BtaINT0041933 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013760 | COL4A6
Description
collagen, type IV, alpha 6 [Source:HGNC Symbol;Acc:HGNC:2208]
Coordinates
chrX:61056921-61058106:-
Coord C1 exon
chrX:61057990-61058106
Coord A exon
chrX:61057113-61057989
Coord C2 exon
chrX:61056921-61057112
Length
877 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGG
5' ss Score
3.93
3' ss Seq
TTCTGCTCTCTCCATCTCAGGAG
3' ss Score
9.26
Exon sequences
Seq C1 exon
GATCTAAAGGTTTACCTGGCATCCCTGGCAAAGATGGCGCCAGTGGACTCCCTGGCCCACCTGGGGCTCTTGGTGATCCTGGTCTCCCTGGACTACAAGGCCCTCCAGGATTTGAAG
Seq A exon
GTCTGGCAATGTCAGCACTAGCAGGCAGAGGGCTTCTATAAGGGTTTGAGGCTTGGTAGTGAGTCAAAATCTCAAATCTTGGAATTAGGAAATCTGGCAGTAAAGCTTGACACTACTAGGAGGCTGGAAAACTGGGCTCTCATCCATTCACGCCGACTCCATTCTGAGCTGTGACGGATCAGAGCCCTACATTCCAGAAGGTGAAAAACTGTTCCAAATAGTTCTCTGGGTTCTCTTCCAGCTCTTAAGAGCTATGACTCCCCTGCCCTGCACCAACCCCCTTCTACCAAGGGATTCTGATGTGGACAGAAGGGGGGTTGGTTCCAGGGAGAAGAAAAACTGAGGTAAGATATAGCTGTTCTGCTACTTACCTCCTTTTATATCAAAAATGGCAAATCAACATTCCTGAGGCTCACAGGAAAAGTGCCATGATTGTTAGCTATGCCTGACAGGAAAGGAGGGTGTGATTTTGCCTCGCTAACCCCAGCTCTGCCTTTGCTGCCTTTGATTCAGTGAGTCCTCAGTTATCTCCTATGAAAGCCTGCAACGCCAGCCTGAGAAGTAGCCCTCTCTGCTCATCCCATCCCAGAGAACCCAAGGTTGGGTGACTGTGGAAGAAAAACTGGGTCGTGTGCTTTTCAAAATGAGGACTCTCTAGCCAGATACATCTGAGTTGGCATTCTAGTTCTACCACTTACTAGCTGTAGGTGGTGAGAGTCAGTTTCATTATCCACAAATTGGAGAGATGAGGTTGTAAGGATTGAGTGAGCTAATGCTTGTACATAATGGCCCCTGCTCAACGCTTGCCACCAAGTGAGTACCTGCTGTTATTATTGGCTGTACCTGGCTCACCCCTTTTCTGCTCTCTCCATCTCAG
Seq C2 exon
GAGCTCCAGGGAAGCCGGGCCCCTTCGGGAGGGCTGGAGTGCCTGGACAGAGCCTGAGAGTGGGCTACACCTTGGTGAAGCACAGCCAGTCAGAACAGGTGCCCCTGTGCCCCAGCGGGATGAGCCAGCTCTGGGTGGGTTACAGCCTGCTGTTCGTGGAGGGGCAAGAGAAAGCCCACAACCAGGACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013760:ENSBTAT00000018292:39
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=0.231
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(31.0=67.5),PF0139113=Collagen=FE(60.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(33.8=33.8),PF0141314=C4=PU(39.8=66.2)
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:
AGGTTTACCTGGCATCCCTG
R:
CCAGGTCCTGGTTGTGGGC
Band lengths:
302-1179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]