BtaINT0042117 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010179 | COL5A3
Description
collagen, type V, alpha 3 [Source:HGNC Symbol;Acc:HGNC:14864]
Coordinates
chr7:15804025-15806895:-
Coord C1 exon
chr7:15806743-15806895
Coord A exon
chr7:15804091-15806742
Coord C2 exon
chr7:15804025-15804090
Length
2652 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCTCTCTGTCCTTCCTCCAGACC
3' ss Score
11.94
Exon sequences
Seq C1 exon
GTCCCTCAGGGGGAGCCAGAAACCCCTCCCCCTAGGCGGAAGGGGAAAGGAAAAGGGAAGAAAAAAGGGCGAGGTCGTAAAGGGAAGGGCAGGAAGAAGAAGAACAAGGAAACTGTGGCTGTGAGTCCTCCTCCTGGCTCCCTGGACAACCAG
Seq A exon
GTAAGGGGTCTGCCCTTTGCCCGCCCTGCTTCTGGACTCTGATCCCCACTGATCCCTTGTGCCTCATCCAGGGTCTCCCCCTCTGGTCTCCAGTCCCTGACCTTTGACTTATCTCGGCTGACCAATCACTGTTGAGGGGGGGGCTTATCCTGTCTTAGGAGGTCTCTCATATCTTCCTCCCAACCTCCAGTTCTAAGGGTGGGGGTGCTGGAGGGAGGGGACACACCAGATGAGTACATTATTATTAGTGGGGTTCTTGTGAGGGCTACTGTTTAAGAAGAGCCACTAGCTGGGTTCAATGATGGGTTTGTTGGTGCGTCATTGTTTGGCGTTGACTGGTTGGGGTTATTCAGTGAAGGGTCACTCACTGAGGGGACTCATTGGAAAAGACCCTAATGGTGGGAAAGACTGAAGGCAATAGGAGAAGGGGATGGCAGAGGATGAGATGGTTAGATAGCATCACTGACTCAATGGATGTGAATTTGAACAAACTCCAGGAGATAATGGAGGATGGAGTTGCCTGGTCTAATAACATCCATGGGGTTTCAAAGAGTTGGATGTGACTTGGTGAGTGAACAGCAACAACAGCAATTAGGGGCACACTATTTGGACTCCCCGATAGAGATTACTGGTTGACATGGGTTACTGTAAGGAGATATTTATTAAGGTTGATGTTTGGGGGTTTCTAATTGGAGGTCATTCTTGGAAGCCATTGATGGAGGCCATTGTTGGTGTTATTGGTGTCACTAGCTTAAGGCTCATGGTGGGGGAGTGTCATTGTTGAAGATCACTAATTGGGGAAGTCGCCAGTGGGGGACTATTGATGAGAAAGCACTAGTGGGGTCACCAGTTGGAATCACTCGTTGGGGAGTGATTTTGGGGGGATCATGGATGACATAGTTAATTTGGGAGTCCCTGATGGGTAATTAGTTGGGAAGTCATTGATGGGTCATTGGTTAATGAAATTACTGTCCGGGGGGGTCATTGGTTGGAGAGCACTAGTTGAGTTCATTTGTGGGTATTCGTTGTTGGAAGATCACTGGTTAAGAGGATTCATTGGTTAGGGGGTCACTGGTTAGTACTTCTTGTGGGGGTCATTGGTTGGGGAGGTCACTGACTGAAAGAGTAACTTGTTGGGGTCATTGATGGAAGTCGTTAATTGGGGGGCCAGTGATGGGTGACTGGTTATAGGAATACCTGGTGGAAGATCAAGGATACAGATTATTAGGAGGTGTTTTGGTTAGTCATTGGTTAGGATTCTTAATGGGGGTCACTGATCACAGGTTATTAATTGGAGGGTCACTAAATTGGGCTTCCCAGGTGGAGCTAGTGGTAAAGAACCCACCTACAAATGCAGGAGATGCAGATTTGATCCCTGGGTTGGGAAGATCCCCTGGAGGAAGAAATGGCAACCCGTTCCAGTATTCTTGCTTGGAGGATCCCATGGACAGGGGAGCCTGGAAGGCTATAGTCCATGGGGTCAGAAAGAGTCGGATACGACTGAAGTGACTTAGCATGCATGCATGCAATGGTTCATGACTGTAGGAATAATTGGGGGCCATTGATGGTGGTCATCAGTTGGCAGGACCACTGTTTAGGTGTCCCTGGTAGGTGCCCTTTGTTGGGATCCTTGTTTGGAGGGTCACTGGTTGCATTACATCTGTTCTCAGCATCATGGAGAAAGAGGTTAGCGCTTCAGCCTAGAACAGAGATGCCAGGACTATTCTACCCTTCCTCAGCCCCTTTCTCAGCGCCAACCCTTCACCTGGGCCCCCACCACCCGCTTTGCACCCTGACCCAGTTCCTTTGCAGCTGTCTGGGCCAGCAGGAGCTCGAACTCCCCCTCTGACTGCAGCCTGGCTGGCTGACCGCTGAGCTCTGCCTTGGGAGCGGACACATGAGCTAGGCTTCCGGGAGTCTGGCCCTGAGTGCTGGACATTGACCTTGACCACTGGGCTTTGGATCCAGTCCTGCTGTGCCTCCCAGCCCTGGCCAGCCCCGACCATCCTCCATACAAGAGGGCTCCCCCTGCTGGCTGTCCTCATCCAGCCAGCACTCCTTCGCCTCCACAGGCCTGAGGGTGCCCTATATACCTCTGATGTTTTTTGAGAATCCTCCTCTGTCCCCCTCCCTGGACTGAGTGCTCTGGGAGACAGGGTCTGTCTCTTCCTTCACCTTCCTTTTGCCTTTTTTTTTTTTAAGTATCTTCCCTTTTCACCTTAAAAATTATTTATTTATTTATATAGCTGTGCCTTGTCTTAGGCTTCCCTGGTGGCTCAGATGGTAAAGAATATGCCCAGAATGTGGGAGACCCAGGTTTGATCCCTGGGTTGGGACGTTCCCCCTGGAGAAGGAAATGTCAAACCACTCCAGTATTCTTGCCTGGAGAATCCCATGGACAGGGGAGCCTGACAGGCTACAGTCCATGGGGTCGCAGAGAGTTGGACACAATTGAGTGACTAACACTTTCACTGTCTTAGCTGTGGCACGTGGGATCTTTCTTAGTTGCAGCGTGTGGGATCTAGTTCTCTGACCAGGGATTGAATCTGGGCCCCCTGCATTGTGAGCGCAGAATCTTAGCCACTGGACCACCAGGGAAGTTCCCTCCCTTCCGCCTTGATTGACCTGGTACTCTCTCTGTCCTTCCTCCAG
Seq C2 exon
ACCTCCACTGACATCCCCAAGACAGAGACACCAGAACCAACTCTGTCTCCGACACCCACGCCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010179:ENSBTAT00000013440:6
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]