BtaINT0041932 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013760 | COL4A6
Description
collagen, type IV, alpha 6 [Source:HGNC Symbol;Acc:HGNC:2208]
Coordinates
chrX:61057990-61058974:-
Coord C1 exon
chrX:61058828-61058974
Coord A exon
chrX:61058107-61058827
Coord C2 exon
chrX:61057990-61058106
Length
721 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TGGGCCTTCTCTCCTTGCAGGAT
3' ss Score
12.29
Exon sequences
Seq C1 exon
GCTTATCTGGCCCTCGAGGTGCTCCTGGACACACACCCATTGCAGAAGCCATCCAGGCTCCCCCTGGACCCATGGGTCTTCCAGGCATTGATGGAATCCCTGGCCTCATGGGAGACCCTGGGGTCCAAGGACCTGTGGGCCTACAAG
Seq A exon
GTGAGTAGGGTGCCAGGGAAAGGGAACTTAGTTGGGAGCTGAGATGGCTTTGATTGGGATGCTGAAGCAACTGGCTAGGAACCCCGCAGCTTCAAGGGGGTAGCTTCATCAAGCATTTCCTTGGTTTCCTCACAAAGCTCCCAATCTTCTTGCCAGGAAGGAGGGCCCCCAGGGCCAGCAATTGTACTTGGCTTCAGAGAACGTGGGCAGAGCACAATAGCTAATCCAGACAGCTTGTCCCTCAGTAATGTGCTGCTGCAGAAAGGAGGGAGTATGGTGGGCAATAAAAAGAAAGGGAGAAAACCCAGGGTTGGGGGACAGAAAATCCAGCTTCTAATTCCAGTTTTGCCTCAACTGGAGTAAGCTAACAGTCTCTCTAGGCCTCAGTGTCCTCATTTCTGACTCGGGACCCCAGCATTTGCCCTGTGTCCTTCCCAGAGTTGCTGGGAGGATGAGACGAAGTGAGGACAGGTGTGTGAAGGGGCTCAGAAGGGCTAAGTTCAGAGTGGGGTCCCAGGGCCGAGCTACCCAGACGTGAACTAAGGACTAGCCTGGGAGGCTCAGCCCTGTCCTCAGCCTGCACTCCCAGGTGATGGCCAAATCTGCCCTCTTCTGGTGAGTCCTGGGCATGACACACAAGTCCCCTTTCTCCAGGGAAGACCTGGAGAAGTCCCTCTTCCTCCACATTGAGTACCCCACTGTGGGCCTTCTCTCCTTGCAG
Seq C2 exon
GATCTAAAGGTTTACCTGGCATCCCTGGCAAAGATGGCGCCAGTGGACTCCCTGGCCCACCTGGGGCTCTTGGTGATCCTGGTCTCCCTGGACTACAAGGCCCTCCAGGATTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013760:ENSBTAT00000018292:38
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=PD(22.2=28.0),PF0139113=Collagen=FE(56.3=100),PF0139113=Collagen=PU(4.6=6.0)
A:
NA
C2:
PF0139113=Collagen=PD(31.0=67.5),PF0139113=Collagen=FE(60.0=100)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTATCTGGCCCTCGAGGT
R:
TCAAATCCTGGAGGGCCTTGT
Band lengths:
262-983
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]