BtaINT0040898 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011741 | COL13A1
Description
Bos taurus collagen, type XIII, alpha 1 (COL13A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105433]
Coordinates
chr28:26344107-26351080:+
Coord C1 exon
chr28:26344107-26344133
Coord A exon
chr28:26344134-26350972
Coord C2 exon
chr28:26350973-26351080
Length
6839 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
CTTGTTTCCACCAACCTCAGGGT
3' ss Score
6.47
Exon sequences
Seq C1 exon
GGTCAGTGTGGCGAGTACCCACACCGG
Seq A exon
GTAAGTGAACCCCGAAAACTGATCCATCCCTGGGTCACAGCCCCCAGCTTAGCCTCCTCTTCCCTACAGTGCTTGGGGCCGGGCGCACACAGATCCTCTGCACTCAGCAGACAGAGCAGCACCATGATGGGGGCAGTGCGTCTGGCCGGCCCCAGGGTTGTGCCTGGTGATCAGCGTGTGTGTGTTTGTGCAGAGCTATGTGTCTCTGTGTATCTACCCCCGCACTGGCTGGGGCTGGGAGCCCCCAGCATGTGTGTATCTGGAGTTCCAAGTGCCTGGCTGTGCGCTCCTCTGCAAGTGGCCTTCAACATAAGGCTGTGCAACTTGTGTGAGTCTGGGTCTGGCTCCCTACCCGGCGTTTCTGTGTGTCTGTCTGTCTGGCCGGCTGCCCGGCTGTCTGCCTGCCCTGGCCAAATCACAGGGACTTTTGGGTTAGTCATTGCTTCAGATGACCCAGACCTGCGTGCTGGGAGATAGTTGGAAGCTGACTGTCAGTGCAAGAGTGAAGTCTTTGTTTTGCCTAAGAGTCAAGGCAGCCGCTCCAAGTGCGGTGGGGCTCTCAGGCTAGTGTCCTGGTCTTCCCCACCCCCAATCCAGTTCCTCCGTTCCCTTGCTGCATGCCAGGATACGGAGCCCAAAGCCTGCTGAAGTCCTGTTGAGGGCCCTCAGATGTGTGCACTAACTAACGTTGAGAGCCACTCTTGTGGGGGGGGCTGAGGAGAGGCGGGGGGGAATGAAGGTGCAAGAGCCCCAGTGAGCTGGGACACCCCTCATTTTGTGGATTGCCCTTGCCACTCTCAGCCCCGGGCAGCGGGGACCGGCATGACAGGCATCTTTAGGTGTCCATCCCCCTGTCGCGGGCAGCCTTGTGCCCCCCAACACACACAGTGTGGCCACCCTGGCTATCCACCCCTGCCAGGCAGGGGGCTTGAGGGAGTGGAGAGAAAGACTAGTCAGACTCTGAGTCAACCAACCTGGCTCCAAAAGGCCCCAGGAGGGCCTTGCTAGGTGCTGACCTCTGGTTCCCAGGCCAGAGAGAGGCTGGGGGCAGGGTGCAGCCTTGAATGTGAGCGGCTGGGGTAGGGATGAGGCCAAGGCTGAGTAGGGGGCTCAGGCAGGCCGGCGGCAGTGCAGACAGAGCCAGCTTGGCGGCGGCATGTGCTCCAGGGAGTCAGGGGCCCTGGTGTTCCGGCCAGCCTGATCCCGATACAATAATAGAAGGTCAGCTGTGTTTATTTGAAACGATGGGCTCACAGGATTGTTATGTTACCCGAAAGAAAGACAGCATCCCCCAGCAGCAAAGACAACACAACTGCAGCCGCTTTGACAGTGTGTCCTTAGCTCTGAGCGTGGGGCAGGGAGAAGGGAGGGACTCTGCCCTTGAGCCCAACCCAGGAAGAGGGAGCCAGCAGGGATGGCAGGCCCCAGCACACCTTGGCCACAGGCTGCAGAGAAACCCAGGGTTATGACTGCGCCAGGGTGTAACAAGTCAGGCTGGGTGAGAGTGGAGTTGGGGATCCAGCTGATGGGCAGGGCAAGGCAGCTGGCACCTTCCATTCATCTGGAAGTGGGTAGGAAAGCAGGGTGTTTCTCGGGTAGGGGGGCTGTTGCCTTTCTGAGGGGTCTGCAGGCCTGAGCGGGGTGGCAGGCCTCCCAACCTATGAGATACATGATCGAGGTGGTCTGAGCCTCTGTGCCAGCCTGCAGCATCCCCAGGGAGAGAGGGGTAGGCCGGGTGGACAGGGGGTGTCTGGGGTGCCCTGGGACTGGGAGCTGGTATCTGAGCCTGGCACTCACTCTTCCTGTTGCCCTGTCTCCCCTCAACCCCCTACCCTTAACCCCACCCCAGGAGCACCTAAGTGGCTCTCTAGCAGCTCTGCGCTCCAACCAGATAATTATTCTGAAGGTTTGTAGGTTCTGGAAGGTCTCTGGGCCCCTCTGGTGACAGGCTCCATGGACACAGAGCCCAATATTGCACATCCCCAGGCCCCAGTGAGAAGGCTGGGGCTCCTTGCGAAGCAGCTACCCACCAAGGTGGCAGTGACCCAGAAAGGCCGTGACTGGGCTCCCGGGTCCCTGGCTGGGTGCATCCTCAGCCCAAGCAGTCCTTGCTTCCTAATGCTCCTCCCAGCCACCTTGTGCGAGCTACAATGCTTTCAGAAACAAGAGGTGGATTATATGCCCTCTGTTTTCACATGGGTTCTAACCTCTTCCTAAAGCTGTGGGTGCTCAACTCCACTGGATAGAGAGGCTGGAAACAGACAGAATTTCCAGAAATGAAAATTGCGTTAGCTAACATGATTGCCTCTCCCCGCCCCACCCCCACAAAAAAGTGCTTGAACATGCCAGAGACGTCTTTGTCCAGCCTCGATGTTCCAAGCCCCTGGGTGAGACCTCAGTAACACTTAGCTGGTGCCCACACTGGTCACACCCTCCTGCTCAGCCCCCAGGATCCGGGCTCGGCTCTGCCCTTGACCATCTTCCCCAGATTTGCTGACACCAGCCCTTCTCGTCCAGCTGAAAAAAGAACCCAGGGGTGGCTGCCCACCAGCCTGGCTTCAAGTACCAATTTAGGCTGATCCTGTGGCTCCCAAATCAGAGCCTCAGAGTCTGTTCCCCTCAGCCCTGCAGCCTCTGTCCACGACCAGGGACCGTGGGCCTGGCAGTGCAACGTTGGGCCGTGTGTCCGGAGGCCTCTGTGGCCCGGCTTGGCTATGGAGGGCAGGCCTGGCTGGGGAGGCCCCTCCCTACTGGGGAGTGCTGCTGCCAACGCCCCGAGGGCTTGCCTCCTTCCACGGATGGGGTGCCTTCCAAGGGCAAGCTCAGCACTGCACCCACAAGCCTCGAGCGGCCCGTCCATGCCCTCCCTCCAGTGCCTCACACCCGCTAATCTCTCTTCTCTCTTCCTTTCCTCCCTCCCCCTCGGCCACCCTGCCTTCCTGGTGGACTTTTGACCCTCCTGAACACCTGCGATCTTTGGCCTCTGCCCTCTGGCCTTCCAACTCATCTTTCTCCTCAGCTGCTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCCCCAGTCATTAAAAGGCGGACCTTCCAGGTAGACACCTCCCTTGGCCAGACCACACGGGGCTTCCCAGGGGCTGGCAAGTCTCTGGGCCCTGACGAACCAGCTGGGGCTGTGACAGTGAAAGTCACTCAGTCATGTCTGACTCTTTGCGACCCTATGGACTGTAGCCCACCAGGCTCCTCCGCCCATGGGATTTCCCAGGCAAGAATACTGGAGTGGGTGGCCATTCCCTTCTCCAGGGGATCTTCCTGACCCAGGGATCAAACCTGGGTCTCCTGCATTACAGGCAGATTCTTTACCATCTGAGCCACCGGGGCTGTTGGCAAAAGCAGAATCTCACTGCACTCCCATTGCATTAAATTAGACAAAGACGGACCTACAAATGCCATACACGTGGAAATGCACAACACCCAGGCCCAGCAGCTTCAACCACTGTCTCACTGTCACTGCTCACAACAGCCAGCAAAGCAGCCGCCACTGTGTGCCAGGCACCAGGCCATGCGTTTTCCAGCCTGCTTTCGTTTACATTCTCACAATGGTTGTATGAGTTAGGCATGATCATCCTTGTTTCACAGATGAGCAAATCAGGCTCAGAGATGTTAAGTAAGTTGCCTGAGGTCACACAGCCAGTAAACTGCAGAGCACCCACATTCTCCGACTCTTACTAGTTATGCAATTTGGGGCGAATTACTTCACCTTTCTGTGCCTCCGTTTTCTCATCTGTAAAATGAGAATAATGATGGTTCCTACTGTATAGGGTTATTGTGTATGCAGAGCACTGGAAATACTTCCTGGCAGTTTAAGCGCTGAAGTTAAATTGAGGCTCAGAGAGGTGAATTTGTACCCAAGGTGGCACAAACAGCAAGAGAGAGTGGGAACTGGCAGTCGAGTCTTCAGACCCCACACCCAGGGCTCTCTCAGTTGGACCTACACCCTTTATATTTAGAAATGCAGATTGCTTAGCATCTGATCACTTGTAACCTGAGTTTGAGAAGCAAGGGAATTTGCAGAGGAAATGTAGCCCACAACCAACAGGTGTAATCATTGTGAGCAACTGCTTCCTTCTTCCTGCCTTACTAAGCCAAGGAGGCTGGGATAGGACCAGATCACAAAGAACAAAGAGCAAGAGACCACAGACCCAGGGATCTAGGCAAAGGCATTGCAGCTTGATGCCAGGCCAGGAATTCCATGGCTGCCACCCGCACCCCTAGCCTTGCTCACACTGGGGGTCAGAGGTAACCCCCAAGGTCGCAGGAGTGCTGGAAGTGGCAGGGCTCTGAGATGCTCTCTGAAAGCCTGACAGCAGGGCCTGGAGCCACCATCTGGCCTGACTCCGGAGCCCAGGGGCCTGAATGTTCAGGCATCTGATTGAACAAGGCTGAAAAATCACTCCAATTAATGGCTAAAAATACAGAGGGACACGTGACACGTGTGCTACCCAAGCCTCCGTATCCCATTACACCAGCCAGATCCTCGAGAGCCTCCATGTGCTCTGAGCGCTTACCCAACGCCTGGTTATTCAGGGGGCTCACTGGCAGCTCAGAGAAGCACCAGGCCCACCCCACTCTCAGCCACCCCTACCCATGTCAGACTCCATTTCAGGAGAGCTGAGTCCCTGCTCTCAGAGTGGCCATTTGCCTCGGCCCCCCTCACCCACCTCCTGGCCCTAGTTGCACTGACTGCTGTGTGTTGAGCCCTTGCTGGGCTCCAAGCTCTGTTGTGAGAATTCTACACGGATTATCCCATGTAATCCCACACGGGCCACCAGGAGTGGAACTGGCATCCTCATCTCCACCTTACAGAAGAAACTGAGCGGGGCAAGGCATGCTACTGCCTCCCTTTTCAAGAGCAGGAGGAGGATACACCAGAGCTTTCTGTGCTGCCCTGACCTGATTTCTGAAGTAGAGAGAGAATAGGGACCCCTGTCTTTCCTGCTGCAGATTCTGCCTTGAGAATAAGGTTTTTATTCTGTCAGCCACCGTGGGACACAAAAAGGCTTGTCCATTTCCAATCAATAAACCAATATTGATTTCACAGGCTCTGTAAGATGTTTAAACATTGGGTTTAACATTAGTTGAAAAAAATGATGTGTTTAGCAGATGGCATTGAAGGTCATTGCCAAAGTGCAGAAATTTGGATGGTGAGCAATTCTTGCTGGGGGCTTATTTGGAATGAATAGAAAAGTCTAGAGTTCTGGGTTTTGATTCCAGTTCCCCCCAAATTGTCCGTGTGACCTTAGTCAGGGTGCTCAACTTCTCTGAGCCTCCATTTTCTCTTCTGTAAAATGGGACTTGTGACCCATCTCTGCAGCTGCCTTCTCCACCATGGACTCTCCGAGCCCTTAAGTGGATTCTTAGAGGGTGTGGCAGGATGTAGCTCAGGCCAAGAGTGGCATTGCTGGTGGCCTCTGTCCTAGGATATCCCATTGGAGAGATGGTTCAAGCGGATGCTGCTAAAATCTGAGTTCCCATTCTGAGGTCATGCACTCCTATTTATAATATGGGGTTTGCAGCAAGCATCATCAGGCCCCTTTTCTATGTACAGTGTCATAAAGGATTACTGAGATCACACTGAGAAGGGCGGGCTGGCGTGCAGTCTGGCCACCTGGGTCTCCTGCATCCCAGCCTGGAGCACTCACACCTGCCAGACTCTTCTACTCGAATCTGTCTGCAGGGCTGGACCCCTCAGCGAGAGCTGAACCCAGAACCTCCCCGGAGAGGTCGTGGAGAAAGCAACCTAACGACACTGGTCTGCACAGATTGCGGATGACACGGGCTGGCCCCCAGCCCTGAGAGCTGGGTCACGTGGACCAGGCTGTCTCCTCCTCCTCACGATCCCACCCCTGCCGCCCTGGGCTCTGGGTCCACCCTGGGCACCTGCGTGGGGTGGGGTGACAAAGGCTTCAGGATAAGGAAAAAGAATAGTAATCGACTCCAGAAAGGCACGAAGCACTTTACACCTTCAAAACTCAACCAGACAAAGGGCTGCAAACTCAACTGTCCTCTGAGGTCAGGCACAGATCACACAAGTGATAAAGCAGGCTGCACACAGAATGGTTTGGACGGGTGGGGCCTGAGGGACCCGGAGAGCCCAGCTGATGGCGGCCCCGAGGAATGTGGGTCTAGCTGGCCCAGGCTCCATTTTCTTCAGCAGAAGCTACCAAGCCATATATATATATATATATATATATATATATATATATATTTTTTTTTTTTACATAAAATCTCTTGCCCAATTGTTTGGTGAGCTAAGCAAAATTCTGTGGCCTCTGACCTAAGGACTCAGTTGATCCTCTGGGCCAGATAATCAAAGACGGCAAAATGTGACAGGAAACAAGGAAAGGCTGTTCTCATCTGACGGCTGGGAGGCCAGGGCGCAGAGATGGTGGGCTCGTCACACGCAGGGAGGCGTCGAGGCAGGCCGAGGCTGCCGGCCACCTCGGCTGGACCCTGGTCATCCGACCAACCTGGGAACAGGACTTTGGCTGGACCGGGGGGCACTCACCCGCTCCTCTGCCTCTGCCACCGCAGCGGGGCTCTGCCCTGGGGACCAACAGCCCACGCAGCAAATCCTCTCTGGAAGCCTCTCCTCTGGAGGCCTAATGTCTTGTCCACCTGCTCACCGCCACCGGCCTCTGCATGCGTCACCACCACCACACCGTCACCTCACACCACGCCGCCTCCCCCAGAGTCCACGGCAGGGCCTCACCGGGTGCATGGCACTGGGGCGGGACGGTTCTGCAGCCCAGGGCTCTCTCTCTGACACTTGTTTCCACCAACCTCAG
Seq C2 exon
GGTGAACAGGGCCAGGCTGGCATCCAAGGCCCACCAGGGCCACCAGGCCCTCCCGGACCGAGTGGACCTCTGGGGCACCCAGGACTGCCAGGGCCCATGGGGCCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011741:ENSBTAT00000039811:12
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=FE(13.3=100),PF0139113=Collagen=PU(7.7=55.6)
A:
NA
C2:
PF0139113=Collagen=PD(3.4=5.6),PF0139113=Collagen=FE(43.2=100),PF0139113=Collagen=PU(15.5=30.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]