BtaINT0041075 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010050 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr2:122608195-122609302:+
Coord C1 exon
chr2:122608195-122608239
Coord A exon
chr2:122608240-122609113
Coord C2 exon
chr2:122609114-122609302
Length
874 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TGAGACTTCCTGTCCTCTAGGGT
3' ss Score
8.24
Exon sequences
Seq C1 exon
GGACCCCCTGGAAAACAGGGACTCTATGGACCCCCAGGTCCAAAG
Seq A exon
GTGAGTTGGGCTCTGGCTGGGTTTGAGAGGAGCAGCTCATGAGTTGATGAAGCCCAGCCCGAAGCTCTGACTTTAGCCATGGAGAGGAGACACAGCAAGGCCAGTGGGCAGGGAAGAGAAGTGGGCGGGACTTGGAGCAACCTTGTCTCTGAACACTTCTCACGTGGGGCTGTCCCAAGGTTCTTAGCTATGGTGGGAAGAATGGAACCCTCGTGTTCATTCACTCCTGATTGATTCATGCATTCATTCTGCGAGCATCCGCTTGGCTTTACTCACCTGCCAGGCCCTCTCTCCTAGCCTTGGGCCCGGTGCCCACTTAGTCCAGTCACACTAACACTGGAGCCTGTTGGGTTTTAGATGCAGTGCTATGGAATCAGAGGGAGGGAGCGATCCACTCAGCCTGGGGCGTCGGGGAGGTTGCACAGAGAACAGGGACCTTACAGCCGAGTGGGAGGAGGACACTGGGGAGAGGGAAGGCATTCCAGGCCGGGAGGACGAAGACACATGGCTGAGTCAGAACTATAACCAGCAAGGCGTGGCTGGAAGCACCCGGGCAGGAAAACGAGGCTGGAGAAGACATAGTCGGGACCCCATCATGATGGCCTGGAATGCCCGGCCGAGGAATTAAACCTTTATGCTGAGGGCAACTGGGAGACATGGAAATTTCTCAGCAGGGAGTAAGAACATGAAAACCATCCTTTAAAAGGACTGCTTTGGGGGCAGAGACACGAGGCAGCCTGTCAAGATGCTGTGATCCAGAGGGAGATGCTAGGGGCTGCGTGTGGCACTGAAGCCGGGGCAGACCCTTGAGACACTGTGAGATAAACTTGACGGCTCTTGGCAATGTTGGACTGTGAGACTTCCTGTCCTCTAG
Seq C2 exon
GGTGACCCGGGGCCTTCAGGACAGAAGGGCCAGGCAGGAGAGAAGGGAAGAGCTGGCATGCCTGGCGGGCCCGGCAAGAGTGGCTCCATGGGACCTGCGGGGCCACCGGGTCCTGCAGGAGAGAGAGGCCACCCTGGATCTCCGGGGCCTGCGGGGAGCCCTGGATTGCCCGGGGTGCCCGGCTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010050:ENSBTAT00000038016:66
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:
NO
A:
NA
C2:
NO
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:
TGGAAAACAGGGACTCTATGGAC
R:
CACCCCGGGCAATCCAGG
Band lengths:
214-1088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]