BtaINT0041872 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014575 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chrX:61754951-61757410:+
Coord C1 exon
chrX:61754951-61755048
Coord A exon
chrX:61755049-61757259
Coord C2 exon
chrX:61757260-61757410
Length
2211 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGA
5' ss Score
4.3
3' ss Seq
TTATCATGTGTATGCTCTAGGGA
3' ss Score
8.79
Exon sequences
Seq C1 exon
GTTTTCCTGGAATTCCAGGACCTCCAGGAGCACCTGGATCACCTGGAAGAATCGGTCTAGAAGGTCCTTCTGGGCCACCAGGCTTTCCAGGACCAAAG
Seq A exon
GTCTGAGACATTTTACTTCCTTCTTTCTTCTTTTTCTATTCCGCCTACCTTTCTTGTGTTGTGCTTAGTTGCTCAGTTGTGTCCGATTCTTTGCAACCCCGTGGACTGTAGCCCACCAGGCTCCTCTGTCCATGGGATTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATCGAACCCACATCTCCTGCATTTCAGGTGGATTCATTACCATCTGAGCCACCAGGGAAGCCTTTCCTTCCCTTAGCTTTCTCTATTTTGACTTAGACATCATCCCAAGTCTGTACTATATAAATAGAACTTAACTTACTGTATTTTTATTTAAAAATATTTAACTCCAAACACTTTTTTAATAGTCCAAGAGGTCGAATTTGAAGCAAAATTTAAAAAAAATTCTGTACTTGTTTTAGAATGACTGGTTATTTGAGGAGAATGAGAGAATACAATCGTCAGCTTCCTCTGTGCTTTACTGTAGTATCGCTATTCCACTTAATCTCTGCCCATGTCTGTATGGTGGTTGGTTGAAATGGTGTTGAATATCACAAGTGGGCTTCACTGGTAGCTCAAGCAATAACGAAACCGCTTGCAATGTAAGAGACCTGAGTTTGATCCGTGGGTCGGGAAGATCCCCTGGAGAAGGGAATGGTAACCCACTCCAGTATTTTTGCCTGGGAAAATCCCATGGACAGAGGAGTCTGGCACGCTACAGTCCTTGGGATCACAAAGAGTTGGGTATGACTAAGTGACTAACACACACACACACACATCATGTCAAGCACGTCTCATACTTTTTCCCTCTGTTCCATCCCAGATACATAATTCAAATCACTGCTATTGACTTAGTAATAATAATACTGTGTTTAAGTTGGTTTCCTCTCCTCTTATAATATTTTATCTGATCTAAAATTTTCCTTAGTCAGTCTTTAGCAAACTATTGTAGTACATAATTATCCTAACTGTTCCTGTATTTTCTCCGTGCTTAATTAATTTAAATTTCCTGTGTTTTTATCATTACTACCTTTTTTTCCCATGGAAAGAAACATTGATCATGACCACAGTTCTCATGAGAAATCACTTCTCTAGTAATTGTTTTTATTTTATTATAAACCTTTTCAAATGAACGCAAAACTGCAAGGAATAATAACAATGAACTTTCATATACCTGTCACTCAGATGCCAAATTATCAAGATTTTATCATATTTGCTTCATCTACTCTTTTTTTTTTTCCTTGCTGAAGGATTTTAACCTAAATCTCAATATTGTGTCATTTCACATATAAATATATATGTTTTTCTCACTCAGTCATGTCTGACTCTTGTGACCTCATGGACTGTAACCCGCCAGGCTCCTCTGTCCATGGGATTTTTCAGGCTAGAATACTAGAGTGGGTTGCCATTTCCTCCTGTAGGGGATCTTCCCTACCCAGGGGTTTAACTCATGTCTCCCGTGTCTCCTGCACCGGCAAGCAGATTGTTTACCACTGAGCCACCTGGGAGGCCCATAAATACATATAATACTTCAGTATTCACCTCTAAGTAAATGGACATTTTATACAAAACCCACAATCCCATTATCATTCTTAGTCAAATGTAAAATAATCACCTAATCTGTAATCTGGAGAAGGCAGTGGCAACCCACTCTAGTACTCTTGCCTGGAAAATCCCATGGACGGAGGAGCCTGGTGGGCTGCAGTCGATGGGGTCACGAAGAGTCAGACACAACTGAATGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTACCTGGAGAATCCCAGGAATGGCAGAACCTGGTGGGCTCCCGTCTATGGGGTTGCACAGAGTCGGACACGACTGAAGCGACTTAGCAGCAGCAATCTGTAATCACATTTCCTCACTTGGGTTCTTTAGTCTCATGCTCTCTCAGATATTTCTTTCTTGTCCTGAAACAAGACCAAATAATTCAATTTGTTTTACTAAGCCGTTTCCTGTCCTTCCAGATGTTCTGTACTGCGTACCAATTACTTTTCATTTATTTATCCTATTCCCTGTATCATAGCAGGGGGGAATATTACCTTGTGTTGTCTGCTTTAAATTCTCTATAGTAAACAGTAAACACCAAGAAAGTCATGAGAATTTTGTTGTGTTTTATCATGTGTATGCTCTAG
Seq C2 exon
GGAGAACCAGGATTTGGGCTACCTGGGCCACCTGGGCCTCCAGGACTCCCAGGTTTCAAAGGAATACTTGGTCCAAAAGGGGATCGTGGTTTCCCAGGACCTCAAGGTCCTCCAGGACAAGCTGGCTTGGATGGGCTACCTGGACCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014575:ENSBTAT00000019400:29
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(64.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(10.0=9.8),PF0139113=Collagen=PU(82.1=90.2),PF0139113=Collagen=PU(5.1=5.9)
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:
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]