GgaINT0050804 @ galGal3
Intron Retention
Gene
ENSGALG00000003923 | COL6A3
Description
NA
Coordinates
chr7:4802266-4807402:+
Coord C1 exon
chr7:4802266-4802868
Coord A exon
chr7:4802869-4806799
Coord C2 exon
chr7:4806800-4807402
Length
3931 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
GTGTGTATCATTGCTTGCAGTTA
3' ss Score
6.21
Exon sequences
Seq C1 exon
CTCAAGAGTCTGCTGACCTTATTTTCCTTATTGACGGATCAGACAACATCGGAAGTGTCAATTTTCAAGCCATACGCGATTTCCTTGTAAATTTGATTGAAAGCCTCAGAGTTGGAGCTCAGCAGATACACATTGGGGTGGTGCAGTATAGTGATCAACCCAGAACTGAGTTCGCTTTGAACAGCTACTCCACAAAAGCGGATGTTCTGGATGCCGTGAAGGCACTCAGTTTCCGCGGTGGCAAGGAAGCTAACACTGGTGCAGCACTGGAGTATGTGGTGGAGAACCTCTTCACCCAGGCAGGAGGCAGCAGGATAGAGGAAGCGGTGCCTCAGATCTTAGTGCTGATAAGTGGTGGAGAGTCTAGCGATGATATCCGAGAGGGCTTGTTAGCGGTGAAGCAAGCTAGTATATTTTCATTTAGCATTGGGGTCCTGAATGCTGACAGTGCAGAGCTGCAGCAGATTGCTACTGATGGAAGCTTCGCATTTACTGCCCTGGATATCCGTAACCTTGCTGCTCTTCGAGAATTATTACTGCCCAACATTGTTGGAGTGGCCCAAAGACTCATTTTGTTAGAGGCCCCAACCATTGTGACTGAAG
Seq A exon
GTATGTATGCCTTTCTGGACTGTTGCATTTTGATGAATTTTGCACGCTTTGAAAACAGTTTTTACTTTTTGGTTTTTGCAATGCATCTCTCTGATCTGATCTTGGAGAAAATGTGCAGCTAATGTGCAGAAACTCGTTTGCTCAGTGGGTTATCTTTTGAAAACCTGTGTCGTTATAATAGGCATGGCATGGGGTTTTAAAGAATACTGTATAAAAAGGCTCGTATAATCCTTACTGTGATATCTAAAGGGTATAAAAAGGCTCATATAATCTTCATTATGGTATCTCAGCACTCCTGGAAGTAAATACTGCAGCGTGTTTTGTGTCAGTAGAAAGTGGCATCAGAAGGATGGGGAAGCTAATAGGGATGGAACATGGATCCCTGTCTCCAGCAGTTGAATCACCTAACTTCATTGAAACTATGCACCAGCCTTAGGAGAAGGGTAAAAATGCGCTCTGAAGCCTCTATAGAGGATTTTGTCTCACTGGGCTTAAAAGAAAAACAACCCTTAGTTCTTCTGTAGCGAAATCCCTACTTTGTCTATCATATGTTTCCCCTTCAGTCCCTGAGTATGCAGCATTCCAGCAGGCCATGGAAGAACAAGAGGTCACTTTGTCACTCTAAGTCCTTACGGCCATTATGGCAGTAGAATAACCAATATCTGGGATTTATGCACTGGATTTATGGAGCACATATGTGATTAAGAGTTTCTCAGCCTGTGATTTTACAACTCAGTTAAATGTAGTGGTAGCGAGCCTTATGAAAGACCCAACACAATGCATTTCAGAGGCCCCTGGGAAAGGCCAGGCAAAGAGTTCCTGCACATAATCACCAGAATGCTTAATGCAAACAATGCTTTTGGGATTTGTGTTCCAGTCTGGAGTTCTGTACATACCGTTCAGCTCATGATGGATGTTAAAAAAGCTGCATCCCAGATGTCTTCTCTAATCTATGTCCAAACGCGTTTGCTATCTCATGGCTCAAATTTGCCTAAAAGATCATTTTATGACCTTGCCTCCATTATTTCTGGAAGAAACAAGGATAACCTGTCCTTGTGGCACTCCACAAGTGTCACATTTACCTAAATAAGTTGAAATGTGCACGTCCAGCTAAAATGTCCACGCCAGCACCCAAGCATGTCAATGGAAATCCCCTCTTCTGCCCCACTGATCTTAATGCTGTTCAAATCCCAGCGATTGGGTTGTTTGCTGGGACAGGAATCTTTAGTTCAAAATTATTTCCAAAGCTTTGAGCTTTTGAAATTAAAGTTTTCAATTTGGTAATCTGAAAATACTCAGATTAATTATGTGGGCACATCTGATTTCTTCTGCACTTGGAACATTTCCACTTCCAATGCTAGCTCGTTTGTAGAAGGTACTGCAACAGCCGATGCAATCACATATATATAGGTCGATCAGCTAAATAGAGAAGGTGGTGTTCTCCAAGGAACTTTGGGGAATTTCCTTTCCCTAGCATCCATTTGGATGGAGCTGCTCGATTCATGTTGATGCCTCGGATGTCTGCAGTGTAAAGCAGTGGTTTGGGACGCTCAGTGCATCTGGAATGGGATACCAAGCCGACTGGAGATGCCAAGCATTCCTGTCAAATACACAAGTAATCTTGGTTCACTTTAGCTCTGGGGCTGCACACTAGTCCTCTGGGGATGAGTGAGTCTCCCAGAGTACCTCTCTGCCTCTCTCTACTCTCTCTTAACTACAGGGGAAGATGAGGCATTTCACAAAAGACAGCAGAGATGTCACTGAGAAGGAATCTCTGCAGGGTCAGGCTTGATGGGGACATCTTCAGACATTCCTAGGGGACTGCATTAATCTTGAAAGTCCCAGATAGTGCTTTGGTCCCAGGAATTTGGAATTCCTGGCAGTCTTGCCATTGGTTTCACTGGGCGCTACATAAGAACCCATGATAGGTGTACAGCTTTCCCTACATATTTTTGCTTTGTTTCTATTGGAATTAACACCACTGGTTCTTTCTTCCTGCTGGTTTTGGGGTCAGTTCTTGCATTCCTCTTCTCTAAGGAAACGTACTGAAGGATTTGAGAGAACTGAGAAGAATTAATAGAGGAGGGAGCTGCTCCTCCGTGGCTTCTCTTGTCTTTGCAAAGCCCCTTTGATGTTTTCCACAAACTTCTATATAAAGTCAAAAGTTCCCAAGGTCTCCATTTTTGGGTATCCAGCTGCTGAAAAGCTAAGAAAGCACTACATTCATCTTTTCTGGATGACACAAAACAGGGATTTCAGGCGCTGTTCTCCACTTGGAAAATTTCCTGTACTCAGCCCTCTTCTCCTTGGAGTAATTGATGAGGAAAAAGCCTGTCTAGGGGGATAAATACTGGATGTATCCTGGCTCTGGGAAGGGGAATACTCAAACAAATCCTTGTTCCTGTGTGAGTAGCTCTGTTTGGACAGCCTGGGTGGTCAACGCACTGCTAGCCCATGGCATTGGCAGTTCAAGTCAGGTTGTAGCTTGGGGTGGGAGCTCTCATTCACTTCAGACGGAGTTTCATCACTTCTTTAATCTGAAACCACCACGGCGGGCTATTCTATGCTTCAAATTTTGATGGCCAGTCCTTCTTCAAACAATTTCCATCTGGTCTCTGGACGTGAAGGGCATTTGCAAGGCTCATGCTTGCCAACAGAGGCAGGTCCCTCAGGACAGCCACACTGCAAGAGTTGTCTCCAGCTGTAAATCACTCCTTGGGGTAGCCCAACCCTACAGTATTTGTCCATCATCAGAAACCCAATGGAGACCAGCCTCCCCAGGCAAAAAATGGCCTTTGCGAGCACTGCTTTCTGCAGCCAGCTGGTGTCTGGCCAAGGAGGACTGCAGCCAATGCTTTGTTCTTTGTTCATATCCAAAGTAAATATCCTCCACGCAGAGGAGCCCTGATGGGATGAAGGATTGCCCTTTTCCATCTGGGCACGGCATACTGTTTGCTACCACTTACCCCGAGCAGTGAGAGGTCCTAATGGCTGGGTCTCAGATTCCCTGGGGCTGTGCACTGAGTCTGGGAGATGATGGATAAAAGTGGGTTGTTTGAAAGATGGTGTTATCTCCCATCATGATCCATATAACGTTTTTGTCATAACGAGTGTTGGTCTTGTTAAAATCTATTGCTGCATCATGTACATCTGGTGTATTAAATATGACGGTGTTTTGGTTCCAATGCTGCACAACAAGTTTTTTTCTTTTTTCCCCCTTAACTATCTTCCTTCAAACAAAGCCAGAGAACTGGAAAGCTAAATGTGCCCTTTCTTCATCCTATGCCATCATCAATAATACAGTTTCAGAGATTACAACCTAGGATACCTATTTTGCTAAACACGTGGCAAGCAGGATAGAATTCAGCTCTTCCATGACTGGGCTGGCTGTGCCAAGAAAAACCATAGCTTGTTTTTGTTAGCTAAAGAATAAGATGTAGGACACGAAGACCCGAAGTCCAGGTACGTTGAGTAAGCAGAGATTATTCTTTACTTGTGCCATTGCTCTTGTGAACCCAGTCCTTTTGAGACCAAACCACTCTCAGGTTTTATTCAGATAGCTCCGCTGCAGACCGAGGAGCATCACTGTATTATTTTGTCTCACGTTCCAGCTAACTGCCAAGCTTTCACCTGAATTTTTGCCCTTCTTCCTTGTTTTGGCTTGTATGTATTTTTATAAACAATGCAAGTCTTGCAACTCTTCAGTGTTTTTGAAATGGGAAATACTTAAGCAGATTTCTTGCTAGAACCCGAGTTACAATTCTGTTATTTTTTTTTTAATTACGACCCTTAAAAAAGGAATGAAAAGTAACAGTCCCACAGACAAATAAGTCCTAAATCTTACTGGACTGTTGACATAGAATTTACGCGGAGGGTTGTAGTGGAAGACTTCACTGACGTTATATTCATGTGTGTGTATCATTGCTTGCAG
Seq C2 exon
TTATTGAAGTGAACAAGAAGGATATAGTCTTCCTGATAGATGGCTCAACAGCTCTGGGGACTGGCCCCTTTAACTCAATTCGTGATTTCGTTGCCAAAATCGTCCAAAGGCTGGAGGTTGGACCTGACCTGATCCAAGTTGCGGTGGCTCAGTATGCAGACACTGTGAGGCCAGAGTTTTATTTTAACACCCATCAGAACAGAAAGGATGTGATGGCTAATGTGAAGAAAATGAAGCTCATGGGCGGTACGGCCCTCAACACTGGCTCGGCACTGGACTTTGTGAGGAACAACTTCTTCACCAGTGCTGCCGGGTGTAGGATGGAGGAAGGGGTGCTCCCCATGCTGGTACTCATCACTGGTGGTAAGTCCATGGATGCCGTTGAGCAAGCTGCAGCAGAGATGAAAAGGAACAGGATAGTGATCCTTGCTGTTGGGTCGAGAAATGCTGACGTGGCAGAACTCCAAGAAATTGCTCATGAGAGAGATTTTGTGTTCCAACCAAATGATTTCCGCCTTCAGTTCATGCAAGCCATTCTTCCTGAGGTGCTGTCACCCATCCGGACACTCTCCGGAGGAATGGTCATCCACGAAACACCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003923:ENSGALT00000006250:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=86.1)
A:
NA
C2:
PF0009223=VWA=WD(100=85.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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]