BtaINT0041443 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017282 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr6:17667791-17669711:+
Coord C1 exon
chr6:17667791-17667868
Coord A exon
chr6:17667869-17669672
Coord C2 exon
chr6:17669673-17669711
Length
1804 bp
Sequences
Splice sites
5' ss Seq
TTGGTACAG
5' ss Score
0.92
3' ss Seq
TATTCTTCTTTTTAAAATAGGGG
3' ss Score
7.25
Exon sequences
Seq C1 exon
GGATTCCGTGGCGTTAAGGGGGAAAAAGGGGAGCCAGGCCAGCCTGGCCTGGATGGGCTGGATGCCCCTTGCCAATTG
Seq A exon
GTACAGTATTTCTCTTTCCTACCACCCTGCATGCCATTCCTTTGTTTATTACGCATTCATCCCTCTCAGTGTAAAGTGGTACTTCCAGAGCAAGCTTTCCATGATAAACACACCACATGCATGTGCATGAATAGCTCCTTCAGCGACTCTGCAGAGTGAAGAGAGCATGTGTTTCAATCAGTGACTGCGAACTAACCTCCTGACGTTGTTCTCACAGCTGACATGGGTGCCATGTCTGTGTCCTGGGGAATGTCAATTTATCCAGTAACTATTTCAAGATGACAATAAAAGTACATTAAAAAAAAGTAAAGGTACAGCTAGGCTTTAACTTTGGGTTTTTCCCCTAAAGTTAGCTTTTTTTCTTTAAAAGAAATAAAGGCATTTTTGCCACTTCCACTAAATTTCTGTCAGGCTGTAAATAAGGCCAAACCTACAAAGTTAAGCTTCTATGGTCAAGATTTAACCAGTTCGAGGGAATGCTGTTAAGAGACCATAGAGACAAAAACCAAACTTCTTGAAGCTTCTAAAGGTGATAATAGTCTGTAGCCCATATCCTCTTCTTTGTCACATAACCTTTTCAATTTAATGGCCTCTCCTTTTGAAACTCACTTTCCTAAAGTAGAAAGATCTTCCCTACCTCCATTTGGCATGAACTCAAAATCCTTCTTACACTAAAATCTAAAATTCTACTGGGTGATCCTTCTCCTTGTACCAATCTGGCATTACCAATTTTTTCCCAAATAAAGTCATTTTAAGGTTGTTTTTTTTTTTTAAAAAAAACAATTAAAAAGTATATTCTGACTTTCTGAGGTGTAAAGGAAAATTGTATGATTGTGTTGATGGTTATATTTGGTCTGCATGTTCTCGTATTATTCTTAAGTACTAAGCATGATTCTTTAAAGATAAATTTATGCTTCTCAAGTCTTTTAAGAGATTGCATAAGAGAAGAAATTTTTATTCAGTCAATAATTGCAGTTAGATTTCCATATGATGTGCCCGGTCTTTTATTTTGTTTGCTTGATATTGACAATAAATAATAGTTCACAATCATTTCGCTGGGAGAAAACACAAGCATGCTTCATAGTATGTCGGTTCTTCTTGTCTTATTTATATCATTTGTATCTGAAGAGTGCTTACACCTTAAGTGAAAATAAATTTTGCAACATTTTTGTTTATTCAGGACTTGTTAATTGGCTTCTGAAGAATTTCAATTAAAAAATTGACAAAGACTTTGGATAACATTTTACTGTAAAGATATAAACACTACTTATTTTTTACTCCAATCAATTTAATGGTCTACTTTTTCTGCTTTCAATCTAGAAAAGTTGAAAAATACGCCATGTGAAGAGCTATAAACTTCAGATAGAAATGGTTCATCACTGATTACTCATCATTATTATGCATTTAGCCATAAAACATAGTGATCAGGAAGAGAAGTTATTTTCATTTATTGAATAAAGATAATTATAAAAGGCATTTTAATGAAATTAAGAGAAATAGTACAGATTTATTATCTAAAGATATAACTAAGTAGACCACTAGGTTTTACAAATCATTGTTCAACGTTAAGGATAAATATTTGTATATTTTATTTATTTGCAAAATGTGTACTCACTTTGGAAAACATTTGAATTTCCTTCATTTTAACTAGTGTTGGGTAGTCTATTAGGGGTGGATAAAAGATGCCTATGACTAAAGCCACCTAACAGCTATAAATCCATTGTTAAGCCTCTGAGCTTATTAATTATGAAGTATGATAACTTTTGTGGAAGCTGAGGAATTTTTATTCTTCTTTTTAAAATAG
Seq C2 exon
GGGCCAGATGGATTACCCATGCCTGGCTGTTGGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017282:ENSBTAT00000022980:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(33.8=100)
A:
NA
C2:
PF0139113=Collagen=PD(6.8=38.5)
Main Inclusion Isoform:
NA
Other Inclusion 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]