BtaINT0041056 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010050 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr2:122592730-122594534:+
Coord C1 exon
chr2:122592730-122592774
Coord A exon
chr2:122592775-122594480
Coord C2 exon
chr2:122594481-122594534
Length
1706 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGA
5' ss Score
4.07
3' ss Seq
TCATGATTTTTCTCTCCAAGGGT
3' ss Score
6.84
Exon sequences
Seq C1 exon
GGCCCCCCAGGTTTTCCTGGTGCTGTTGGCTCCCCCGGATTGCCT
Seq A exon
GTAAGAACCTAGCGCTGCTCGACCTCCCCTCCCCTGCCAGCCAGGTCTCTGTGGCTCTTGCTCGTCTCCCTTCCTGCCATGCCCTGGCCTCCCTCCTCCGTGTGTGTGCGTGCGTGTGTCATCGTCGTCATACCCCCGCAGGCTCGGTAGCTAACGACACAGGTTCCCTGAGGTCCCAGCAGCTTGGACAGCCTCCCAGTCTCTGACTCTTTCCATTTTTCCCTTCTCCCTCTTCTCCTGCTCTCTCTCTCTTTCTCTCATCGTCTGTCTTCTCCCCCCCTTCCGTTTCCCTTTTTTCTCTCCCACAATCACACATCACTCCCCCCTAAATCCTCCGGAGCTATTTTACCTTCTTATTTTAAGCTGTTGCCTCTAGGGGCCTCTTTATTCCCTCCCTTCTCACTCTGCCTCCTGCTTCTCCCACCTTTGGTGTTGACTGAAGATTTGCTGAAAGTAGTTCTTGGGGCCCTGCCAGGTGCCTGGCACAGAGCCCGGCAGAGATGCCAAAGCTTTAGGGCTTCACACTGCAGGCTGGCACGGGTTCACTGCCCTGCTGCTTGGCGGGGCTGGTCCAGAGGCGCCCCAGGGATTTCAAGGCGGCCACGCTTGCAACCTTTCCCATCATCCTAGGGGAAGCTTCCTCCTCTTCCCTTCTTCTTCTTTGGCTCCGGGCCAAGTCTGCTCTGAGGCTGGGCATGTGGTGCCAGCAGTAGGGTTTCCGGGGGTCACAGGGCCCTGCTCCTCCTGCCCAGTGTCTTGGCCACCTCCTTCTGCCTGGTGTCGTTAATTGTTCTGCCTTCGTCATCATCACAAGTACGTTTAAGTCCTTCTCATCCTCACTGTTGCTCCCTTCTGGGTCATGGAAACTAACCTCCTGTTTTGTCGGACTTCATGTTCCCGGGGTCGGCTCCTCTCCTCCCAGGGCTGGTGATGGCAGCTCAGGGAGCAGGGCCCCTCCTTGTCACAGCTCCATCTGTCCCCACGTCCTCATCCTGGCCGGACCTTGTCTGTTTCTGCTTGCTTGGGTGGAGGGGCCATCTGTCCGTCTAGCCATCTGTCTTGTGTCGTGGAAAGGTTTGGGCACCGCGTCTCTGGAAGGCATGAGGGAGAAGGGGCAGACACAGCCCCTTAACGGTGTGTGTTGCATCTATGAAGTCCAGGTTGAGGATGAGGGATGGGGACTCTACTTTGCAACAGATATCCCCAAAGAGACAGGGACTGCTCTGGAGGGAGCCTTCCTGAGTCCTTCCCCAGCATCCCTAAAGGAAGTTGATTTTTGCCTGGGGTTGGGGGCGGGGGGCTTGGACAGGTAAGTGTCGGGCATCGGGTAATACATCTTGGTGGGGAGCACTCTAGGGACACCTCTGCTGACAGTTGCCCCTCGGAGGGAGCACATGTATCACTCTCCTGAAGGTGCGCCCCAGACAGTGGTCACAGTAGGACCCACCAGTGACAGTCACCCGCCTGGGCGGTATCTCTCTCTGGTGGCCCATCGTGGGGGCCCTCGATGTGCCTCTGACAGTGCTGCCCTTCTGGGTCCACCCCCTCTGGTCACTTTGCTGGGGACACTCTGGGGGCCACCAGCAGCCACCACCCCTCCACCTTTGCCTAGAATGGGAACACAGGGCTGCGGGGCTGTGGGGAGGAGGCAGGGGCTGGGTGGGGACTGCCCTCCCCTGCAGTTTCTCATGATTTTTCTCTCCAAG
Seq C2 exon
GGTCTTCAAGGAGAGCGAGGCCTCAGGGGCCTGACGGGAGAGAAGGGGGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010050:ENSBTAT00000038016:49
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(23.3=100),PF0139113=Collagen=PU(14.3=66.7)
A:
NA
C2:
PF0139113=Collagen=PD(1.7=5.6),PF0139113=Collagen=FE(24.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]