BtaINT0039243 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014546 | CLEC7A
Description
C-type lectin domain family 7, member A [Source:HGNC Symbol;Acc:HGNC:14558]
Coordinates
chr5:100284529-100286031:+
Coord C1 exon
chr5:100284529-100284666
Coord A exon
chr5:100284667-100285879
Coord C2 exon
chr5:100285880-100286031
Length
1213 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGG
5' ss Score
3.33
3' ss Seq
TATTTATCTTTTATTTCCAGGAG
3' ss Score
9.24
Exon sequences
Seq C1 exon
GTATTTGGAGATCCAGTTCAGGGAACAACCTGTTGAAGAGTGACAGCTTTCCATCAAGAAATAAAGACAACCAGAGTCAACCCACACAATCATCTTTAGAAGATAGTGTGATACCTACCAAGGCTCTCACGACCACAG
Seq A exon
GCAAGGGCAGAATTAAGGATTAATAAAATCCTTGATTCAGAAGGCTTAATTTTTGGTACTAAGGCTTGGAGCAGGGGATGAAGAAAGTACTTTTACATGTGGTGATTCTGCATTCTAATAAAGCCCACAGCAATATTATCTCAGTAAAATAAGTCTTCTGTAATATACAAGGGCTTCTCTAGAGGCTCAGATAATAAAGAATCTGCCTGCAATGCAGGAGATCCAGATTACAAAGTGATAGCATAAATACCTTATGAACTTAGCTGAATCTCCAACTTAGTTGGATTTTTTTCACGTCACTGATTTTTCACATATTTAAGCTTTTAGAGGTTTGTGTAATTTGATTTGAAGAAACATAATGTGTTCTCACACCATAGGGAAAAGACATTTTAAAGTGATATAGTTAAAATAAGAAATAGGACACCAGAAAAGGTTAAAAAAAAAAAAAAACAGAATAGAAAAAGGAAAGAAGGTAAAGTGTTGCTAAGAATTTAAAGGTTCATAGATATGTTTAATATCTATAAACCTAAAAAATGTTTCTTTTTTATATAAATTTATTTATTTTAATTGGAGGCTAATTACTTTACAATATTGTATTGGTTTTGCCATACAAAACCAGTTAAGTTTGTTTTTCTTTAATTATGCAAGTTAATTGATTTAATTACCATTTTGTATACAGTAGACTTTAATTCCTAATTGCACTGTTATTGAGTATGACAATATTTGGACTTTAATTTTCCATCTCTGGACACATACCTCTTCACTGTCTTTATCACATTACTCTGTAATGTGAATGAGTGCTCTTATACTTTTCTTATTTGGTGAATTGCGTTCTGAAATAGATGTCACACTTGTAAAATAAGTCAACATGAAATTATTGTGTATCTCAATGACTGACATTGCATTGGTTTATTTTGAGGGTTATCATGGAGAAAAGGAGTTCTGAGCTGACTGTAAAGGCATGCAAGACAAGACAAGAAAGAAAGGAGAGTTGATAGTCTACAACACTGTAGCCACTCAGTTATTTTTTAGCTGTAAATGAATAAGGGGTTTTAATATGATCCCTTCTGTAAAGTTATATCTGTATAGTTTGAATTGAAAATGAAATATATTCATGGCAATTTATTGATTATTATGTCCTTAGGATTAATGGTACCTGTACTGAAGTACCATTCATAGTATGAAACTCATTGTATTTATCTTTTATTTCCAG
Seq C2 exon
GAGTTTTCTCTAGCTCTTGTCCCCCTAACTGGATCACACATGAGGATAGCTGTTATCTATTTAGCACACTATTAGATTCCTGGGATGGAAGTAAAAGACAATGCTTTCAACTGGGCTCCCATCTCCTGAAGATAGACAGCTCAAAAGAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014546:ENSBTAT00000019331:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.489 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083915=Ly49=FE(60.5=100)
A:
NA
C2:
PF083915=Ly49=PD(14.7=9.8),PF0005916=Lectin_C=PU(25.2=52.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGATCCAGTTCAGGGAACA
R:
TTTGAGCTGTCTATCTTCAGGAGA
Band lengths:
278-1491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]