RnoINT0040251 @ rn6
Intron Retention
Gene
ENSRNOG00000010663 | Col6a5
Description
collagen type VI alpha 5 chain [Source:RGD Symbol;Acc:1565804]
Coordinates
chr8:114545389-114548983:-
Coord C1 exon
chr8:114548327-114548983
Coord A exon
chr8:114545486-114548326
Coord C2 exon
chr8:114545389-114545485
Length
2841 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
TAACTTCGTTCCCTCCATAGGCG
3' ss Score
10.75
Exon sequences
Seq C1 exon
ACAAGTGTTTTCCAAATACTTGTGCAGAAGAGCCTTTCTTTCCTGAGAATTCCTACATGGATGTTGCATTCCTCTTAGACAATTCTCGAAACATAGCCAGTGATGACTTCCAAGCTGTGAAAGGGCTGGTGAGCTCAGTGATTGACGGCTTCCACATCACTTCAAACCCTTCAACCTCTGAGTCTGGCGACAGGGTTGCTTTGCTGAGCTATTCTCCCTCAGAGAATTCCAGAAGGAAGGGCAGCGTGAAGACAGAGTTTGGGTTTACAACCTTTGACAGCGAATCAATCATGAAGAACTACATCCACACTTCCCTCCAACAGCTCAATGGAGATGCCGCCATTGGTCTTGCCCTGGAGTGGGCCATGGAGGGTCTCTTCCTGGGAACCCCCAATCCAAGAAAGCACAAGGTCATCATTGTGATTTCAGCTGGAGAAAACCACGAGGAGAAGGAATTTGTGAAGACGGTGGCTTTGAGGGCCAAATGTCAAGGCTATATCATATTTGTGGTTTCTCTGGGCTCCACACGAAGAGATGAGATGGAGGAACTAGCTAGTTACCCACTCGATCACCATCTGATACAGCTTGGGAGAATGGACAAGCCAGAGCTGAGTTATGTTGTGAAATTTCTGAAGCCCTTTGTATACTCGGTCAGAC
Seq A exon
GTAAGTCATTACTCGGTCATTTTCCTTTGTTTTGATAGAGTTGAAGTATTTGGTAGTCGTATTGATAACCTAAGATCAGTATCATGAGATCTCTAACTGATCCAAATCAGGTAGTGACTTGGGGGAAAGTGGGTATATACCCTGAGTGGATCCTACTCATGCCTTGGGTGTTAGATGGTGAGACTTTGCTATGGTAGATTATCTCTGGCCCAAATCTGTGGAGTGAAAAAAAATCACAGAGTGACTAATGGTCTCCTGAGCTGCATTTTTTTTTCACCCAGAAGAAGTCCTAGCAGCTCTTGAAAAATATGGTTTGAGCATTTTGAATGGATTCATTTCCCAATCTTGGCACAGAGTGGAGAGCTGTGGGAGGCTGTGGTGATGACCAATCACGTCTCACAGGGATCCTAACAGCCTGGAGCAGCTCCTGATCAGAAGGGCTAGGGTGGAGGCTGAGGCCGCCGGTCACGGGTGCCTGAACGATGCTAGTGTTGTGTCTCGAAGACCATACTTTAAGCACCCTGGCTCCAGTCCAGCATGTAACGTGTCACCCTTGGGATATGGGCCAGCCCACAAAGTGACTGGTGAGACACCAGGTTCAAAGATTGAGAGAAAGCACTAGAAAGCTTTTTAAGAACTTAACAATGACTGCTGGAGGATAAAAGTGCAGGGTCAGTGGACTCTGTCTCATTGGAAATGATAAAGAGTCAGCAGTGTCAGCCTGCCGAGATTTAGACATAGCACCTTGTCCTGTCCGGAAATGTCTGGAACACTTTCCTGATGCTCCTACTTGCAAGTGCTGTTAGATAAAGTGCGTTAGATAAAATCGCACGTAGATAAAGGCTAGGGATGCTACAGTCGTTCTACCATTCACAGGATGGAGGACATCCAGCCCCCAGAACAAAACCAACCTAAGCCTGAAATGCCAAGAAGTTTGTGGAGGAACCCTCATGTTATTCTGCCTAATACAGAATTAAATAGCCAACTTATAGAAGGGAAGGGTTTGTTTTTGGTCACGGTTGTGGAGTTTACTGCCCAGAGTCGGCAGCCTGTGCTTTGTGTCTTTGGCATATCATGGCTGGAGTGTGAGAGAAAGCAAGTTTGCTTCCGTCAGAAGCCAGGAAACAAGGCAGACGAGGAGGAGGCGTCCAAGGCTCTTCTAAGGGTGCACCCTAATGACCTAGGTACCTCACATTAAACCCTACCTCCTAAAGCATAGGATATCGCCCAGTAACCCTGCCTGCGAGTCCAAGTCTAAACTTGTGGACTTCTAGGGGCATGTATCTATAAACCATAGCACTGTCTTCTGGAAGATTCCAGAAAATGGAGCTGAGCCTGCTCTTTCTGGAATTCTGGCAGGTTTAGAATGAGGTTCGGCACCCTTTGTTTCCCTGGCGTTGGAGGAATGTCCCCACACCTCATCAGGAAGGTGTTTCCTATGATTCATATTCAATCAGTGAACCCAATACCCATTTTCCCGGGAATGCTAGATTATTGCCTTTAGACCTAACATGGACTCATTTGGATGACATAAAAAGGAATTAAGAAAAATGCTTTCAAATACGTTTTGATGCTAACCTTTCAATTGGATTAGAGCATTTTATTTTATTTTATTTTATTTTATTTTATAGTAATCCTTTCAGCTGTACACCACCATATGTCACCCCAGTGCATGCACACGAGGAACACTGGTTCAGTAGAATTCCAGGTCATCCCCAAACAACTTCTCATGTGAAAGGGACTTCTTCTATATGCTCAAATCTTAGAATTCTGACTTCTCGACCTACAGGCATGGCTGTCTGTTGTTCCCCACACAGTATTGTTCTTTGTGCTCTCAGGATGGCTAACAATGTAGAAAGTTTTAAGAGACTCGAAGTATCTCAGGTCTGGTCCTGAGCAGGCAAGGGAAGTGGCTTTACAACTGAGGAAAGCTGATTCACTTTGTTCCCTGCCTCCCTGAAGGAACACACTTCATCGGATGGAGTTAAATGACAGCTCTTGCATTTTCTGGCCCTCTGAGAGCCTTTTCCTGAAGTGCCCACCCAGTTCTGGGCAGTTTTGCCTTTTCTGTTTAAAGCTCTGTGACATGATTCTTTCTTCCACCCTTAGCCACCATCAAAGGAACTAATCAGAGACACAGTCTCATTTTAGACAAATAGAAAATAAAAGTGTATCCTAGAATCAGAGAAATGAAACTCCAGGGATTCTTGGAGATGTTTTCACGCTTGAGTCTTACATCGTCAATAACCAAGGGCCTTGTTTCATCAAAATGTGTTTTCCTGCATGAGAGGAAAAAATTATAGTCCCTGGTACACTATACGGCTTATAGATAGCACAGAAAGAGCTCAAAGAGATGTGTTGTGTTAAAAGCCTTTCTGTGGCCCCCTTTCTCATAGGAAATCAGTGTTTATTGGCGCAGAAGCAAAGAAATAACATCATGTAATAAGACACCGTCTTTTCTATGTTTGAGTGAGTAGTTTAAGTCAGGGAGAAAAAGCCAAAGAGAACCAGAATAGATTGTCTTTCAGATTGTGTTAGCATGGGCATGCAGTACTCATGTGTTCCTGCATTACAATTAGCCCAGCCCTGAAGGGTTAACTTTGAGCCTATTCCCACGATCCCTGTAACACTTTGGTGCCCCCCCTCCCCAAATCCTCAGAAGCTGAAGTTGTGAATGTCATTTCAAGTTATCGGTATTTTCCATTTTCACCGTGGCCAAATGCTCTTGAAATGTGTTACTAACATTTTATTGCCCTGAGAGGATTCCTGTTGGGCCTCTCTTTGCCTAGAAAACCCAATTGCTAGTTTGGAAATCAAACTATAACTTCGTTCCCTCCATAG
Seq C2 exon
GCGGATTTAATCAGTACCCGCCGCCACAGATGCTGGAGGACGACTGCAGGCTTGTTGATTCAGAGAGGGGGGACGTGCTGCACAGAAGAAGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010663:ENSRNOT00000038160:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=81.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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]