BtaINT0041438 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017282 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr6:17654050-17656271:+
Coord C1 exon
chr6:17654050-17654085
Coord A exon
chr6:17654086-17656217
Coord C2 exon
chr6:17656218-17656271
Length
2132 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TTATTTTTATCTTTTTTTAGGGT
3' ss Score
12.11
Exon sequences
Seq C1 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGATCCCGG
Seq A exon
GTGAGTCAGCACCTCAACTTGCTCCAACATGTTTTGTGGCTGTGAATTTTATGCTTTAGGACAGACTCCCATCGAACGATGAGGAGTGCATGGGACTGGAGCGGAAGGAGAAGGTGGACAAAGAGAGTGGCCAAAAAAGGGAGAAGCAGAGGGAGCATGGGTGGCAGGCCTGTTTGAGACACAGCCTACACTCCAGAACATCTTCTGAAGCCTGGGTTCAGGTCCGGATAACTTGCAACACGGGAAGAATGACCAGTCTGATTGACTTCATTGTCTTAGAATCCCAGACAGATTTTTTTCATAACCAATGGATACATCCCGCAATTCCATGTGAGAGGCCCTCTGAAGGAATCAAAATCATGTGAAATCATTTTAACTTGTTTTCCTTTTTTATGTTCATGTCTATATTAGAAATGTAACTTCTTCCCTGGAACTAACTTTCAGATCTCTGTGCATTGAAATGATTCATCTGTCTTCTGTCATTTTGTCTCTTTTCTATGGTTTCTAAGAGCTCCTTCTCTTAAAGTTCAGCTTCAGGTCTTCAATATTTAGAAGTTTTCTGAAGATGAGCTTGGACTTCAGGCAGTAAGAAAGAGATCAAACTTGATGATAATGCAGCAACACTAGAATGAGTTTAAAACCCTGAATTATTTCATGTCACAAGGCTCTAATATTGTAAACAAGAAGAGTAAAAGAGAAATAGGAATACTGTTTAAAAAAATTGTGCTGGAATAGCTCCTATGTTTGTAAATGCCATAACAAATTCATTACAAATCTAAGCATAGTCTTCCTGAAAATGAACAAATATATCTGAGGTCCTTGCTAGATATTTTAAAATAATTTTATTTATTTTATTTTTATTTTTGGCTGTGCTGGGTCTTTGTTGCTGCCCAGGCTTTTCGCTAGTTCCGGAGAGTGGGGGCTGCTCTCCAGGTGCAGAGCTCTGTCTTCTGATTGCAGTGGCTTGTCTTGCTGCTGAGCACAGGCTCCAGGGTGCGTGGGCTTCAGTAGTTGCGGCACAGGGGCTCAGTAGTTATGGCTCCCGGCCTCTGGAGCGCAGGCGCAATAGTTGTGGTGCAAGGGCTTAGTTGCTCCGCGGCATGTGGGAATCTTCCCAACCCAGGCATTGAACCCATGTCTGCTGCATTGGCAGGCGAAATCTTTACCACTGAGCCACCAGGGAAGCCCCTTGCTACATTTTTAAGCATCAAAAGAAATTCCAAACTCCTCAATTTATTTACTTATTTTTTATTTTATATTTTTGCCACACCCCACGGCTGCAGGATCCTTGTTTCCTGACTAGGCCTCGAACCAATGCCCCCTGTAATGGAAGAGCAAAGTCCTAACCACTGGACCATAGGGGAATTCCCAAGCTCTTCAATTCTAAAAACCTGTTTCAGGACGTTATTATTTTCACTGGACCTCAGTGTTCCTTTGTTCATTCAAATATCGCCTAGTCTGCCACAAAAATCCTAATCCTGAATCAGAAGGCCAGAGGGCAATTATGCCATTAGATCACCTGGCTGCCTGGTTTGTGCCTTGCAAGCTCACAGACCTGAGCCACTGCAGCAGAACCCATGAGAGGAATTCCTTCCTCCTAAGCCCCCTGCTCCTTCCAACAGAGCTGAAGAAAGTTTAAACAGTTAAAACATTGTTCTCATTTATTTAATTTTTTTTTTACTTCTATAACTGTTCGAGCCTCTTAAGCAGCTGAAAACAAGACTTCAGAGCATTTGTGGCCAAGAGGAGTTGGGGTTAACTGTGGGGCCAGAGAATGGATGTGAATAAGAGGTGATGTGAAGCAAGAACAATTACATTTTTCTTCATATGGTTTTAGGGGCAAAGTGAAGATGTTCTATTTAGCCAGGGAGGAAATAGATAATTAAAGTTGATGCACAGTTTTGTGTGTGTGCCTTTCATTGAAATATGCAGTTATATAAATCATTCCTTTTGCATGAGTTTCTTGAAAACTACTGGCCTGAAAGAATCAAGAATAAAGCAGTTTGAAAGGAGATGTGTCATCTTACTTTCTAAGGCATATTCACCCAGGAAAAGTCCAGGATAAATTATAACTGCATTTCTTACAACCCTTGGGATATGTCTCATATCTTCTTATTTTTATCTTTTTTTAG
Seq C2 exon
GGTACAGATGGCCCTATGGGACCCCATGGCCCTGCAGGTCCCAAAGGAGAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017282:ENSBTAT00000022980:24
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(9.9=58.3),PF0139113=Collagen=FE(12.1=100)
A:
NA
C2:
PF0139113=Collagen=PD(12.7=44.4),PF0139113=Collagen=FE(31.5=100),PF0139113=Collagen=PU(22.6=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]