAAAATGTTTTGGTTAAAGGTCTGTTTGTGGGATGAAAAATGGATCTAGCACTCTCATCTCCCAAGGCCACCAAGAAGGCAAAGAACTGTTTTAGTGAACACATTTTCCCATTCTCTTGCCAGTGTACCATTTTTAACCCTTGGAAGTAAGAGTTTTTTAATCCAAAGAAGGTTTCTGTACTGACACAGTATGACCAGTTTATCCAGTCTTCCTAAAGACAGTGAAAACCGATACCCAATGACATCTTGTTATGATTCTCAACGTTTTTGCTGAGCTACTTTTAATAAGGTGCTTATTTAAAGGTCCTAACATCACCTACTAGGTTTCTCCTGAGCTTTGAGATGTCCGAATGTGAAACTGAATGTGTCTTTATTAGTTTGTGGGAGAATCAAGTATCACCTAATGCTTTATGTCACTTAAACACAACTTTTCAGGATGTCGCAGCTCACCTTGGGTTACGGATGGTTAAAAATGTGACAGGCCTGTTCCTCGTACAAGTGTTAGAAAGACATGTAAGAATCTCGAGTTTAAGGCTAGCCTGAGCTACATGGTGAGCCCATGTCTACAGAGAACTGAAGGGTAGAAAAAACAGGATAGAATGTTTGCAGTTGTTGATCCACTTTAGATTGTGTGTAAAGGAGATTTTATTGTAATGGGACACCCTTAAAGACAACTGTCTCTCAAAAGTCTGCCTCTTTCCCTTCTGAATAACCCTGACTGGGAAAACTGGTCTACCATCCTGTTCATGAACAAGATCTCGGGGAAAAAAAAAAAACCCTATAGAAAAATATGCACTTGAGACAGCTTTCTGGTTTGTCTTTGTTGTGTTTATAACAAGATAAAGGGAGGGGGGATGTGTTCTAATGAGGTCTGGGGGAAGGGGTGCCTCAGCAGGCCCATGCTGAGAACACCCCCCCTCCCAGGACCAGCCACACAACAGTATAATATAGAATGGAGTTTATTCAGTGGGCATGGGGAGGGCGTTAAGAGGTTACAGTAGGGCAGAGTAAGACAAAGAGAAATAGAGTAGAAGAGGAAAGGAGTAGAGGAGTAGAGAGAGGCCCGCCATGAACACTTGGAAGGAAGGAGGGAGGGAATGGGAAGAGGAGTGACAAATGGGGAAGGAGGGTAAGAGCAAGACTGAGGGCAAGAGAGTGAGGAGGGGGCAAGCAGCCCCTTTTATAGTGTCAGGCATACCTGGCAGTTGCCCGGTAACAGTGGGGGCGGAGCTTAGACAGAATGCGAACAGTCTTCATAGTGAATTTTACTGTGATCTAGTTCTTCTCTACAAGCTGAAACAGAAACTTTATGTGTAGGGCTCATGTTTGGAGGTCATAAGGCTTCACCACAAGGAGCGTCCCCTTCATCCTGCTGCTCCCAAGGGAGCTGCTTCCAGCTGTAACGCTTGTGTTTTCAGATGGCAATCCCTTTATCATTTTGCCCTCAGCAATGACAAAGATGAATATAATTAGGAAAATAATTGGGAAAGGCTTTCAAGCTAGTCCAGATGTCATCTGCATTGAGACATCTCTGGATCGTTTCCCCTTGGCTTGTTAGTGGAGTGGTTTAACTTGCACACCAACAGCATGCTAACAAGTTCAGCCATTCGCTGGGCCCTCCCTACGATGCTCCATTCATCAGTCTTTAGTGCACTTAACTGATGGGAAACATACAGGCTTGGTGTCTTGGCCTCTGGAGATGCGTTTTTGTTCCTTCTTTGTTCTCTGTGTTGGACTGTTGTAACTTTCTGGTTTCTCCCCCTCTAACTGCTCCATCCCACTCCTTGACATGAGTAATATTTGGATTTGAAATTGAAGTTTAAACAGTGAAAATGTCCAGGTTTTCCCCTGGAAGAGCAGCTGTTTTCTCTGGAAAGATTCAGCCTTAAATTATGAATGTCTTTTCAAGTCTCTTCGGAATTATTCAAGTCTTAGCTTGAGTTCACTGAGTTATAGATTTTTAAATCTATAAACCTGTTTTATCTGTGCGCATATGTATATTTATATGTATATTTTTAAAAAGGACCAAAAGAACCCAAAATCTTTGAACAGGTTTCATGCAGGGACGTGGGACTATTGCCATCTGGAGCTGGGAGCCTTCATGGGGAGGCTGCCCGTGGGTGGTGTAGTGTTTAACTACATGCTCGGAGCCTGGCATTGGATTCCAGTACTACCCAACCTCCTTCCCTAGTTAGAGCCACCCGCTATGTTTCCACACGCTGTCATGTAGGGCGGCAAGCCCTCTCACCACAGGCACTGCTGTTGAGTCAGGCAGCATCTTATATTTCTTTACTTTAAATGGCTTTTATCTGTCACCTTAAAAAATAAATTTAAAAAGGCAACCCCAGGCTGTAGCCACGGTTCACTGGTAGAGCATCTGTCTGACGTGTCCACACCCCTCAGCACAAAACAGAAAATGATGATTGATCCACGGCTCTCCATCTTCCTCCTGCTTGCTTCCTTGCCTTTGAAAGCTTCGTTCATCCCAGGAGATGGTCTTGGAATTGAAAGTCTGTTTGCAATCCCTGAAGACGTTTGCATATGCAATAGGCACAACCTGAGCGGCTCTATCTGGTTTCCCTGTGGCCTCCTGTTCATACCGATACTGTTCTGCAGGGACCCTGCCTCTCCCTGGCTGTAAAGTCTCTACTCCACCCGTGCCAGGTCTCTCTGTCTCCCTCCCACTCCCACGCCCACCTGGATTTCCCATCATGGAGATCTCTGCCAGGAACCTTGTATTCATTACTTTTCTTATCACTGTGGTAAAGTATTTCACACAAACACACTAAAGGGAAAGAAAGGTTCATTTGGCTTCCAGAATCAGAGAGGTCAGTCCATGGTCATTTGGTTCATGTTTTGGGGCTTGTGGGCAGAACATAGTCATGGTGGGGAACAGACTGGGGGTGGTGTAAGTTTTAAGGCATATCTTTGGGTGACTTACTCCTTCAGCTAAACTCCACTTCCTAAAGCTTCTAAAACATCCTAGATAGGGCCAGCCTCTGGACACCAAGAATTCAGCACATCAGCGGGTGTGAGGGGAGTTTCGTATGTAAACCCTAACAAGCCGATAAGAGGAAACAGGCGCCGGGAAGGTTTGACGATACAGTGAACATCTGAAATGACTTCTATTGCCTCCAGATGTGTCAATAGTGTGGTGAGTGTACAGCTCTGGGTTGGAATTTCTTCCTTGGACTATTTTAAGTGATTATGTTTTCCATTATTTCTGGCAGCTTTTGTTGCTTTGGGAAGTCCAAGGCTATTCCGATTCCTATAAACCAGTGTTTTCTCTCTGGAACCCCATTGGATCACCTCTTAGGTCTGCCATGGGCTTTGTTACTGGGCCTATGGTCCATCCCCCCGACCCCACACACACACTTTCCTGAGAATTAGCAGGTCCCTTGACCCTGAAAATGTGTGCCATTTAGTTCTAGGAAATGCTTATTATTTTGTTGACTTTTGACCTTCCCCTGCCATGCCCTCTACTCTGTATATGTGAAATATCTATCATTCCGTATAATAGAATTCCTTAGTTTATTCTGTATTGTATTTATTTATTTTATAAGTATAACCTCTCTCATGTGCTCCTTTCTGGGAAGGTATCTTGATTTTATTTTTAATTTATGTCCCATACTTTGCCTTTGAAGAGCTGGTTGCCAGACACCTGACTGTTCTTTTCCCATAGTATACCGCTCTCGTTTCATGGCTGAAGCATCTCATCCCTCTGAGGACATAAGTGAATATTTTCAGGTCCTCCGTCCAACACAGTCCGTTTCCTCCAGGTTTTCCTCCTGTCTTGATGTTCATCTCTCATGTGTCTCAAGGATGAGTGGTGCATTCACATTGAGAATGGAGTACAGAAGGTCTGATTAGAAACCCGGAAGTCAGGATGGATTCGCCTCAGGGAGATCGATCTGCTGGACCTACGTTTAGCAGCCCACACACTCTCAGTACTCCTTCTTCTACTCAGATTTCCCTCTGAAAATACCTTCTACCCCTTTCTAGCGTACAGATCCTGATGCCAGTTTAGAAGGCACAGGCAACGAGAGCGGAAGGCTCAGACTCGATGTGCGTCTTTGCGTTTGGCCTCCCGGTTCAGTGTGGGAACGTCCGTCTCCAGCCCTGAGGAGAGTCCTACCCTGATTTACCTTTGTTTTTTGCTAGTGGGGAAAAGGGCATCCGACTACCTGGATTAGTAGTCCCCACTAATGCTGCTTATTTAGCTCTCTCCACTTCACCTCTGCTTCTGGGGGCATCTGGCCCTGATAGAGCCTGAGCCCTCTGGGAATGCGTGATGCCCAACATGGTGGTCCTTTGATTTCCCTCAGGCTGGCTCAGGACTCAGACTCCTCAGCTCTGCCAGATCATCTCACAGAAGACGACACCTAGACAGCTGCCTTCCAGGCCCCAAACACCGAGGCTTCCTCTTTCCTTTCCTTGCACTGTTGATTTTTACTTTAAAATCTTGTCTTTCTTTCTTTCTTTCACTTGAAGGTAAACATGTCTCTTAAATAAAGTGAGGTCATTCCACTGTATTTTTCAGTATTGTCAGTGTCCTTTGGGCACTGGAAAAGGACATCAGTGATTCTTAACTTCTCCATAGGTGGTACTTTTCAAATTAACTTTTAGATAACTTCACTTATTACCGTAAAGGTTATAAATACTGTAGCATTAAAATGTGTCTATCTATCTGTCTGTCTGTCTGTGAGTATGTGTGTATGAACGCAGGTGCCTACAGAGGCCAGGAAAGGGAGCCAAATCCCCTGGAGCTGGAGTTACAGGCATGAACCTCTTGACATGGGTATGAGGGACCGAACTTGGGTCCTGTGGGAAAGTAAGAGGTGATTTTAACCACTGGAACATCTCTATAGCCCTCTCCTCCCATGGCATTTTGAGTGAAGAAAACAACATTGTTTCTTAAACAACAAGCTCACAAGCAACCCTATATCCTAGCTTTTACTGAGAAAAACTGTACAGTTAAATGTGCATAGAAAAACTTCTTACACACAGCAGACAGACAACTGTTGTTTTGTTACTATTGCCATTATGCCCTTTTATTACAGAGATTTCCAGCCAACCATTGACTTTTTTCATTGTTGCAAATTGTGTGGGTTTGGTTTGGTTTTGTTCATGGATTTTGTGACACAGCATATGATCACAATTTTGTGTGAGTGTTTTTCAATTTAGTTACCTTCATGTTCTTAGGAAGACCACCTTACCTTAATCCAACAAAATTCAAAATTCTAGTCTTAGTAATCTTCACTAATAATCAGAATTGTATATACATGTGTATATATATATATGTATGTACATATATATATGTGTATATATAGTCTATGTACATATATATATGCATATATTTATGTCATAATAGCATTGTTAGCAACATCAAACTTGCCAACAGCAAGGAACCAATTGAATATACATCACGGTGTATCCACATAGCCATGAAATACCATGAAAAGTGACTTTGCGTGTAAGAATATTTAGTTCAGAAGTATATAAATTAAAAGGTAGCAGGGATACAGGCATGGTTGTACATACCTGTCATCCCAGAATTTGGGAAGCAGAGGCAGGAGGATCATGAATTGGAGGCCAGTCAGAGTCATACTGGAAGACCTTCTATAAAAGAAACAAAACCAAAACAGAGGAATCAGCAAAAAGTACGGTACATATCAGTTTTTTAAAAAGATGTCTTAATACCAAAAGAACAAGAAAAGGGGGGGGGTGAAGTAGTATTTTAAGAACAATTTGATTGTTGTCCCTTCATATATTTTAGAAATCTATCCATTGTCTAAAATGAATTTTTTTACTTTGATACTTTTGAAATAATGTCAATATTTTAAATTTGAATTTAAACCACTCACACATATATAAAATATGACTTTAAGGTGACTTAATTCTGCTTTGAG
Seq C2 exon
GTATCTGCTGGGATTCCAGGAGAGCCAGGATCCCCCGGGGAGCCAGGACCCCCTGGAAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023007:ENSRNOT00000056414:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(38.5=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]