BtaINT0141331 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030885 | SSC5D
Description
scavenger receptor cysteine rich family, 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr18:62462011-62465426:-
Coord C1 exon
chr18:62465109-62465426
Coord A exon
chr18:62462581-62465108
Coord C2 exon
chr18:62462011-62462580
Length
2528 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CCCCCCACCCCCGTCTCCAGGAA
3' ss Score
9.23
Exon sequences
Seq C1 exon
GATCCCCCCAGCTGCGCCTGGTGGCGGGGCCCAGCAGGTGCTCGGGCCGGCTGGAGGTGTGGCATGCAGGACGCTGGGGGACTGTGTGTGATGATGGCTGGGACCTGCGGGACACAGCCGTGGTCTGCCGGGAGCTGGGCTGCGGGGGACCGCGGCAGTCTGACCCCACTGCCGGCCGCTTTGGCTGGGGCGCCGGCCCCATCTGGCTGGACGATGTGAGGTGCACGGGGACCGAGGCTGCCCTGGCCGACTGCCTCGCCGCTCCCTGGGGGAAGCACAACTGTGCCCACAATGAGGACGTTGGAGTCACCTGCGCGG
Seq A exon
GTGAGGAGGCCTCGCCATCTGCTGGCTTCCAGAGGGCTTCCTGGAGGAGGGAACGGGAACTGACATTGGCACTAACGTTGACTGAGCGCCTGCCTCCTAACCCCTGCCCCAGGAGGGCTGTTTTCACACATGTGACCCCATTCACACCTCAGGATAAGTCCAAACTGATGGACATTATGCCTATGTGAAGGGCTTCCCAGGTGGTGCAGTGGTAAAGAATCCGCCTGCCAATGCAGGAGATGCCTGCCATTCCATCCCTAGGTCGGGAAGATCCCCTGGAGAAGGAATTGGCAACCCAATCCAGTATACTTGCCAGGGAAATCGCATGGACAGAGGAGCCTGGCAGGCTGCAGTCCATGGGGCTGCAAACATTCAGACANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCCATGGACTGTAGCCCACCAGGCTCCTCTGTCCATGGGATTCTCCATGCAAGAAACTGGAGTGGGTTGCCATGCCCTCCTCCAGGGGATCTTCCCAACCCAGGGATGGAACCCAGGTCTCCCGTACTGCAGGCAGACTCTCCACCATTAGCAGGGAAGCCTGGTGATAAAACTGCAGCACAGAGAGGCTGAGTAACTTGCCCAAGGTCACACAGCAACTAAGCAGCACAGCTGGGGTCCTTCCTCCTTTTCTTCCTACCAAGAATCACGGGGTCTCCCTCCTGGAGGGGAGCTCTGTCCTCCCTGAGATGAAAGGAAGCAGGCACAGGGGCACCGAGAGATGGCGAGAAGCCAGTGTGACAGAGGGCCCGCAGAAGCGAGGTCAGCCTTGGCCTGTGTTCTCTCCCGTGTCATTGTTTCATCCAGCGGCAGACTCGGAGCTTGGTACAGGGGGCTCAGAACGTGAGGGCTCTGGCCTCTGAGAAGCCCAGGGCTCACTGAGGGACAGAGATGTGAGCCTGTCTGACATGTCACTCGGGAGGTTCCCCAAGACCACCCTCAGGTTCCACAGTTTTCTAGAAAGACTCACAATGGTCAGAGAAGCTCTCAGACTCAGGAGCAGGGTTTCCCGCAGCAGAAGGGCCCAGATTCACATCGCGAGGAAGGAGGCAGCTGGGGCAGGGTCGGGAGAGACCCTTGTGAACCCTCGTCTCCAAGGGGAGGGGTGCAGACAGCACTTAATCTGCTACCCCACCCCCACGCACGTGACACTTTCCTAGCCAGCGGCAGAGCGTTTTCAGGAGCTGGGTCCCCCGTGGGACTGGCGCTTGCAAGCCATGCTGTTAGCAGAGATGACCTGGCTGGTCCCAGGTCCCCAGGCAAGCAACACGCTCCAACCAGGCAGGACGCTGCCAGGGCTGGGAGGGTCCCCCTGCCTCCAGCAGCCGGGGGCGAAGGGCCAGACCCCTCTGTGAGCCAGACTGACCCTCGTTCTGCACCACTCACCCTCAGCATCACCCACAGCGTCCGCCACCTTCCCTGTGCTGCCCAGAAAGATGTTGGGTGAGCCGTGGAGGCTGGGAGCCCAAAGCTGGGGCGCGTTCCCTCTTTCCCTCTCCTCCCTAAGGCCCTGGGAGCCACAGCAGGGTTCTGAGCTGGGGGGTGGCCTGGTGCCACCCTGGTGGGGCAGTGACCAGTCAGTGGGTACAGGGGGAAGGGCACCGGCTGGGCAAACAGGACAGGTCAGAGTGAGGGGGCGAAGCGGGGCAGGCAGCTCAGGACCGCAAATGCTGAGGCAGGATGGGGCCGGGGTGGCCACCGAGTGCCCTGGGCCTGGCACAGGGCCTGGCTCATAGGAGATGCTCAGATGCCACCTGCGATGAGGCCGAGTGCTTGGGAACTCGGTGGCTGTCTGCAGTGGGAGACAGGAGAAGGTGGAGCCTGGCTGGGGACCTCACGATGTCTGCCATCTTCCCTGCCACCCCCCCACCCCCGTCTCCAG
Seq C2 exon
GAACCCCCGGCCTGGACTCCATCTCAGACCCCTTCAGTTGGAGCTGGATCCCCGGCCTGGGCAGAGACCCGGACGCCTGGCTCCCGGGGGAGCTGGCCACCAAGCCATCTGCGAGGCAGACCCCCAGCATCCCTGAGAAAACCACCAAGGCCCCAGGGAAGATGCCCAAAAGCACCAAGAAGTGGGTGACCAAGAACGCAAAGAGACCAACCACTCAGCCCCCGGCGATGCCAACCACTAAGCACTCCAGGGTCTCAGGAACCCAGAGTCCCCCTGAACTGACCTCACGGACCACCAGCACCCTGGCCACGGGGGCCTCCCGAAGACCCACCTCTGAGTTTACCACCAGGCTGACCACGCAGGCCCCCCGCAGGCTGACCTCACACACCACCGTAACTCGGACTTCTCGAGCCCCCAGGGAACGGACCTCTAAGACTGTGGCGACGCTCGCCACCCAGGGCCCCCGATTAGTGACCTCCGAGGCCACCGTGGAGCCATCCGCTGAGCTCCCAGGACAAGGTTCTCCAGAGTCATCCACGGACCCGGCCCCCTCCCCCACCGGCGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030885:ENSBTAT00000043694:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.252 A=NA C2=0.890
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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]
SPECIAL DATASETS
- Pre-implantation embryo development