BtaINT0041842 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021310 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr2:115985603-115987011:-
Coord C1 exon
chr2:115986904-115987011
Coord A exon
chr2:115985612-115986903
Coord C2 exon
chr2:115985603-115985611
Length
1292 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
CTGGCTTTGGATCTCTCCAGGTT
3' ss Score
8.49
Exon sequences
Seq C1 exon
GACCAATGGGATTCCCGGGGCCGCAGGGGCCACCTGGAAGTCCTGGGCCACCTGGAGACAAAGGTTTACCTGGACCTCCAGGCAGACGAGGGCCTTTGGGTCCTCCGG
Seq A exon
GTAAGCTTCTAATGCCTAATCATCTCCACCTAACCGACATGGAGTGTTTTTTTAAAAATATTTATACATGTATACCCGTGGCGGATGCATGTTGATATATGGCAAAACCAATACAATATTGTAAAGTAAAAAAAAAAAAAATTTACTATGAGGGTCATCTTTCAGAAAGTAATTATTCTGAAATTATCAGCAAATTCTAGTAAGTTAAGCCAATGGCACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGTATGGAGGGGCCTGGTAGGCTGCAGTCCATGGGGTCGCTAGGAGTCGGACACGACTGAGCGACTTCACTTTCACTTTCACTTTCAAGCCCTTTTTTATAAAGATTATGTTTATCTCAAGCTGCATGACAGAGTCTCAGGTTTGGAAAGCTTACCTATAATTAGAACAAGTGAGTTTGAAAGTTAGGAGTTGGTTTTACATACACTATTTCTAAGATAAATAAACCCTTGTTCCTTCACACAAGATCCAAAGACAGACTTGATTGTTATATGTGAACATTGTATATTTAATTCTTGTTTCCGAATTCCCTACCATTAATTTTTCTAGCGATTTTATTTTAATGTTTCTTGTCAAGTACATTAGTTTCTATGAAGATGAAAGGCTATTTGATTTTTCAGCTCTATAGACAACAGGTTTTCATCAGAAAGTCAAAAGAAGCCAAGGAAGAGTTGGAAGGGCACACGTGTGTACCTGAGATTGGCAGAAGTCATATCTTTCAGGATCCTAAGTCAATACTACAGTGTGCTATCAGTTCTGAATATTTTGCAATCTCTTAAATTAGCACTCTAGTCCAAATAGTAAGAAAATTGTACTGCTTTTTGATGGACCACAGAACAACACGATGGAGAACTACTATGATTCATCTTGTATTTCCTTTCTGTGAATAATCTACAGAACTTGGCAAATTAATATGGAATTTCCAGAAGGCTTTAAAAGGACAGAATTTTTCCATACGTTAAATTAGAGCATATTTGCCATAAGAAACCAACTTGAATCTTATATTGCGCAAGAGGGTTTCATTTCAGGTCTTTCTAGAAACGAAAACTTCATTCATCATGGCCGTTCTTGTCAGTAACAGGAATGTGGACTTTTTATGTAAATAAGATGCCGTCATTCTGCTTGTCGTCTATGCTGTCCTCAAATTATTATTTGCGTTCTCAATCTATTTCACTTTTGTCCTAACTTACACATTTATAATCTCTTTCCACCTTATGAAAATCGTTGTGTGGCCTCACATTTCTGGCTTTGGATCTCTCCAG
Seq C2 exon
GTTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021310:ENSBTAT00000018302:46
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(8.5=13.5),PF0139113=Collagen=FE(62.1=100)
A:
NA
C2:
PF0139113=Collagen=FE(5.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]