BtaINT0041425 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017282 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr6:17619422-17623771:+
Coord C1 exon
chr6:17619422-17619484
Coord A exon
chr6:17619485-17623702
Coord C2 exon
chr6:17623703-17623771
Length
4218 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TATTTTGTGATTTGTGACAGGGT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GGAGAACCAGGTTTCATTGGTCCTCAGGGAGAACCAGGCTTACCAGGGTTACCAGGAACAAAG
Seq A exon
GTAAGTGGAGTGTTTTCCCCTTCCTTTCTTTCTGAAAAATTTTTGTGGCATATTTTTAGTCCATTTTGTTACTCAGGTGACCAGATAGTCTTGCCTAATAGAGAACTAAATCAGCTTAGCACCCATTCCCAACACTTCTCATAGTAATAGCATATTATTGTAATTAGAGTAATAGGAAGTTAATTCCAGAAAGCCTTAGGCAGGGCAACAGGATGGTGGGATACATTCGTTGTTCCAGTTGTCCCCCAGTTGCACCTAAATTGATGTGATGCTGTTAGTCTTCTGGCCATATGGAAAAGTGAGGCAATTCTGAGAAGGAGAGGTAGAACTCATTAACTCCAGCTCCTCGTTACCCATTTTAAGACATACTTGTAAATCAAACATGATTACTATTCCCCCATCACTCCCTAGATTGCAAAGGCAAGTTCTGATGTCATATAGATTCCTAGTGCTTTATCCTGAAAAACGTCTGCAGAAAAATCCTGTAATGAAAACCATCTCATGATCTTCCACTTGGCAACCCGAGAGAGGGCCCTGAAAGCAAAATCTATATGCTGCCATATAAAAAGTTATGTTGCTGTGGATACAGTCAGAGCCATGGTTCCCTTTTTATCTACCCGGAAAGACATAAAAAGGTGCCGTTCTGAGGATGGAACTTTATTCATGACAGACTCATGAATCAAAGAAAGAGCAAAATTAGATCAAACTACATTCTTTTATTTTTAAACCGTAGCAGTCTTTGCCTCAATGTGTATTTCCAGATATAAGCCAGGATGACTTCCAAGAGCTCGAGAAATATGTTCCTGGTCTGTTCTGACAGAGGAGTCCTCATTTCCACTGGTCAAGAGAAAATAACTCTAATCCTAGTAAATGGAAACTACACATGGCCTAAGGGGGACTGAAGCTCGGTCGAATTTACGCAAAATTGCTCTTTTCTCAGCAAGTTCTTTTTCACATAATGAGCTGACAAGCTTATTAACAAAATATGAGGAATGCCTGCTTTAGCCTGAACAGATTTACACACAAAGTGCACTTTCTAGAATCAAGTGAGCTAGATCAGGAGGATAACAGGCATCCTGTGTCCACATCAGAACAGTTGTATGGCTTGCAGCCTCAGAGTCAGGCAGAGAAAGAGGTGGCTTTGTGGATAAGTGCAGAGAAGCGGGAAACCTGCTCAGTGCCAGCGAGGACCAGGCATGAATGTGATTTCTGTTTGTGGCATCTTGTTTGCGAAACAAGGAAAAATAGAAGAAACACAGACAGACCCCTGGAGAGTAGAGTTCATCCCTAAATATCTTTTCTTTTGTTCATTTATTTTAAACTGTTCCATAGTCAAAAAATTCCAGATGTAGAGCTATAAAATCAACATTAATTACTGTCCATGAAGAACCTGGGCTGACTTTACAGATCCCATACTTTTATAACAAATATTACTTTGCACTCCCAAGAAAAGTAAAAACTGTACTGTAACTGCTTTGTAGTTCCACAGAAAGGATGTGAATAAGAAATTCATTTAAGAATATTTTGAAGTTAATTTTTGGCTAAACTGCCTAACATGAAATTGGTATCATAATGGAAAAATCATGATTATTTAAAAATCTCTTTCAGCCAAATACTAGTCTTTTTCCAGTTGTGTAGACAGGATTTGTACCAATAAATTCAGATTTTAAAAAAACTAACACTGCATATTTTATCCCCAACACAATGAAGAGAGAGCATAATGAAGATGTATAATGGTATCTAAAAACCTGTTTTATGTGCTGCTGTATTCTCAGCATCTGTATCAGTGCCTGCAAGAAATCTACATCAGTCTAAAGAAATAGGACTTTATCATGAATAATTTAGAAAACTTTGAATAATATTGTTTATTCATTAATTCAACACATTTTTTCCCAGACATTTTTCTATTGAGAATGGAGATTAAATGCAACAAAAACAGTTTCTACTGAAGCTTACACTGTAATATGTGTGAGAAAGGGATGGAAGGAAAAAAAAAATGTGATTCCAGAGAATAATAAGCAATTAATTAGGGGTATTATGTTAATAAGTGATTCTAGGTAAATATATAGAGACTTCACACCTATGATATATATGCTATAGAGAAATGATTTTCTAAGATTTTTGTTTTTCCCTAAAATAAGATTATAGTTACCATTTTAGAATTCATCTGTAAAATATTAAGCAAATAACCAAACATTTATAAATGTAAATTCCATATACCAGTAGAAGCACTTCAGTTTCTAATCCCTGGAAAATCCCTTCTGGAGCATTTTTTCCATCTTCTGCCTCCAGTCAAGTTCCAGCCTCTCCATTCTTCTACTCCCTTTTGATTCATACTGAGAAATTTACTCAGTCTTCCATAATCCTGGCCCTAATCTATCCCACCTCCCCTGCAAAACCACAGAGTCTTCCCAAAGTGGGCATGATACAGATAAAGATCTTGGAATTCAAAACTCTCCATCACCCATAACAAATCCAACCCTACTTTCTTTTCCTTTCCAAGATGAATCTATCCTTTAGTGAGGAGGGTGCCTCCTTCATCCATTAACATGCCATCACCAGAAGTCAAAACTTGTTTGATTATTCAAATTCTACCCATCACACAGGAAGCTGAACTCTCAATTCTGTGTTCAGGGAAAAACAGAACCATCTTCCTAGAGGGTGATTTGGCAAGATTTTAAAGTGTTTTTATTTTTGACACAGACATTTCCCCACTAGGAATTTATTCTGAGAAAATGACCAGAGATGTGCAAAATATTTACATACCAAAACATCTATGCAAAAATTGAAGATTGAGTACAATCCATTCTAAATTACAGCTCTCCCATGTTAAAGGCTTTGGGAAAATTACTTAATCTTTCTGAGCTTCAGTTTCCTCATCTGTAGACTATGGATACTAACACCTTTCTCATTTGTCTTGAGAACTCAATAGGATAATGCATGTAAAGTGTTGTGTGCACTCCTCAAAAGCACAGTCATAAGCAATAATAATTGTAAAATACACCCTACCCATCCTTCAGGCGGAGAAGGCAATGGCACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGACAGAAGAGCCTGGTGGGCTGCAGTCCATGGGGTAGCTCAGAGTCGGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTCATGCACTGGAGAAGGAAATGGCAACCCACTCCAGTATTCTTGCCTGGAGAATCCCAGGGACAGGGGAGCCTGGTGGGCTGCTGTCTATGGGGTCGCACAGAGTCGGACACGACTGAAGCGACAGCAGCAGCAGCAGCAGCAGCAGCAGCTGGGTTTCACCCGCTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGCTGCCATCTCAGGGGTCACACAGAGTCGGACACGACTGAAGCGACTTAGCAGCAGCAACAGCAGCATCCTTCAGGACTTGACCCAGGTCTCAGCAAAAAGTCAGTCCAGACTGTTGAAAACCCTGTGGAGTTTCTTCTTCTCTCACATACGACTTTACATTATTCCTGAACCCTAAACTATTTTGTTCATGTGGATCTTATCTTACTAGAGCACTGGCCCTCGGAGGGCAGTGACCACGATCATCGTTCCCAGATCTATAAATGTAGCAAAAACTGTAATACCTGCATGTCTTATACCGTGACGAGGACTTTTTATTTTAAATTATGAAACTAGTACTATAATTTTTTCCATTTTATAGAGGAAACTGAAGCTTTCAGAACTTAACTAATTTTCCCCAAAACACAGACCTGGTAAGTAATAGAGCCAAGATTAAAGTAGAGAATGTCAAATTACAAAACCTGGTGCTTAGTCATTTTGCCATGCTTCTTCCTAGTAGATCTTAAAAAGTCACTGCAGAGTGAAGACTATGCCAGTGCCTGTGGTGAGGCTTAATGATGGCCCTTATCAATTCCCTTTAAAGGTCTTTCTATTTACCAACGTAGGTGTCTGACAGGCATTTACCAAACCATTTCCTCGTCTATAAAAATGCGGATGAAAATGCAAACACTGTATAGTTGTTTCGATTATTAAATGAGATAATCCATGTTGAAGTTAATACAATGCTGAGTATGTAGTAAATAAATAGTCACTTTCTACTTTCTTTGGTTTTATTCACTTCACTCATTAATCTACAGGGACCGGTTGGGGGAAGATGGGTCACCATTTACTTATTTTGTGATTTGTGACAG
Seq C2 exon
GGTGAACGTGGGGAGGCAGGGCCTCCTGGACGAGGGGATCGAGGGGAGCCCGGAGCCCCTGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017282:ENSBTAT00000022980:12
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=PU(32.8=95.2)
A:
NA
C2:
PF0139113=Collagen=FE(36.1=100),PF0139113=Collagen=PU(20.7=52.2)
Main Inclusion Isoform:
NA
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]