BtaINT0041923 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013760 | COL4A6
Description
collagen, type IV, alpha 6 [Source:HGNC Symbol;Acc:HGNC:2208]
Coordinates
chrX:61110468-61113773:-
Coord C1 exon
chrX:61113657-61113773
Coord A exon
chrX:61110537-61113656
Coord C2 exon
chrX:61110468-61110536
Length
3120 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGC
5' ss Score
3.69
3' ss Seq
ATTTTTCTTATTTTACGCAGGGG
3' ss Score
7.27
Exon sequences
Seq C1 exon
GGCCACCCTGGACAGCCAGGACCCAGAGGCCCACCTGGCCTGGATGGCTGTAATGGAACTCAAGGAGCTGTTGGATTTCCAGGCCCTGATGGCTATTCTGGGCTTCCTGGACCACCT
Seq A exon
GTAAGCTGCCACATCTTTGTACATTATTTCAATGGTTTTGCTGCCTTCAAGTGTGCCCTCTCTTCTGCTTCTCTGATCTTGTTAAGTATCCATGGGGCAATCACTGAAGCCCTTTGTCCAGTGCAGCACCACAATGTCAAAAGTCTAAAGAATACCAGTTTCAGGGGAGTGTACACATGCTACGCTAGTTAGTTTTTTTTTTTTTTTTTTTTTTAATGATGCTTTTAGAGTTGGCAAGATTATTAAAAAAGACCGTAGTAAATTTTAGAGCAAAGTACATGTTTGGCTATTTGACATTTTCCCACATTAGATGATATTGGGAAATGCAGTACTTGGAAGGCTTACATGGGATCATGGAAGCACTAACAGTGACCCAAAGGGCTTGGCAGGCTTGGTCTCTACCAGTGATTCTTAAGCAGTGGTGATTTTGCATCCTTCCCGAGGACATTTGGCAGTTATTATTGACACTTTTGGACTTCCCTGGTGGCTCCGGTAGTAAAGAATCCGCCTGCAATGCAGGAGTCTCCAGATCGATTTCTGGGTCAGGAAGATCCACTAGAGAAGGGATAGGCTACCCACTCCAGTATTTTCGGGCTTCCCTGGTGGCTCAGTTAGTAAAAAATGAGACCCCAGTTCGATTCCTGGGTCGAGAAGATCTGCTAGAGAAGGGAATTGCTACCCACTCCGTATTCTGGCCTGGAGACCCCCACGGCCTATACAGTCCATGGACTGTGTATTCTATGGACTATACTGGCTTCCCTGGTGGCTCAGATGGTAAAGCATCTGCCTGCAATGCAGGAGACCCGGATTCAATTCCTGAGTCAGGAAGATTCCCTGGAGAAGGAAATGGCAATCCACTCAAGCACTCTTGCCTGGAAAATCCCATGGATGGAGGAGCCTGATAGGCTACAGTCCATGGGGTCGCAAAGAGTCAGACACGACTGAGTGACTTCACTTTCACTTTCATACTGTCCATGGGGTTGCAAAATGTTGGACACGACAGAGTGACTTTCACATCCCATAATATAACTACATATACATATGTAACATTGACACTTTTGGGCTTCCCTGGTGACGCAGCTGATAAAGAATCCACCTGCAATGTGGGAGACCTGGGTTCGAACCCTGGGTTGAGAAGATCCCCTGGAGAAGGGAACATACTGGAACCCACTCCAGTATTCTGGCCTGGAGAATTCCATGGACTGTATAGTCCTTGGGGTCAAAAGAGTCGGACACAACTGAGCAACTTTCACTTTCACTTTCAATGACCCTTTTGGTTCTCACATTTGGGAGCATGCTACTGGTTCAGGACAGCCCCCACCATAACATCAACTTATCATCTGCCCCAAAGTGTCAATAGTCAGAAATAACTGAGAAATACTACTCTACACTGACATAGTTTTCCTCTTGCCATCCTTTCCCCACATCGGAACTCTTGGTTCTGGAATTGATAAGGCATTTATTGGATATTGGTGTCATCACTTTTGCTTCATTCCATTCGTCCAGATAGAGCTCAAATATTTGGACCTAAAAGATCTCTAATAGATGCCATGCCCTTACAAGGCTGCTTTTGTGAGTGGCTGGAAAGAGAAAAATAATATATTTCAAACCCATTCTCAACCTCATTTGAAATAATCTAAGTGAATAAGAGCACTGATATGTTTAAATGGAAATTGCACTATCTATTAGACCAATTCCATAGCTACACGAATGACTTGGCATTTTACTGGAAGGGCATTGCTTTCAGTGACCAAGTTGTAGATGTGAATGTACATGTAAGAAGATGGGCCAGACAAAGCACAAACCCCAAATTGGCATAAGGGACTTTCACAACTAAGGACCAAGCCAATATATAGCAGAGAGTCGGGGAGAAAGATGTATTACCAACATAGTATGAGCTATTAGAGTCACAAAGGCCTCCAACCACTGCCATGATAACAGGGCAAGAGAACAAATCACATCTGTGTTAAAACAATGGAAATCTGGAAAAGTAAGGAATCCCAGCCCCCAAGAGGGAGAAAAGAAATCTTGAAGTAATAAACAGCCCCTGGCAGCCAAAGGACCAGGGTAAAACCCAATCCTGTCCCTACACCTTCCTTTAAGCCTAAATAGGAACATGGTTGTGGATTTTTAGTAAGCTGAACCTTACTAACCCTACTGAACACTGGATAGATAGCCTTCATAATTTATTTGATGAAAGTAGTGGCCACAAGCATAAGGGAAAATAGAAATGTTAGGAAAGAAACAGTTTGTGCTTTGGGAACCACATGGTACGTTTATTATACCTATGGACCTTGAACTCGGGAATCCATCATTCAATCAATGCTTCTGTCCCCAAAGTTTAGGCCTACCCCCAACACTAATCCCAACTTCCATTTAGGTATCGGGACATTGATTTTCCCCAGGAGGTCAACATCTAGCAGATATTAGCTGGTGTCTGCCACTGAGACATTAAAAACTCTGGCTGATTAGACAGGTTGGGCATACTTTGAATAGTTTTCCATGTTGACAGTGAGACACACCTGCTGCTTAGATATCAAAGCTGAAGTTGTATAGTAAAAGCACAAGATGGAGATGGTTATGTAAAGCAGGGATCTGTAAACTGGCCCACATTACCTTTGTCCTGTGGTTTCTTTTTCCACTTTTTAAAAGATTGTGAAGAAAAACAGAATACAGGACAGAGCTCAGATATGACCCCCAAAGTATATATTATTTACTCTCTGGCTCTCTACAGAAAAAGTCCACTAACCTCTGTCCTAGACAAAGTTCCCATCAGTGACTTATACCTGTGACATATGGAGCAGGTGAGCTATAGGCTTATAAGAGACATGTGTATTTTATGTGGATGTTCAGATTGGTTCTCTGAATAGATTCAAAATCTATGTTCTAATTCCTTAACAAACCTCTGACTTGGAGGCTGGGGAACAGGCATATAGCTTTGAGACACAGCACCTGTTCATGGGCTGAACTTTGTCTGCCTATCGCTGCTATAGAATATACCACATGGTTTCAGGCTTTTATTTTTCCATATGATCAGATCATACTATTAATACCGTGTGTGTGCGTGCGTGCATGCGCGCGCGTGCACATTACTTCACAAATTTTTCTTATTTTACGCAG
Seq C2 exon
GGGCTTCCTGGTCAGAAAGGCTCTAAAGGTGAACCTGTCCTTGCCCAAGGTAGTTTCAAAGGAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013760:ENSBTAT00000018292:3
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(62.3=100)
A:
NA
C2:
PF0139113=Collagen=PD(19.7=52.2),PF0139113=Collagen=PU(11.9=30.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]