Special

BtaINT0042218 @ bosTau6

Intron Retention

Gene
Description
collagen, type VI, alpha 3 [Source:HGNC Symbol;Acc:HGNC:2213]
Coordinates
chr3:117470134-117475310:-
Coord C1 exon
chr3:117474708-117475310
Coord A exon
chr3:117470719-117474707
Coord C2 exon
chr3:117470134-117470718
Length
3989 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
TGTCACGTTGCTACCTACAGTCA
3' ss Score
5.87
Exon sequences
Seq C1 exon
CACAAGACTCTGCTGACATTATTTTCCTTATTGATGGATCAAACAACACCGGAAGTGTCAATTTCGCAGTCATTCTCGACTTCCTTGTAAATCTCCTTGAGAGACTGTCAATTGGAACTCAGCAGATCCGAGTGGGGGTGGTGCAGTATAGCGATGAGCCCAGAACCATGTTCTCCTTGAACAGCTACTCCACCAAGGCTCAGGTTCTGGATGCAGTGAAGGCCCTGGGGTTCATTGGTGGAGAGCTGGCCAATGTTGGCCTTGCCCTGGATTTTGTGGTGGAGAATCACTTCACCCGGGCGGGGGGCAGCCGAGCAGAGGAAGGGGTTCCCCAGGTGCTGGTCCTCATAAGTGCTGGGCCTTCTAGTGATGAGATCCGAGACGGGGTCATAGCACTGAAGCAGGCTAGCGTTTTCTCGTTTGGCCTCGGAGCCCAGGCCGCCTCCAAGGCAGAGCTTCAGCACATAGCTACCAATGACAACCTGGTGTTTACTGTCCCGGAATTCCGTAGCCTTGGGGACGTCCAGGAACAATTACTGCCGTACATTGTTGGCGTGGCCCAAAGGCACATTGTCTTGCAACCGCCAACCATTGTCACCCAAG
Seq A exon
GTACGTATGCTTTTCTCACCATCTGTGTGGTAGTGGGTGTTCTGTGTGTGGTTCTGTAGGAGTCAGGCTGGTGCCTTGCAGAATGATTCACCTCGGGAGAACCTGTAAGTACCTATGGTCCAGTCCTTCCTAGATGAGCTAGCTCTTGGATGTGGTGTCTGGGATGGTTGCCGTGTTCCAGAAAACCCCCAAAGATCTGTGAGTGCATGGAAAGCTCTTGGTGGAAGACGAGTTGTCAAGAAAGTGTGCTTTCATGGCTAATTCAACAAACCTGTTACTTTGAGGTTATTCAACACCATCATTCATTCATTCATTCATTTCAGTCGCTCAGTTGTGTCCAACTCTTTGCGACCCCGTGGTGACATCGTTATACCATCTACTTATCAAGAGCTTCCCAGGTGGCTCAGTGGTAAAGAATCCATCTGTCCAGTGCAGGAGACAGGGGAAAGACAGGTTCAATCCCTGGGTGGGAAAGATCCCTGGGAGGAGGAAATGACAACCCTCTCCAGTAGTCTTGTTTATTTAAATGAAACAAGAATTCCATGGAGAATTCCATGGACAGAGGAGCCCGGTGGGCTACAGTTCATGAGGTTGCAAAGTGTCAAATATGACTGCGCGACTGAGCACACACACGCAGGAGTGATCTCCTCTATTGCACTCGTCTGAAAAATGGATCTCAGTGGATCATTGCGATTATGAGAAAGTTACTGCAGGATAACAGGGTTGAGCGCTGAAAGTCAGACTGTTAGACTGTGCTGTCTTCTGAGAACTGTCTCCCCAGAGTCACTTTAGTGACGGGTAGCAGCAGTGGCACTTCTGGAAGTAAGAAATAACAAAGTTCTCACTTGGGGGTCTTTATGGAACTTTTTTTCCCCTCCTCTTGTTGAACTGAAGAGGAATTCTGTTGATGGAGAGATTCTACACTGAGATGGCGGGCCTTTGGCAAAAATGTCCGATTGGAGTCACGTAACAAAATACATTTCACAAATGTGGGAGGGGGGAGGTATATTTCAAAATTTAAGTAAGAACCCAGTGGCTCTTGATGCAGTGGCAGGTAAAAGTCTGACGGACTCAGGTGCACCAGCTCCCTCCACTGGTAACCTCACCTGTCTCAGAGACTGTATTGCCAGTGGTATTAGGCATATTGTTGGGTGGGGTAAATTAAGATTTGGTGCAAAATTACATCCTGAAAATTCTCTTGATATTTCCAGACACCTGTCTGACTGAAATACAGTATGTTAAGGGTTTTCCCTCGGCTGGCATGCTTTTGGAAACAAATGAACAACTTCCATAGGTTTTGTAAATGCTCAGGAAGTGCCACTGCAGCAGACTGGACCTTTGGTACTGGGTCTTACGTTACCCAGCCGCGTGATCCTGGGCAGGCCACACAGCCTCTCTGGGTTCCAGTTTTTTGAACTGATGACAAAGGATGAAAGTTTGCCCAAAGTTGCCCAAGAGTAGCCTTGAGTCACCCTAGATGGTTGCAGAGGAAGACAGCAGCAAGGAAGGGCTGCGGGGACTGGACATTCAAGGCGACTTTGCTTAGGAGCAAGAGAGAGATGACCACTTCCAGGAGAAGTTTCAGGTTCATTCTTATCCATGGCAATCCAGGCCCTCATCCCAGCTTTCCTTAGCTAACTCTCACTCCACACTTACAAGAACATCTTTAGTCTCTGCAATTCATTTGTAAACATTCTACAAATATTCTTGGCGATCAGGTATGTGCCAGACACCATGCCAAGCGTTGGAGACCCCAGTGCTGGTGGACCAGACTGATGTGGCCGCTGGTTCATTACAGTGAAATGGGGAGACAGATCACAAAAGATGAAAAAACTACTCCCAGAGTATGCCAGAGGAGGACATTAAAGGGGGCTGTCTTGGAAAGAAGGAGGGAGAGAGCTGTAGGAGAGTGCCCAGGGAAGACTGATCAGAGAAACTGCAGGACAGAGCAGAAAAGAAGCAGAGGGAATAAGGTGCTAGGGGAGGTGGTCGGTCCTGCAGTGAGAGGGAGCCTGGCCCCACCCAGAACTGTGGAGAGGAGGTGGGCTGGAGTTCCCTGATGCCTGGGCGCCTGGAGAAACGTTTGGTTTAGGGGGTGAGCATCACCAGCTTGGCTGAGTCTTCCAGGGGCTTCTGTTTTCTCAGTGAAGCTCAGGGTACAGGAGCATCTGCTTTATTGGAGGTTGGGGTCCCTGAGTCACTGCAAAGAGTTGCCCAAGAGTAGCCTTGAGTCACCCTAGGTGGTTGCAGAGGAAGACAGCAGCAAGGAAGGGCTGCAGGGACTGGACATTTGAGGCGACATTGCTTAGGAGCAAGAGAGAGATGACCACTTCCAGTCCTGGCTTGTGAGGGCAGAAGGGGACTTGACGTCCTGCTGGATGTCAGTCAACAGGGAGCTGAGGGCTACAGCCGACTGGCTACAGGACCTTCAGGGTCACCTCGACAAGGGGGTTGTGCACAAGCCCCAGCAGAACCTTGTGAAAGAGGAGAGACAGAGCTGCTGGGGCCCTGACTCTCACAGCAGAAAGAGGAAGTCCCTTCCTGGAGCAGGGGGGAGGGGAGGAGATGGGATATAGTCAGCCCGGTGACTGGCAGATGAAGGCATCTGCCTTTCTCTGCATCTGTTCACATGTTCATACATCTCAGTGAGGACAGGAAGCTCTGCATTTATGGTTTCAGCACCTGCACCTACAGTATAGACGGGGCATGTGTGACAGTGCGTGTGTTCAGGTGTGCTTAATGTCTGCGTGTGTCTACAGGCACACACATGGTTACCTGCACAGCTGAAATGTGGCTTTTATGTACCTGTGGAGACAGGGAGAGGAAGGAGGCAGGGGATGTGGCTTCACGTGTCTGCAGCCTCCACGGAGAGTTGGAGGACTCGGGATACACTGCTGACACCACAACTTAATGCCAAAGCGGTGGTACTCACGTGCCTATCCCTCGGTGCTTTGTGTATATGGTACTTTACATGTTTCTTTTAAAGAAGAGACTCTGGACCGATAATGGCAATGCAGTCAAACGTTAAGTAAACTAGGATGTTACACACCATCCACCTGACTGCATGGAGCAAGGAGGCCTCCTCACGTTCAGATAATCATCCAGGAAGCTGCAGACACACCTGCCTCTGCGGGCACCATTTACCATCTTACAAGTCTCAGAAGCCTGCTCCGGTTTCTGGATCAGGTGCTGAGGTCTGATACGAGCCTTGGTTCCCGAGATTCAGGCAAGTTGCCTGAGAGCTGATACAACAGGTGGACACAAGTTCATAGTCACTTTGAGGCAGTGATCTTGTTGAAGCATTTTTGCTTTGTGATTTGTCTTTGAGTTATCCTAACCTTAACACGTAATGTGGGAACTTCACAACACAGGTCTCTTAAATAAAAATACTTCTGGGCCACTTGCTAGTTTTGACACTTATTTCCTTTTGACATTGATTATGATGCTGAATAATTAGTGTTTTTCTCCTTGACTGCAAACATCAAGGCACAGACCAGAGAAAAGAAGGGACTAGGGTGTTGGTGCTCTTCGAGTTTTGTACTTGATGATAGGTGTTTATGAAGTCAAGGTTGTGAAACACAAGGCCCTCTGAGCAGAAAAGGATCACTTCTTTAATTATTTGAGCCATGGCTTCATCCTCGCCTCTAAAGCCCCAGCAATGGATTTCTGGCAGAAAAGAGCTTTCTGCCTTTTTTAGTGACAACATACTAAATACGTGGTGAATAAAACTACACTGATTTTTGAACGATTGTTTTGTAAAGCATACTAAGAGAAGGTAGGGGGGTTGGGGAACCCCACCTGCCAGCAGTTGGGAAGGACACGGCTGTTACTCATGTGTGAGTTAGGATAAATCCCTCAGGGGCTCCCACGGACTTGACATTGGCAAGAACAACTGGAGCTCCCCTTGGGTGGAATTAGCTATGTAGAGGGTCATATTGAACGTGATGGGCCAGGCCATTCCACTTACCTTGTCACGTTGCTACCTACAG
Seq C2 exon
TCATTGAAGTCAACAAGAGGGACATAGTTTTCCTGGTGGATGGCTCTTCCAAACTGGGACTGACCAACTTCAATGCAATCCGCGACTTCATTGCCAAGGTCATCCAGAGGCTGGAGATCAGACAGGATCTTATCCAGGTGGCAGTGGCTCAGTATGCAGACACAGTGAGGCCAGAGTTTTATTTCAATACCTACCCCAGCAAGAGGGAGGTCATAAACGCCGTGCGGAAAATGAAGGCTTTGGATGGCTCAGCCTTGTACACGGGCTCCGCTCTGGATTTTGTTCGGAACAACCTGTTCACGGAGGCGGCCGGCTACCGGGCTGCCGAGGGGGTCCCTAAGCTTCTGGTGCTGGTTACAGGCGGTAAGTCCCTAGATGCGGTCAGCCAGCCCGCCCAGGAGCTGAAGAGGAGCGGCATCCTGGCCTTCGCCGTCGGGAACAAGGTGGCTGACCAGGCTGAACTGGAAGAGATCGCTTTCGATTCCTCCCTGGTGTTCACTGCCACCGAGTTCCGACCCGCCCCTTTGCAGGGCGTGCTGCCCGGCTTGCTCGGGCCTCTCAGGACCCTCACTGGAACCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030190:ENSBTAT00000018479:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0009223=VWA=WD(100=86.1)
A:
NA
C2:
PF0009223=VWA=WD(100=86.2)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
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]