GgaINT0125558 @ galGal3
Intron Retention
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5331195-5335471:+
Coord C1 exon
chr17:5331195-5331248
Coord A exon
chr17:5331249-5335426
Coord C2 exon
chr17:5335427-5335471
Length
4178 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTCTTATTCTATTTCAACAGGGA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GGAGACGTGGGCTTACCTGGTCTGACTGGGTTCCCTGGGCCACCTGGTAGAAAG
Seq A exon
GTAAGCATTTGTCCTTTTCTAGTGGATTAAATCACGATTTTTAATTCAAAATGTCCCCCTGTAACTCTACCACATCGTTGTTTCAACGTTAGCATCACCAGCAATATACCTACACCTACAAAAGCACTCACAGGGCTGGAACGTGAGATCCATCCTCGCCTTTATGTTGCAGCAGAGCGTGTGCACATGTTCAAGTGTACAAGTCCACATAGCAGCACCTCAGCAATCCATACTGTCTTCTATATCAAGCACACTTGAGTTGGCCTTCCAGTTCCAGGTTGTGTTGGTAGGTTGGCTCCCCAGGGAGCCAATACCAGCGTAGCAAAGCTGAATGGTTAAAACTAGCATCTTGATTCAAGGACTCCATCAGTAAATGGGTACTCCATTGGTAAATGAACCGCTGAGGTTGTGCTGCTGTTCCTCAGCCCAATTAGCTGCACACAAACACCCACTCACGTATGCCTTAAGACTCTGGGGAGAGAAAGAAGATGTGTAGAAGGCTGAAAGAAACCTTCCCTCTCCGTGCTCGCTGTATGCTTTATATTGGAATGAAACTGGAAGAAGTAGGAGCTCGGGTTGTTTGTTTCCTTCTCTCTCAAGCTTTGAGTGCTGTGTGGAGCTAGGAGCAGTAGGGGGATTAATTAGCGTTCTTCTGCAGCCACCAACTCTTAACAAATGCAGCGCAAAGAGTATCATTTTCCTGATGTAACAGCTCATAAAGCAAAACCTTGTGGTTACAATCAGCAAAACAACGTCAGGAGAGCAAGGCCTCATGGTGGGAAAAAGCGGAGACGGAACGGGAGATTGAACCAACATTCCTGAGTCTAGCACATGGCCTTCACATTTGATTTTGGCTCCCCCAGGACAGGGCAGAGGCAGGGATATGCTTCTGTTTCTCTCTGTAATGAGCGAGTTGGATGCTGAATTTTTTTCCTTTGGTGCAGCTTAAAAAAAAACACCTCCCAGTAGCGCTGGCCTGGCAGTGGTTTTGGTGTAACCTGGCTTTTATTAGCATCTTGCAGTAAGAAAAAAAAATTACAGCTGTTGGAGAAATGCTTGGAAAATTTTTTTTTTTTAAATCTGGATTCCCTGCTGGCATCTTCCCAGTGAAAATATGCTGGCGTTTGGCTGAAAATAGGCAACACAACTTGGCTACCAGCAAGCAGGAACGCCTTGGAAATGGACGGCCCTCCCGCTCACTGCATGGAAGGGCAGTTCTGAGGGCTTTGATCTGAAAACTCTCTGTAGAAACTTTCAAAGAGGCAGAAGAAAGAAAACACTTTTCTCGCTACATAAAATCCACGTCTCGGTAGGATGAGCTGGAGTCACAACCAAGCGGCAGACGGTTTTGGGCAGCGTGACTTGCAGCACGGAGCCGGCCCTCTGGATGCAAAGCTTTTGCTCCTTGTAGGGCTGGAGAGTCTGATCTGCCACGCAGATACCTCTCAGCACGGTGCTGCATCGTTGCCATCAGCCACAAGGGCTGCAGAGAGCCCATGGCTGCAGCCAAATGCCAGGTTGTGTGGGACGACAGCGGGGGGAGAGAGGGTGTGGTTAATGGGATGGGTGATGGGTTGGTGGTTGGGCTTGGTGGTCTTATAGGGCTTTTCTGACCATAAGGATTCTATGGTTCTTAGAAGCTTTGCTGAAGTCGCTTGGGGACTAAAGGCAGAGCTGGGAGGTGCTCAGTGCTTGCAAACACATCCTGTCATGCAGATCTCATTCCCTGCCCTCTTCACTCCTCGTTTCCTATCGGTGTGCAGGATGGCCCTTTATAGCTGGGAGAGCGTGGATTATAAATATCATCACAGATGAGCAAATCTGTCACTGGAGTGCAATTTCCTTTCTAAATCACAGCCCTTTGTGTCGAACACCCTGCAATCATCAGGAAGTGTTTGGATAAAGGAGCAAATGCTGTTGTTTTCATACCCTCTGCCCTGTCATTTTAGTGCTATTTGAAGAGGATTAACAGGTAAATGCTTCCACATTCCAGCCAACTTTAGCTTATACAAGCTTTTCTGTTTTCTCCTCATTATAATTAACCCAAGACAAAAATAACTGCAGTATACTGTGAAAAAAACACACACAGTCAGAGCACTATAAATAGCAAGGAGTGTATTTAATATGATGCAACAGCAGTAGAGTATGTACCTAACTTAAGTGCAATTCACTTGCCATTGCATAGAGAGCAGTGCAGTGCTTGGTGCTGACATTAGCTCAGGGGATGCTCAGAGTAAGGGAATAGTGGAGGCAGGGAGAGATCAGCAAGGTGGGATCTCAAGGGGCAGGAAATTCCCATCTCCAGCAGGTCTCACCCTGCTGCACCCATCTTACTGGCTCCATCTGTTGGTCCTGCTCCACGAGCTGTGGGCAAAAACATGCAAACAGCATGGGGAGAAAAGGCCATTTGGAGGTCCAGAGAAGGGACAGCCAGTAGCCCCGTGGTCTTCAGGTTAACCACTGCTTTCTTGGGGGAGCGCAGCTCCATCAGAAGAAGAGGCCGTGATCCTCAGCGAGGTCGAGCAGGGGAGAATGGGTGAAAAGGGAATCAACGTTCTTCCAGGCCAGAATGTCTGAAATAACAAGCGAGGAGGAATGCAAAGGGGAGTGGGTAGTAGCCAGGATGGCTGAGAACATTGCATACCTCCGCCAGGAAAGGCTTAGGCTGCAGGTCTAGAATAGCCCAAGGGAAGAATAAAAAAGCAGTTAAGCAGAGGTGTGGAGCTGGGAGCAGAAACAGCCCTGGGTTCATCTGGTGAGGGAAACAGGAGGCCAAGAGCTGACCAAGGCAGACGTGGGGTGCTCCCAGTGTGTGCGGGAAGCTCTGGGCTGGGATGGGGTGAGCAGCAAAGAGCAATTGTAACCCACTGAAAGCATTTGGGGGTTTGTCCTTTTTTTTTCCTGTAGTATTTGTGCAGGGATTGTTTTGTGTTGATTTTCTCTCTCCGTTTGATTCAAGTTCAATGTTCTGCCTTGTTTTAGTGTCCCTAGTAGCCCAGCTAGCCATCAGCTCTGCAACTGAATACAGTCATAGAATGGTGTGGGTTGGAAGGGACCTTTAGAAGCCATCTGGTCCCACTCCCTGCAGTGAACAGGGACACCCACAACCCCACCAGGTACTCAGAGCCCCATCCAGCTCTGACCTCGGGTGTCTCCAGAGATGGGGCATCCCCCACCTCTCTAACCCTACCCCAGTGCCTCACCACCCCCACTGTAATCTTCTAATCTGCTCCGACTCCACCTGATGGAAATGAGATTTAAATGGCTGAAGCAACAGCTTCGGGGAAAGAGCAAAAAAGCCGAGGTGCCTTGCATGTGCAGAATTTCCTTGGTGTTTGGAAAGAGACTGTAGGTAAATCCTGGGGAAAGGGGGCTCCAAATACACGCTGATCACTCTGCAGCTGAACAGGCTGCCTTTGTTCTGCATTAAGAAAAATACTGACACACTGAAGCAGATTTATGAAAGACCTGTGAGAGTGATTTGAAGCCTGCAACACCTGCCAGCAAGCAAGCTGCATTGAGGAGCTTTAATTTGGAAGGCAGCAAGTTAAGAGGCAGCTTGCTCACCATTTTAGGTAGCTCCATAAGGAAGGGCTCTGGATCTTGTCACACCTTGTAATAATTAGATTAGAAAAGCTGGAAGCAAGACAGATTTGAGCTGGAAACCAAACTGAAGCTTCCCGTGACATTAAATGGTTTTGCTGGTGTTTCCTGTGGCATTTCCAAGGTTTTCCCCAAAATCCATCAACCCGTGTTGTGTAGGGCCTGGGGAAAGGATGGCTGGATGAAACGGTACAGAAGTGATCAGTGCTTTCACCACAGCCTTCAGATCTCCAGCTGAGATGCAGGCTTTTCTGAAGGCAAACGTCTCTGCACCTGCCCAAACCCTCTGCCCTATAAACCTGTGGTTTCCTAAGGATTACGGGTAACAGTGTGGGTTACAAACCTGAGTGTAGCTGCAGCCCTCTGGCTGTGCATGGAGCAAGTCCTTGCTGAGCAGCCTCCAGCACAGCCTGAGAACGTCAGCGAGATTTGGGCAACGCGTGGTAAAAGCTTGTGGTGGTGTGGTCCCATTCCAGACCCAAAGAACTGCCTCTTCCCTGAACGTTAGTCCTACTTGCAGAGAGAAATTCAGACCAAAACCATTCTTTTTTTTTTTTCTTATTCTATTTCAACAG
Seq C2 exon
GGATACAAAGGCTATCCTGGACCACCGGGTCACCCTGGAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958:ENSGALT00000011272:15
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(25.8=100)
A:
NA
C2:
PF0139113=Collagen=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]