RnoINT0040253 @ rn6
Intron Retention
Gene
ENSRNOG00000010663 | Col6a5
Description
collagen type VI alpha 5 chain [Source:RGD Symbol;Acc:1565804]
Coordinates
chr8:114533343-114543947:-
Coord C1 exon
chr8:114543739-114543947
Coord A exon
chr8:114534030-114543738
Coord C2 exon
chr8:114533343-114534029
Length
9709 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
CTAAAGTTACTCTGTTGCAGAAC
3' ss Score
5.36
Exon sequences
Seq C1 exon
ATTGACGGCCAAGCTGCATGAGGTTTCTGCGAGCAAGAACAGTCCGGCTGGTCAAGAGCTGAAAGCCAGGAAAGACTTGTCTGTAGTGTTGGAGGATCACGGAGGTGACCATTTGGTTTACATTCCAACCCATATGGTAGAGCCACATAAGTTAGCGAGTCACTATGGAAATGACCAGGAGTCTGTTAGAATGGCAAGCCTCACTTCCG
Seq A exon
GTAAGAACACCAACCAGTGACGGACTATTTTCAGTGATACGGAGCCCTGTCTTTTAATACTAGCACAGAATTAAATAAATTGAGGGCTGGAAATCTAGAGCAACTTAGGATGGCGGGTTCAGTGGCAATTATCACAGCGAAGGCAGTAGGGGACGACAGGTACAGCCAGGGGAGTCTGCACATGGTCTCAGAAACGTCCATGATGCACTTAAAGAAATTAGAGCGTGCAATTCAAATGGTTGGTGCAATGCAGAACAAGAAAGTGCAGAGAATATCAGAGCGAAATGGAGATTAAAGCAACCTCTATAACTTGGCCTGGCCGTTACCCTAGAAGTTTTGCTTACACAAGAAGGTTTATGTTTTATTTTTGAGATACCCAGAAATGTCAGAGTGAGCAATTCCCCCATGGCTTACTCTAAATATTTTAATGTCAACATTTTAATAGCTTAAAACGGACTAATTTGTAGGACAGTAAACACTTATGATACATAAAGGTATCTTATTCTCGTTTGACACTGTGAGGGACTGAAGAGAAGGCTCCAGGTCATGGCTGCTCTTGCAGAGGACCTGAGTTCGATTACCAGTACCCACATGATGGCTCACAGCCGTCTGTAATGTCAGTTTCAGAGGACCGGATGCTCTCTTCTGGCATCTGCAGGCACTGTACACATGTGGTGCACAGTCATACATGCAGGCAAAACGCCCATACACATAAAAGAAAATACATATTTAAAAATAAAAAATGGGGGTGGGGGAATTTCAAACAGACTGCTCAGCCATCCAAACTGTGTTTCCAGAATCTTCCAAAATTTCCATGTGGCCGGAATGTTGGCATTTTAAGTATTGCATCCAGTGTATCATATGCATGACTAGAATATGCAAATATATTTTTAAAAAAGGTGAACTTCACACTGTATTATTGATCTTTGTAGCTTCCTGGATAGCTCTTCTTTTTCTTTTCCTTCTTTTTTTTTTTTTAAGTATAGAATAGAGTTTATTCATGGCATGGGGAGGGGAGCTGAGAGAGAGAGAAAGGCAGAGAGAGCGAGAAAGAGAGAGAGAGAAGAGAAGAGAAGTAGAAGAGAAGAGAAGAGAAGAGAAGTAGAAGAGAAGAGAAGTAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGTAGAAGATGGCCATGAACAATTGGAGAGAAGGGGAGGGGAATGGAGAGAGAGAAGGGGAGAGGGGACAGGGCAGGAGCAAGAGCTCTTCTTTTTCTTAGCTTTAACACTTGTGTCCCCATAAGTTTTATGGAAATATAAGGATTTGGACTTTACTTTTAAAATAGCCAAACCAGCAATTGAACATAAAACTTCAAAAACACTTATGGAACTGAGCTCTTTTCTGTGTTGAATGCATCCTCTGTCGCCCCACAGGCATATTGCTTTTCCCAGCTTTCTTCAACTGCATGCTATATTCATACAGCATCGTGTCTAACATTGTCCAAATTCCTGCAAACTCCATGCTGATGTTTCTAAACACTCTCATAATGTCCCTTCAATAAATGAATGTATTTAACTGTTGACCTCTTCGTGAACATGTAATTTGATTCTAGTTTTTGCTGCCACGTATTCAACTTACATATACATACGCTTAAGCTTAAATCTGCATTGGATGGGCAGAGTCGGCCTCCATACCACCCCTGGAATGTCAATCAACCGCTGTTCTGCATTGCATCAGCCTCTGGCCGTCTGCACCGAAGACCTGACCGGTTTGACCAATGCATGCCATGTGGTTGGTAACGGCTATGTGATCACTTACAAATGATGACATACATTCATTTACCAAACCTTTAACTTGCATCAATAATTTGGAGAGTTATTTTCAAATGATTTTGGTGATGCAGTTCTGGTATTTAAATTTTTTTCAATTTAATATTTAAAACTTGCTTATAATAAACCCACCCAGAAACACGAAGCACAGAGTAACTTCATTAAAACCAAAGGGCAGGTTTGCAGGTGTATTGGGTGTGGTGCCTCTCAAAGGAGGTAGTGCTTTTCCCTCAGGAAGCAGGCCTTTCCTGCTGACTCTTGTTTCTGAGCACACAAATGGTTCATAAGTGATGTTCTGACAATCTAAGGACCACCTAGAAAAATCAAGGCCACAAAGAACAGCTGTCCTATCTTCAGAGGAAAGGATGAAATCTGTTTTAAAGTTGTTCCTACTTAAATGAAAAGAGGTTCTCACAGAAAAACAAGAGAATTGTAAGGGTTTCTGTTTCCCCGTGGCATGTTAATGGCGTGCAGTGGTGTGTACAGACTGTGCCTGCCTCCCCTGCTTTCCTCACCCTGGAACCCTAGCCAATGACCTCACCAGACAGAGGGGAGGACAGGTCTGGGCGCTGGAGTGAGAGGAAAGGGTTCATAGAGTACAGCCAAGTCCTCTGCAGATAAGCATGCACTAGCACAGTGGGGCTGGTTGAGTGTGTCTGTCAGGCCAAACAGGCTGCATTTTCTTTCCTTATCAAAATTCTGCAGAATTTACAATCATCAGAAGGATTTTTGCAACCCTAGGCATTTTCTTCTTGTGTACTTATAAAGATTAAATTCGTGAGTGCTTCAAGTTGTTGCAAACTATGCAAACTATTCCATTTTTACCCCCCCAGACCTGGTGAGATTGTCATGTGTTAGCATGGCATTCTGTACAGAGGAACTGAGGCATGGAGAAGAGCAGGTGTCACTGAATTAACAGGCAGAAATAAGACTCAAACTCCTAAGACCTGTCCATTAGCACCGCTCTGCAATGCCCACTGGAGGAAAAGGAAGGCCAATTTCATTTATGTCATGGTATACTTTTAGAAGAAAATATTCTTTGGTGGCTTCTGTCAGAAGGAAGACCAATAGACTGAAGACAACTTTCTTCTAGTCAGGTCCCTGAGCCTTTCTCGACCTGGTTAGTGTGTACTTTACTATTTATGCCCTACCCTGCTGTTTGATGACTCCTTCTTCTGAAATAGTCAGTCATTGCGACAGAGTTTGGATAGGTTCTGTCTCTACTTCTAGGCTTTCATTTTTTGGCTAAATCACTGGACATCTCCAAGCTTAGGTCCGCTCAAGTATGAATTGGGAGCAGTGGCAATCCCAGTCTCATGCTAAAGGACGATTTGATGAAGAGAAGGTATGTGGAGACCTGAACCCAAGACCCGAAGTGGATGGACACTCAGTTTAGGACCAGGCAGCAGAAACTTTGTGGGTCAGTCAGATGTTGGGAAAATGTTGAACTTGAGCAATACCAGCTGTACGGAGCTCTAAGGCTCAGTGGTTAAGAGCTTGCTGCTCAACCCGGGTTTTGCTCTCATCACTCATGTGGTTCATAATCATCCAGTTCCAGGGGACCTTGCACCTTCTTCTAGCATCTTTGAGCCCCAGGCACGCAAACACACACCATTGTTAAAAAGGGAAAAACCAAATATTGTTCACATAAATAGAACTCTGTACATAATTAGCCTCATAGCTTATTTTTAAAAACCCCATGAGGGTTGGGGATTTAGCTCAGCGGTAGAGCACTTGCCTAGCGAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCAAAACAAACAAACAAACAAACAAAAAACAAAAAACAAATAAAAACCCCATGACTAAAATGTGAGGTGGTGGCACAGGCCTTTATTCCCAACACTTGGGAGGGAGACGTAGGCAGACGTCTGAGTTTGAGGCCAGCCTGGTCTACAGATCAAGATCTAGGGCAGCCAGGGCTACACAGAGAGACCCTGTCTTGAAAAGCAAACAAACAAAAGGCAAAACAAAACAACGATAAACAATAAATGCCAAAGAAGATGGAAAAAAAACCCATGGCTAATTTTAGCACTAGTTAAATTCCAAGACTGCCCACTAGATAACTCTCAAATATCTAGGAGATTTACCACAAGTGTCATGACAGACAACCGTACGGGTTCAGCGTACTCATCCGGTCCAAAGGGTTCATGCACCTAAGATGCTCCCTGCGCCCTAAATTTCCGTTCACACTCCCTACTTGGCTCTACACTGTAATGTCTTTGGTTAAAGTTTGGCTTCTCTCTGGGGCGTACTTCCCAGGAAACCTGACCGCATCATTCCTTCTATCCAAGTCTTGTACGTGGTAGTGAGCCAGATATCACTTCTCTGCCCTTTTAACTCCGTTCTTCCACAGAACTGAAGGCAAGAATTTAGTTACATTAACGGTTGTGAGCGAATGTTGAGCATTGCTGCGAGCTGTGTGCATATTTTATTTAGTCTCCTGCCACGTTTTCTTAAAGGTGAAATAGATCTGAAGCCTGAATCTTCCCAAATTGCATGAATTTAGACTCAGAACAATCCTGCCTTGGGTTGGACTAGATTTTAGAGTTTTCAAAGCACGGTCATCTATATTTAGTTTCTTTGATTTTTTTTTTCATGAAAGTCTAAGTACAGAAGGAACCTATTTTTAAGGGTTTCTTGTAGGTGGTTTGTGCTTCTTTAGAAAAGGATTTGTTGCTGGGTGCTTGGGGGAGGAGATGAGATTTTAGTTTATTTATAAAAAGAAAACTAAAAACGAGAGTGATATTTCTGAAATGGAATGGCATTTCTCTACTCTGGTCAGTCGGTACTTCCTCTCCACCATAGCCTCTGTGCAGTCATGGCCTCTGTGTTTATGGATGTCTGCTGGTTGGCTCCTGTACTGGCTGGTTTTGTGTGTCAACTTGACACAAGCTGAAGTTATCACAGAAAAGGAGCCTCCCTTGAAGAAATGCATCCATGAGACCCAGCTGTAAGGTATTTTTTCAACTAGTGATCAAGGGAAGAGGACCCAGCCCATTGTGGGTGGTGCCATCCCTGGGCTGGTAGTCATGGGTTCTAAAGAGAGCAAGCTGAGTAAGCCAGGGGAAGCAAGCCAGTGAGTAACATCCCTCCATGGTCTCTGTATCAGTTCCTGCTTCCTCACCTGCTTGAGTTCCAGTCCTGACTTCCTTTGGTTGATGAACAGCGATGTGGAAGTATAAGCTAAATAAACCCTTTCTCCCCCAATTTGCTTCTTGGTCATGTTTTGTGCAGGAATAGGAACCCTGACTAAGACAGCTCCTAAAAAGACTGATAAAAGCTGGAAATCAGAGCTCATGCTCATATTACACGTAATGATCAGTCAAGTTCAGAACCACGAACTCCCAAAAGACAGAAATGCCCATCCTCTTCTCTGTACAGTCCCTCACATGCTGCGGCTGTGATTCTCAGAGATGGTTTGACAGTGCTGTGCATTATGTAGACTGGCAGCAAAGGGCGCGACAGGATGCACTTCCTGTCCACTGATCAGCCGTTTCATCAGGCCTTCCACCTGGACCGAACGTTCAGTAAGAGCTTCAAACTGGGTTTCTGGTGGGGAATGGGAGGCCTGCACATCTCAAGCAAGCTTATGAAGTGCTGAATCCTGTTGGTTTCTATAAATGTACTAGGAACCTAGTACAAATGTGACCGGTTCTTTATGCTTTGAGAGAAGGAAGCAGTCCTGTACCCTCCATCTTCCAATGATCAGTATTTCATAACAGAACCTCCTAGGGTAGAATAGAGGGACCAAATCCAGCATAAACAACAGGGAAAGAAATCCACACAGATGAGTCAACAGTTAAAACAATGGGCTGGACAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGCCCTGAGTTCAACTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGTCCGAAGACAATGACAGTGTATACATACACATAAAATAATTTTTTAAAAAGTCACCTGACTTTAGGAAGCAAAAGTCTGCAGATCCTGGGAGATAGAGACAAAGGAGGTGAGCAGCTCAGATTCTCCAACTTTCCTGACTAAGATTCTATGTGAAGTGAGAGAATTTTAGGTGAGCCTCATGAGTTCTCAAAGAAGAAAGAGAACTGAAGAGTTCAGGGAGACCAAGACCTAAGGTTCACAGGACAGAAAAGAGAACTATACAGAGAACTCCAGAGATCTGTAGATGCTCTCCTGGCACTACTCACCAGAGTACAGTGCCTGTTTATGTGGTGGTGGCGGTGCGGGCATGCATGTGCGTACATGAGCGCACTCTCACAGAGGACACTTGGTGTCCTGCTCAACCATTTGCTTTACTCTCTTCATGGTCCCTCACAGATGGAGCCAAGGTGTCAGTCAGTGAGCCCCAGAAACCTCTTGTCCTTGCACCCCACAGTGCTGGGGTTACAGGCATCATCATATCCAACCTTTCACCTGAGTGCTGGGATTCAAACTCAGGTCTTTATGCCAGCATAGCAGGAGCCTTTACCCGCTGAGCCATTTCTCCAGCGCTCATCTGTAGAGATGAAAACCACAGTATTGGGAGGAACAGTAAACAAGCCAGAAGGTCAAAGCAGGCAGCTTCAATCTGACAAAAGGAAAACAAAAATAGCAGCGCACTTGAAAGATGGCAATGGAAATTACAAAGGAAAAATGTTCAATAATTAGATGTAAAAAAATCAGTGAGTTTCTATAGTGTCTCCTAATATCTGATAGAAAATGAAAGAACAGGCACATGGTAACATTATCAGCTAATGTAAACTACTTGACACTTCCAAAACAATCTACCCAAGAGCGGAGTGTACATTTTTTGAAATGTTCTTGAAATACTTGCCGAAATAGACCGTTGTGTCCATGTGTTAGAAAAATGTTTGAGAATGTTAAAGGATTCAAGTCACAGCAAGTATATTTTCTGACCCAAATAGAACTAAAGTCAAAACAATTAGCAGAAGGATCTTTGAAAAATCCCCAAACCTTTAGAAAGTAAAAAAAAAAAAAAACACTTTAAAATAATCCGTGGCTGAAAAGGATTTCAATAAAGAAATCAGAAATCATTTTGGAAGGAATACAAATGAAGCTGACATTCCTGGTCTTCAAGACCTCAGTAGAGCATAATTAGAAGAGAATTTTAATATTAAATGCTTACTGGAAAAAATATGAATAGCTTCCAATCAGTTATTGCAATTTCCATCTTAAGAAGGCAGAAACAGACAAGCAATTCCAGAGTGGGCCGAAGGAAGCAATAGCATTTAAAGTCTCAATGAACAAGAAATGATAAAAACAAACAAACAAACAAACAAAAAAACAGTAAAGCCAAGAGTCAGATCTCTGAGGTTAATAAAATCGATAAAGCTATAGAATCAGATTCACCAGAAAAAGTAGACACCTATAACCAGTGTTAGCAAAGAGAGAGGAGGCACCTTCTGTGTTCTACAGCATTCAAAATGATAACAGGAGAACGTGATGAACCACTGTTGCATATAAATTAGACACAGTGTCTTACAGTATGAAAATCACCACAGTTCATTCAAGAAGAAATAAGGTAACTAGCTTGTCAAAATGATTGAATTTGTACTTGAAGTTTTCCCATGATTTTACCACGATTTCAACAAGTTTTCTCAGAAATGATGAATATCAATTCTTTTTAAAAAGTATTTCTTTGAGACAGGGTTTCTTTGTGTAGCCCTGGCTGTCCTGGAGCTCACTCTGTAGACCAGGCTGGCTTCCAACTCAGAGATCTGCCTGCCTCTGCCTCTGGACTGCTAGGATAAAAGGCACGGACCATTACTACATGGCCATGAACACCAATTCTATACAAACTTTTCTAGGGAATTTAAGAGGAAAGACTATTTACCAACTCATACTTTGAAGTCATGTTACTTTGATACCAAAAACAGACCAAGAAAGTACATGAAAGGAAAACTATATTCAACCATTATTTTTTTTAAAAAATTAGATTTATTTATTTGTGTGTGTGGGTATTTTATCTGCATGTGTACATGTGTGTAGTATATGTGCCTGGTACCTGAGGAGGTCAGAAGAGGTTATTAGATTCTTTGGAACTGGAGTTACAGATGGCTGTGGGCTACCCCGTGGGTGCTGGGAACTGAACCTGGGTCTTCTGGAAGAGCAAAGCCACTAGACCTTTTTTTTTGAGACAGTATCTCACTATATACCTTTGGCTGGGGACTAACTATGTAGACCACACTGACCTTGAACTTAAAGAGATCTTCTTGCCTCCTGAGTTCTGGGATTAGAAGAGTATACTACAACACCTGATCTAGACCACCATTCCAAATTAATATAGATACAAAATATTACTCTAAAAAGGGATTTAGCAAGTCAAATCCAAGAATGGACAAAAGGGTAGTGTGGTTTTTGCCCCAGGTTCATTGAACATTCAAAAGCCTGTCTAATAAAGCATTTCCAATGTTGATAAAATCATTTGTACTAATCATGTGTTTGTTGCATCCTATTTTGATATTAGCTTTAATAGCATTAATATAGTTTTGTGGGTTCATTTATTGTTTGGAGACTAAATAAAGCATTAAGTGTGAGAGCTTCTATTAACTGGTTGAGCAGAAATAGGAATCAGCACAGCTTTTGCCCGTTAGAAAGCTACTGATTGTGTGAGTGAGCTTATAAACACACTTCTTTAAGAGAGAAAAGGGACATTGGACGTCCACTTCCTATCTTACAGAGCTGATAATTCTCCCATCTCCCTAGCCATCCTTCTCTCCCAGGAGTGTAGTAAGCTTTCACAATCCCACAGATTTAAAGCAATGTCACTGGGAGTGACAGTCTTCAGCAAAATAACTTGCATCAGAATGTAAACCAAGAGGGATGGAGAGATGGCCCAGTGGAAGGGGAGCCTTCCTTGAAGCATTAGGGCCCAAGTCAAATCCCCTGCACTCATGTAAAAGTTGCACATGACAGCATACAGATGTAACAGCGTATGGGTGGGGTGGGATGTAAGGCATGGAGACAGGTGGGTCCCTGAGCTCTCAAGCCAGCCAGTCCATCTAGCTGCAAAAACAAGGGCCAAGTTCAATGAGAAACCGGGTCTCAAAAAGGTAATGTGGAGGGTGATATAGAAAAACACTCAATTCCAGTGTCCAGCCTCTCTACATGCACACACATAGCAAGTATAGTTACACACACACACACACACACACACACACACACACACACAGAGAGAGAGAGATGTGTAAATTGGAGTATTAATTTCTTCTCTGAGAACGCTTTATAGAAAGCATGTTAACTGATTTAGCAAGTGCTTACTGATCGCATTTGACCCCAAGTTCCTTCTCTAGTCATGGGCGTATGCCGTATCTTACATAGCAGCAAGGTTCTAAAGTCAGTACTGACTTCCAGCTGTCCCATAATGTTGCTTCATGGATGTTGTTTTTATCTACCATATATGCCAGCACGTGGGTTGTAACTTTGACATCTTTACTTTCTCTTGTGTTTACTCCTTATAACTAAACAGTCAGTAGATGTGAATGCATGCTGCAGGCTTTGTAGCCATGAGGAAGAGCTAAAACTAGGGGTATATTTCTCTTCTTGCATTTCAGAAATACCCAAAGTTGGTAGCAAGTAGATTTTCTTTGTGACATTTGTCAAATGGAAATAACTTTGCACCAAGTGAAAAATGTCTCTCAGGACAAGTACAAGATTGATTAGTGTTATCTGCTATTATATTGATTAGTTATGTCTGTCATGGTGTGGGAGTGAAGAGTAGTAAGATCCCATGGGCATGTGTTTACATTCTTGTCTTAGAGTTTCAAGTTAACCCTTTCACTATTAGTGACTAAAGTTACTCTGTTGCAG
Seq C2 exon
AACATGAAAATCATAGCAGAAGAGAACTGAGTCTTGCTCAAGAGCCTGGAGATGCTTCTCCTCAAGAATATTACATGGATGTGGCTTTCCTCATAGATGCTTCTCAACAAATAGGACATAATGCGTTTACAGAAGTGAGAGCTTTTATAACTTCAGTACTAGATTACTTTCACATCACCCCAGCTCCACTGACCTCTGTCTTAGGAGACAGAGTGGCTGTCCTGACCTATTCTCCTCCAGGCTATCTGCCAAACACGGAAGAATGCCCAGTCTACCTGGAATTCGATTTGGTCACTTACAACACTGTACACCAAATGAAGCGTCATCTCCAAGAGTCTCTTAAGCAACTCAATGGAGATGTTTTTCTTGGGCATGCCCTTCAGTGGACAATTGACAATGTCTTTGTAGGAACACCCAATCTGAGGAAAAACAAAGTTATCTTTATAGTAACTGCAGGGGAAACCAACCCGTTAGACAAAGAAGTTTTAAGGAATGCATCTCTGAGAGCCAAGTGCCAAGGCTACTCCATATTTGTATTTTCCTTCGGTCCTGTACACAATGACTTGGAGTTAGAAGAATTAGCAAGTCACCCCCTGGAGCATCACTTAGTCCGGCTTGGTCGGGTACACAAGCCAGATTTGGACTATATCATCAAGTTCATCAAGCCATTTGTTCATTCAATCAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010663:ENSRNOT00000038160:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.451 A=NA C2=0.074
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009223=VWA=WD(100=80.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]