BtaINT0041442 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017282 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr6:17663363-17667868:+
Coord C1 exon
chr6:17663363-17663416
Coord A exon
chr6:17663417-17667790
Coord C2 exon
chr6:17667791-17667868
Length
4374 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACC
5' ss Score
6.78
3' ss Seq
GAGTTAATCTTTACAAACAGGGA
3' ss Score
5.95
Exon sequences
Seq C1 exon
GGTTTCCCTGGTCCACGAGGCGAGAAGGGTGACCTGGGAGAAAAGGGGGAAAAG
Seq A exon
GTGACCTCTCCAACCTAGCATGTGCCTGCTTGATTTTTCTGCTTCTGTCTGCTTTGCTGTTCAAGCTGTGTGATTCTTTCTTACATCTCATCTTTCTCCATCCTGTGCTCCAAAAAGACACTGATGTCTGATCTAATGAACCAGGTCTTCACAGAGGAATAAAGAAGGCTACACTGAAAGAAATAAGGGCACTGTTAGTGTAAAAGAAAAGAATTATAATCCCCCGAAAACCAGGCTACAATTTTTTGGACTACCTGACACCAATTAGTTGAAAAACTGAAGTTTCCAGGAGGTGTCAAAAATGAGAGGGGCAGGCATTTATTACATTAATAATATTAAATAGCGCAAATCTGCAACAGTCTTCTGGCAGAGCTCACCTAAGCCTATAAAGCCAGCACCTCATTTATCTCCACAACATTCACGGTAGAGACAGGATATGTCCTGTATCTTGATTTTTTTAGTTGGAAAGTGGAAGACAAGCATTGTTTCTGAGACCATTACACAGGGACCAGGACTTGTTGCCTTCAAACACCACAGGCATTTTAAATGAAGATATTAGTGTATTTTATGAGATTGGTTTTTAGGTTCTATCTCAAGATAGATAAGGAGCCAATATCAGACAAAATGGTTTTATGTCTGGAAACAAAGTTTGGATTATGGCTATTTTAAACCACTTTTTCTTCTTTGAAGAATAGTTATATATAGTTTTATATATATATATATATATGACACAGATGAAGAAGGGGGAAAAAAAAGAAACCTCTATAGAATAATGAAAATCCTAAAGTGGCTGAATTGTACTTCCACAGTTCAAATTTAAACCAATTCTCTTTCTCAGATTGGGCTTCCCATGTGGCTCAGTGGTAAAGAATCAGCCTTCCAGTATTGGCAGGAGATGCAGGAGACACAGGTTCGATCCCTGGGACAGGAAGATCCCCTGGAGGAGGAAATGGCAACTCACTCCAGTATTCTTGCCTGGAAAATCCCCTGGACAGAGGAGCCTGTCAGGCTACAGTCCATGGGGTCACAAAGAGTAGGACGTGACTGAATGACTGAACACACACACACACACACAGAGTTCTCAGATTAATTTATGCTCTACTTAACACACTATTTTCAAAACCCTATAAATTCTCTTTAACAGTAAAGTTCATAGATGTTAAAAAGCAAGGCCAAATGAGAGTTGCCCCAAAAAGGATATTAAGCCTTCTGTGTATTCTTCGGGCTTTAAACAATACTTAGCTTCCCACTCCTAGGAAAGTGCATGTGAGTGGTTATATAAAACATCACTATCATCTTTGTCAACATCATCATATTTATTGATGTGTTTTTATGTTTTTCCTAGAGCTTTACATATGAGAGTCTTGTAATCTTCATAACAACCCCCTAAGGGTGGCGTTATCATTGTCCCCATTTCATAGGCAAGGAAACTGAGGCATAAAAAAGTTCTTTTATTCTGAACTGTAAATTGTAACTATGAAATATACATGTTTTGAGGTAAAAGCTTTGGGCCCAAGGTGTGTGTGTGTGTGTGTGTGCCTTCAAGATTATAGACATTTATTTTATACTTACCTAATGGATTATATGAGTCTAAAACTTCATCCACTCAAAATAATGTTAGCATTATGAAGATATTCATTCTAATGATCTTTTAAACAAAGAAGAAATTACCAGTATTATAACTTGTGAAAACCTAAAGCTACAAATTTAATCCTCAGAATAATGTTAATCACTCAATACAAAAGTATTTCTGTACTTCAGATTCCATTATTAGAAGTTTTATACTTAGGAAATTAGATCCAAATGTGAGCCCTTTATGTATATCATTCTTTGACAGTGGAGATAAAAATTAGCAAGAGCCCGTATGTATTTATATCCACAAAGACACAGTTGCAAAACTATGCTGATTAATAATAACACTGACACATTATTCTCTACAATAGTATCTGTTTTCCATAAAGCTTGAGGTTCTCTAAAATATTGGTAAAAAATGATTCCCTGAGCCTGTTACAGTCAGCATTCATATGACAACGCTTTTTCATTGAATGATTAATCTGAGTTGATTAACCAATCAAAGGAATGGAGTCCTAAATTAGTAACACCCAGCATACCTGGTGTCGGTCACACCTATGTGAGGAGGAGCCCACTGCCTCTCAAATAAGTCTAAGTCAGTTTTATGTCACAGAACAATGTTATTTGCTGAAGAAGAGTGTTGATTCATCTCGCATGCGTGAGCAATTTACTCCCAAAGCTCCTCCCATCGTCCTTCCTATCACACCTGCTTTCATTTCATGTCACCCTGGCATCTCGAGTCTTTGTTTTTGATTGCGATCAACTAAGCCACACAGAATTTCTCTTTCCCCGATAGTAGAGAAACCCAACTGGTTTTGATTCTGAGCCTTCTGATGCAATCTTTTTGGCACACAGGAGATCAATGTGGAGTTTCACTCACACAGTCAGAACGAATGCATTAATTTGAATGCATATCTCATCTATATCTGTTATGTATATGTCTTTGAATATTAATGCTGTTTTGCTTCTGAAATTATTCAGATTTACTGTATCTGTCATCCTGATTGCAGAATGAATATACTCATTTAAATATGTATTGCATAGTATTTTGTATTCTGCACTGCACCAGCTTCTTGTCTATAAATATGCAGATATTTATGCTAATATGAAACAGCTGAGGTACATTCCTTCCTTCGCCTCCTTTTGCCTCCTTTCCTTAATTCCATGCAAACTTCCACAACCTTTACCTTGATTCCTAAATACTAATTCCCATGGCTACATTCCCACTATGTAATTATCCTGCCTACCTCATTTTTAATATTAGCTCAACTGAATCCAAACTGCTTTTCCCCTCTGGAACAAAACTTTTTTTTCTTTTGCTTTTGTTACCTTGTGAGTAAGCTGGAAACCCATTTACCATTTTGAATACCTGGCATGACATCAAATAAGCAATTAAAAAACATCTCTTGGTTTATAAATAAGTCTATTTCTCCAACTGACATTGCTAAGAAATCTTAGCACTTTTAAAATTTATTTACCTGACACAATCAGGGAAGTATTTGTTTTTAGTTTCCTTAAAAAGAATGTTAAAAGAAAGAGAAGGATCTTTTTTAACACACTGTGTTTAAATGAGAGCTACAAAAAATGATGTCAGAAAGTTGGATACATTTCAAAAAGATACAAATATTTTTTCCTTTTCCTCTGGCTCATGTAACTTTCATCTCTTATAGGATTAGGGTGGGAAAAAAGTTGGTAGGTACTGCAGATTGGCTGTGAAAGCCTCCATTATTCCTCTCAACTTCCCCTGCCACCGGCTGACTTCAATACAGTTGGTGTCTGCCGTCTTCACCGGAGCTGTGGCGGGAACACCTCATTCACAAGGACCCTGGCATTGGGTCTAAGTCAGCACTGATCCTCCTTTCTGACGTGTCAGCTTTTAAGTTCTTCTTTCATCTTGCTGAGTCTTTTTAATGAAATCTTGTATTTCACTCCCCAGAATCCATCGCCACGCTGAAAGTCTGTTTTTTCATAACGTCATGCCTTATCTAAACCAGAAAACGGTGGTAAATGCCCTTCCAGACTTTCATTGGCTAAACCATCTTTTGAATCACCATTACTTCCCCCCACCCGAAATAAAAACTGTCTTTTATTTAAACCCTTGTATCCACAGGGGGAAAAGGGAAAGAAAGGCAAAAAGGGGCCTAAAGGGGAGAAAGGAGAACAGGGTGCTCCTGGATTAGATGCACCGTGCCCGTTGGTATGTCTGACTTGTGCAACTGTCTCCAGGTGCCCCATGCGGAGGCTGAGCTGGGAGAGGAGCAAGCTGGAGGGGCCGTACCAGCGCAGTTCTGATTGGGTCTGTTTTCAAAAGACAAAAAGCATTTTATTTTGTTATGGGAGTATAGCCGATTAACAATGCTGTGATACTTTCAGGTGGACAGCAAAGGGACCCACCCATACACATACATGTATCCACTCTCCTGATTGGGGTCTTTTAACATAGACTTTAAAGTCCCTCGGGTTTTCCTGGTGTGTGCCACCCTTTGCCTCTGGTCACCAGCTCTTCTTGGGTTTCTCAGCAGTCAAGGATTGATGTGCATCCAGGGGGTGAATGCAGGATCAGAGGAGGAACCAGGACTCTTCCCTCACGCTCCCCAGAGCAGGTCCAGGTGCCCAGACAAGCCCTGGTTATAGGACCACGTCAAGCTCTATTGTCTTTTGTCCAACCTCGCTGGCTGTTGCCTTTCCCTTCAGAGTTGCTCCTCTCCCAGTCTTTTGTTACCGTGGTTATTTCTTTAGCAGGATTTGTGCTCAAGTGATTTCTTCTGTTTAGTAACGTTATGAGTTAATCTTTACAAACAG
Seq C2 exon
GGATTCCGTGGCGTTAAGGGGGAAAAAGGGGAGCCAGGCCAGCCTGGCCTGGATGGGCTGGATGCCCCTTGCCAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017282:ENSBTAT00000022980:28
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=50.0),PF0139113=Collagen=FE(23.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(33.8=100)
Other Inclusion 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]