GgaINT0125567 @ galGal3
Intron Retention
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5356301-5362117:+
Coord C1 exon
chr17:5356301-5356345
Coord A exon
chr17:5356346-5362063
Coord C2 exon
chr17:5362064-5362117
Length
5718 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
CTTTGGTGGTGTGTATCCAGGGT
3' ss Score
5.7
Exon sequences
Seq C1 exon
GGGCTGATAGGAAACCCTGGAGAACATGGACTGAAAGGTGATAAG
Seq A exon
GTGATCTGAATACTCCCTTATTGCACTGTGTTTTAATTTTGCATGTGAAATCCCCTTTCCAGCTTCTGTTTCTCATCCAGCACCATAGCAGTGCCTCCACTCTGGCTTTCTTTGCTCCCATCCTTCCATCTTTCCCCTTTCAAGAAAGTGCAGTTTTGATTTCTCTTTCTTCTATGGTATCTGTCCCGTAGCCTTTTTCACAGAGCCCTAGAGTAGATCAGTTATGCTCAGCTCTTTGGAGCTTTTCTGTCCCGTGGGTAGTGCTAGTAGCTATAAGATCATCTGGTGGTTTGCTGGGCTTTTATGTTTTTATATTGGTTACATGATGGGATGGAGAGGAAGATGAAAGCCCAACAGCACCGACAGTGCGTTTGCATTAATGCATTTGGGGGAAACATGATATGACAAAGCAGCACAGCTCCCTGGATCGCCAGGGTGTGTTTGCTATCTGTGCTCCTGCTCCAAGGGGTTCACCTCACCTCTGCTTCCTGCCGAGAGGAAATTGCCTGATGCCAAACTGATATAAATCACTTTAGAGAAAGAGAAGAGGAGAGGGGCATTGATTGCAATGATTTAGTGCTGCTGGCACAAAAACACGCAGCTTGAGCTACATCAGCACGAATCTGCGTGTGTAAATGTCTCATTGTCCATGAGAGCCATCCTCCTACAGATATTCAGCTGCAGGATTTATTTAGTCTAAAGGAGTGGGAGGTGCAGTCATCGCACTGATTGCTTAGCAGGGCAATGCACAATGACCTTTAATTGTATTCTCCTCCTTCTGTGTGACGTTTTTTCTCTTATTAGATGTTTGCTTTTAGAGAATGATTTAGCAGCCCAGAACTGCACATGGAGGAAGTGGTGTCAAGCCAATTATTTCCACTCTCCTTACGTTACAGAAGCTCTTTGCCAGGGCTCCTGTCTGCAGTTCCCATTTCTCCCCTGTGCTGCCTTTTCACTTCTGTAGAGAGGAAGGAGAGGGCAAGAGAAAATCGTCTTCTCTAGGACAAGTTGAAGACATTGGAGCTGGTTTCTTGGCTCAGCACAAGTTCCCAGAGCCCACAATCTCTTCATCTCTTCTGTCCGTTCCTTGGAATGCAATCAGAACTGGAAAGCATTTAAGTCAGTGTTTAGCAAAATCAACCTTCATGGCCAGTGCAGTCTCCATTGCTTTATACAGACCACTGTGTTTATCCCCACTATTTCTCCAGTTGTTCTTATGACGTTACACAAACAGTTTGCGTCTCTCACAAGGGTTATCCTCATGACAGCCCCAAGAGCAGAACTATCCACCACCCCCCAGCAGCCCTCTACTGTCTTGCAGATTCTCTGCTGGGGTGATGGGAAGCTTTCCTCTCCCTCTTTCACAGCCTCTCCCATTGCATTTCCCTTGGACAGGACAGACTCCCCTCTTGGCTTTCATTGACTCCCATGATTCTTTAGTGAACTGTGCCTTTAAGCCATTTTATTTTCTCTCATTCTGATTTGGGCTTAATGAGCAAAAACACTCATCCCCTCTTAGAGCTTGTTTACATTGTGCTTTAATTGCTTACACTGCGGTACCACTGAGAAATGCAAATGGCAGCTGCTCTTGCTGCAGTTGCTCCGTCTGTAGCAAGGGAAAATCTCTGCCTTCTGGGGCTCACGGTCTAAATGCAGTTCTGTCACTGATAGTTTCTGCTGCTGTTACTTTTAGGTTGCAAAATCTTAACTGGTTTCCCTGATTGCTTACTATTATTTTTCTGCCTGTTAGATTTTGACTTCATTATAACTCTCCATCATCATCTCCAGACAAAACTATCTTTGGGCTATGACCAGAAACGTAAACAACCTGCCTGCATCATGGATTTATTCCCTCTGTCTGTCAGTCTGAAAGTCTGCCTCCTGCCATTCTTGAAACATTTCCAGACAATGACTGTTTGCAAATCTGCCTCTGCAGAGATCCTCATTCATAGCCTGGTTACGTCCCAGATTACAGTTCCCTTCCCTGTTGGACGTTCAGGGTGCAGATACCAAGTTGTATTCAGCTAACTAGTCAGAAGCAACAGTCCAGCTGCTACACAGCAACCCTTCTGCTCCATCATGGTGCCAGGAAGCTGGTAAACACAGATAGAATTCATGTATAAAAAGAAGTGCTAGAAAGGTGAGGGTCAGCCTCTTCTCCCAGGTAACAGCGATAGAATGAGAGGTGATAGTCTCATGTTGTGCAGGGAGGTCCAGGTTGGATATTAGGAAACAGTTCTTCTCCAAAAGAGTGGTGCTGCAGTGGCACAGCTGCCCAGGGAGCGGTGGGCATATTGTCCTGGAGGTGTTCCAGTGGAGATGTGGTACTGAAGGACAAGCCAGTGGGCATAGTGGGATGGGTTGGGGTTGGACTTGAGGATCTTGGAGGTCTTTTCCAATCTGAATGATTCTGTGATTCTATGATCTGCAGAGGTGGAGATCAGCAAGCCTCACTCTGTGCTGCCAGCAGTCAGTAACCATCTGTGTAACCGTTAGCAACTTGAAGCAGATGAGAGCATCCCTGAGGGGCCTCACACCTTCCATCCACCACCAGTCCTGGATTCACCCACACCCAAGGAGCGGTCAGGGTTTTCGGTGTCCCACATGCTCCTTGCCAAGGGACAGTCCATTTTCCCATCATATTCCTGCAGAACTCAGCCTGTCCTGCATACCTGTGCAGCACTGCCCACACTGCACCTAGCACCTCAGGGCACCTGGAGCACAGCCCAGGCCACCACTCATGGATGCTCTTCCTGTGGATGTGCTGATGAAGCTTTAATTAGATGTCAGCAGTCCCCTGCACAGCCCATCTGCCTTGGGCGCAGGCCAAGCTTGTGGCCTTGTGCAGATTTGTCTTTTTGTAGCGGAGGAAAACTCCCTTCATTTAAAAGCATCCAGATCAGAAGTCTTCAAAACCCAAATGCAACACAGGGTGGCTGGGTGGGGTATGCAGGGTCCTGGGGCTGCCACTTCCACCCAGCTGGGACAGATGCTGCCTGCAGTGCTACATCCTTCAGGAACGTTGCTGCTGTTCTCCTTTGCCGTGGAAGGGTTTCTTCATTGTATTTTAGGCATTATTTCCTACATTACCTTGTTCAGTATTTTGCAGGGTGCCATTCTCTAACCCAAACGCATGCATCACATGCTCAGGTATGAGCTAGAATAAGGGGCAAAGTCTCACTCCTCCTGCAGAAATCACATCTTTGTACCCAGACAGGCAAGTGCAGAGCATGCTGGGGGCTAGCCAGCCCCTTCTGCATCCTTCATGTAAGTTAATGGTGGGTTTTGCAGCTTCAGCTATACCACAAAATGGGTCTTTCTTGTGTTTCCATTTATATGTTTTCACAGAGGTAAGGAGAGGGGCCAGAGAGGGCTGCTCTTACAGGGAGAGATGAAATTGTATAACCCTGAAACTGCGAGGTCTTTGGAAATCACATGAGGTGATGAGTACAGAGGAAGGGTGGAAGAAGCAGGGAAAATCCCAGCTGCTGGTTCATTGGAAGGAGTTTTATGAATCAGGATACGTGCAGCTGGTGAAAGACATGGCTCAGTAAGATGCCTCCTGTAGGTTTGCATTGTTAGCTCCCCTCATATTGCCAAGCAGAAAGCCATAGATATGGAAATACCCAATCGAGAGCAATATACGGTTTTTGCACAGAGACCTTTGCGTCTTGCAGGCAGCAAACCCGCATCGTGTTTGCAGTCAGTCGCTCCCCTCGCAGCCCACTGTGTGCAGCGTTGCATTAAAAGGGGCCTCTGCATCTCTGGAGCTGCCTTTGTTTTATAGGTGAAACACGAAGCACAGGCAGTGCTCTCTTTGCAGTTTCAGACTGTGCCTCCCCCATCCCCACCAGCAGAGTCCTTTGGTGGCTCACGCTGTCCATGTAGAAAATTAAAGATTTGCATTTTCATCCCCAGTAGAGGTGATAAGGACTGTGATTTCAGAGCAAAGATTTTACTTAAAAAAAAAACAAAAAACAAACAAACAAAAAAAAACAGTTTTCCTGCTGTTTTCTGGCAGATTTGTTTGCCTGCTGATTTTGGTGTTTGAAGCCATGGAGTAGGTAAAAGAAGTGGAAAATTCAGAGAAGATGAGAAAAATCATGCAAGGGCTGTAAAAGGAGCTGGATCGTGCAGTATTCTTTTGGCCATCTCTCCTGCTTCTGATGCTTGCAGTTCATCTGAACAGGAGCTGTGTAAATAGCTGATTTTTTCCATTTGCATGCTTTGCCAAAAGAAAAGGAAGGGATGGAAAGTAGCTTGGATGAAGCAGAATGTTGGTTGTTTGACTCAAATTAAAATACTTCAGCCTAAAAAAAAAAAGGAAAAAAAAAAAGGATTAAAATTCATTTAACATTTTTTAAGAAGAGCGTTTCAGTTTTGCTATATAAAAGAGTTGTTTTGAAGATGGTTCAGTGAAATGTTCTCAGAACGTTTACCAAAGCATCTAATTTAGCATGAAGCCATGAAACGTTTCCACCGTTGAATCTGCACGCTTCTTTTAGTATCTTCCTTCTGGAAGGGTTGCGTCCAACAAATCCTTCCCAATTGAAGTCAAAACCATTCCCAATTTCATTATCCCCAGTTAGTTACCGCAGCAGTTATAATTATTTCAACTCTTTGATAACACGTGGGTGGTTTTTGCTGGAGTAGAAGTAGACTTCCTCTGTCATCCCTCTGTAGACTTTGGCTCTGTAGCAGAGTCCATATGTCTTCCATGTGAAGTACGTTTAACCATACAGCTCTGTGTTCTTGCATGGCTTGCTCCCTTAGTGAGGAGCCAAGTTCAGAGCGTGTGCTGTGCATGGGACAGAGCTCCTTTAGCAGTTACTTTGTTTGGGTAGTGTCAGCGTACCAAGTTTTTATTGTCATTCCTCCTATGGCTTCCCCTGTAGAATCTTCCTTTCTCTGCCCCATCCTTGACTTACCCTTTACTTAAGTAAATCACTGAATAAATGAGGTTGGAAGTATCCCCTCTGGAGGTTATCATAGAGCAAGGCTAAGGGGTAACACAAGATAGCCTACTGTCTCCAGAGATTCTTCCCTAAGGAGCAGGGATACTTATTTCTGCCTAGGGAGTCAGAATGTGTTAGAACGTCCTGAAGAGGGGTAAGAGAGCTCAGTTAGAAGGTACTGTGCCTGATGCTGTGCTCGAAGTTAGGGACCCCATCCCAAAGTACAGCAGCCTACCCGTCCTGGAAATCTCAGCCTAAATACTGGCAGTGGGGTGGCTCTAAAGCATTACTGCAAGTTCTTAGCAAGTTGTTTGCTTTTGGAAGAGGACTGATCTTTGGTGCCAACAGTAGGACTCCTGAGTATTGTTTCCCCTTGCTGTAGAACCTTATGAGAGAAAAGGTCAATTGCTCAAAAACTTAACTAAGTCTTCTGCTCAGCTGAATCTAAACATTTCACCACCTTCACGGTTGCTGTCAGCCAGAGGAACGTGCCACTCTTCTTGCAGCTTCCATGGAAACACAAGGCTTGCATGTTCATATTTTTCTTTCCCTACAGTTTCATTTTCCAATTCAAAAGCGGTGTTGGGAAATGCCTGCAGTGCTTAGGATTATTGTTAGAGTGAATATGATCTAGAGTTTGTCACCAGTTTTGAATGGAGCTAGTGATGAGACTTTTGCTATACAATGCACCATCTATCATCGACCTGGGCATTTTGGCCACTGCTGTTGTCTGTTTTAACTCTCTTTGGTGGTGTGTATCCAG
Seq C2 exon
GGTGATCAGGGAGGAGCAGGTCTTCCAGGAGATATTGGCTTCCAAGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958:ENSGALT00000011272:24
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(16.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
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]