BtaINT0041922 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013760 | COL4A6
Description
collagen, type IV, alpha 6 [Source:HGNC Symbol;Acc:HGNC:2208]
Coordinates
chrX:61068250-61070798:-
Coord C1 exon
chrX:61070735-61070798
Coord A exon
chrX:61068325-61070734
Coord C2 exon
chrX:61068250-61068324
Length
2410 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CAGTATCTTGATATCCCCAGGAG
3' ss Score
5.33
Exon sequences
Seq C1 exon
GGTTCACAGGGTCTCAGTGGAGTTCCCGGGCTACCAGGAGCATCTGGTCTCCCAGGTTTAAAAG
Seq A exon
GTAAGGAGCTTACTTCACTCTGTATACCTGGCTCTAGGTTCATCTACCTCATTACAACTAACTCAAATTCATTCCTTTTGATGGCTGAGTAATATTCCATTGTATACATGTACCACATCTTCTTTATCCATTTATCTGTCAATGAATATCTATGTTCCTTCCACATCCTGACTATTGTAAATAGTGCTGCAATGAACAGGGGGTATATGTGTCTTTTTCAATTATGCTTTTCTCAGGGTATATGCCCAATATATTAATGCATATATATGGAATCTAGGAAGATGGTATTGATTAACATATTTGCAGGGCGGGAATAGAGACACAGACACAGAGAATGGACTTGTGGAGATAGCAGGGGAAGGAGAGGGTGGGACGAACTGAGAGAGTAGCAATGAAATATATACATTCAGTTCAGTTCAGTTCTGTTCAGTTGCTCAGTTGTGTCCAACTCTGCAACCCCATGAATCGCAGCACGCCAAGCCTCCCTGTCCATCACCAACTCCTGGAGTTTACCCATACTCATGTCCATCGAGTCAGTGATGCCATCCAGCCATCTCATCCTCTGCCGTCATCAGGGTCTTTTCTAATGAGTCAACTCTTCGCATGAGGTGGCCAAAGTACTGGAGTTTCAGCTTCAGCATCAGTCCCTCCAATGAACACCCAGGACTGATCTCCTTTAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGTGCTCAGCTTTCTTCACAGTCCAACTCTCACATCCATACATGACCACTGGAAAAACCATAGCCTTGACTAGATGGACCTCTGTTGGCAAAGTAATGTTTCTGCTTTTTAATATGCTATCTAGGTTGGTCATAACTTTCCTTCCAAGGAGTAAGCGTGTTTTAATTTCATGGCTGCAGTCACCACCTGCAGTGGTTTTGGAGCCCAAAGAAATAAAGTCTGACACTGTTTCTGTTTCCCCATTTATTTCCCATGAAGTGATGGGACCAGATGCCATGATCTTAGTTTTCTGAATGTTGAGCTTTAAGCCAACTTTTTCACTCTCCTCTTTCACCTTCATCAAGAGGCTTTTTAGTTCCTCTTCACTTTCTGCCATAAGGGTAGTATCATCTGCATCTCTGAGGTTATTGATATTTCTCCCGGCAATCTTGATTTCAGCTTGTGCTTCTTCCAGCCCAGCATTTCTCATAATGTACTCTGCATATAAGTTAAATAAGCAGGGTGACAATATACAGCCTTGACGTACTCCTTTTCCTATTTGGAACCAGTCTGTTGTTCCATGTCCAGTTCTAACTGTTGCTTCCTGACCTGCATATAGGTTTCTCAAGAGGCAGGTCAGGTATTCCCAACTCTTTCAGAATTTTCCACAGTTTATTGTGATCCATACAGTCAAAGGCTTTGACATAGTCAATAAAGCAGAAATAGATGTTTTTCTGGAACTCTCTTGCTTTTTCGATGATCCAGCGGGTGTTGGCAATTTGATCTCTGGTTCCTCTGCCTTTTCTAAAACCAGCTTGAACATCTGGAAGTTCATGGTTCATGTATTGCTGAAGCCTGGCTTGTACATTACCATATGTAAAATAGCTAGCTAGTGGGAAGTTGCTGTATAACACAGGGAGCTCAACCCGGTGCTCTGTGACAACCTAGATGGGTGGGATGAGGAGGTGGGTGGGAGGGAGGTTCAAGAGGGAGGGGATATATGTTATACTTATGACTGATTCACATTATTGTATGGCAGAAACCAACACAACATTGTAAAGCAATTTATCCTCCAAAAAAAATAATTAAAAAAATTCTTTTGTTAAAGAAAGATAAGGAACATTTCCCCTTTTACTGTGTTTTTCCAGAGCAAAGGTGGATTTCTAACAGGCCCAGGGTTCTCCCTGGGGGAGACTGTGTGTTTACAAGAAAATGAACTAATTTGCACTTCTGCTTTGGCCAAACCCCCTTTGCAATCTTTGTTAGTCAAAAGTAGGCGAATAGCAGTGGTTTGACCCACCTGCCTTCCAGATTCAGCAGCAGAGGACACCCTCAGCTCTAGACAGTCTCCTCTTCTGGTGATATTTTAGGGCTCCTCCTATCGTCTTCTCTGCCCATACCAAGCCTAGTAATGTGTTTCCCAGTGGAGATATGCTGCATGTAGCAGCATTTCTTACCAATAGCCTGGTAGCATCCCAGCCCTGCATTGCAGCATAAAAGCATAACATTTTACCCAATGGGTAATTGTGTCAAGGAGTTTCCCTGGCCGTGATTTTTCCTTCAAAAGATCTTTTTGCTATACCCCAATATAAAAACTTTTTTTCCTATTTGCTGCAAATTGAGCTATACCTTCTCCTGATGAATTAAACAGTATCTTGATATCCCCAG
Seq C2 exon
GAGATCAAGGCCAGACACTTGGAATTTCTGGTAGCCCAGGACCCAAGGGACAACCTGGGGAGTCTGGTTTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013760:ENSBTAT00000018292:29
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(32.3=100),PF0139113=Collagen=PU(0.1=0.0)
A:
NA
C2:
PF0139113=Collagen=PD(7.7=19.2),PF0139113=Collagen=PU(36.8=96.2)
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]