BtaINT0141314 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003020 | SSC4D
Description
scavenger receptor cysteine rich family, 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr25:34933197-34936312:-
Coord C1 exon
chr25:34935998-34936312
Coord A exon
chr25:34933275-34935997
Coord C2 exon
chr25:34933197-34933274
Length
2723 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
TCCCTTCTCTCCTACTCTAGTCC
3' ss Score
9.55
Exon sequences
Seq C1 exon
GTGAGGGCAGCGTGCGCCTGGTGGGGGGCGCAGGCCCGTGCCAGGGCCGAGTGGAGATCCTGCACGGTGGCCTGTGGGGCACCGTGTGTGACGACGACTGGGGGCTGCCGGACGCAGCCGTGGTGTGCCGCCAGCTGGGCTGCGGGGCGGCCCTGGCAGCCACTACCAACGCCTTCTTCGGCTACGGCACGGGGCACATCTTGCTGGACAACGTGCACTGTGAAGGCGGCGAGCCCCGTCTAGCAGCCTGCCTGAGTCTGGGCTGGGGCGTGCACAACTGCGGGCACCACGAGGACGCCGGCGCGCTCTGCGCAG
Seq A exon
GTGCGGGGTTGGAGGCGGGGCCGGCGGGGCGGCGCGGGGCGGTGCGCGGGGCGGGGCCGTATTCTGAAGCAGGAGACCGGAAGAGGGACCTCGGAGGGGATCGGGATGTTGAGTGGCTTGATGTTTCCCTGAGCTCTTTCGAAAAGGCCCCCAAATTAGTTTTTGTTTCTCAGTACGACTCTAGAAGTGCCTCATAAAATTCTAGTAGACTCCACGACTATGTAATACTGCAGTATTACCCCACCAATTGAGATTCCCTGGTGGCTCAGACGGTAAAGCGTCTTCCCGCCATGCGCGAGACCCGGGCTTGATCCCTGGGTTGGGAAGATCCACTGGAGAAGGAAATGGAAACCCACTCCAGTTGCCTAGAAAATTCCATGGATGGAGGAGCCTGGTGGGCTGCAGTCCATGGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTCTAGCACTCAGTTCAGTTCAGTCACTCAGTCGTGTCCGACTCTTTGCGACCCCGTGGACTGCAGCACGCCAGGCTTCCCTGTCCTTCACCAACTCCCGGAGTTTACTCAAACTCATGTCCATCGAGTCAGTGATGCCATCCAGCCATCTCATCCTGTCATCCCCTTCTCCCGCCTTCAAGTTTTCCTAGCATCAGGGCCTTTTCAAATGAGTCGGCTCTTTGCATCAGTTAAGTAAGCACAGTGACAATATACAGCCTTCCTATTTTCCTATTTGGAACCAGTCTGTTGTTCCACGTCCATTTCTAACTGTTGCTTCCTGACATGCATACAGATTTCTCAAGAGGCAGGTCAGGTGGTCTGCTATTCCCATCTCTTTAAGAATTTTCAGAATTTTCCAGTTTATTGTGATCCACACAGTCAAAGGCTTTGGCATAGTCAATAAAGCAGAAATAGATGTTTTTCTGGAACTCTCTTGCTTTTTCAATAATCCAGCGGATGTTGGCAATTTGATCTCTGGTTCCTCTGCCTTTTCTAAAACTAGCTTGAACATCTGGAAGTTCACGGTTCACAGACTGTTAAAGCCTGACTTGGAGAATTTTGAGCATTACTTTACTAGTGTGTGAGATGAGTACAATTGTGCGGTAGTTTGAGCATTCTTTGGCATTGCCTTTCTTTGGGATTGGAATGAAAACTGACCTTTTCCAGTCCTGTGGCCACTGCTGAGTTTCTGGCACTAAGTACTCTTTTTTTTTTTTTTTTTTTAATTGTTGGTATTTTCTTTTTAATTTTTATTTTATATTGGAATGTAGTCTATTTACAATGTTGTAATTCTTTTCAGTGTACAGCACGCTGATTTAGTTATACATATGTGTGTGCATGCTCAGTCATGTCTGACTCTTTGAACCCTTAAACTATACTTATACATATATACATGTATATACATGGATTTTTCTTGATTCTTTTCCCATATGTTATTATTACAGTATGTTGAGTGCTATACGGTAGGTTCTTGTTGATTACACTTGTTGATTACTAAGCACTCTTTGTGAAATACTTCGGAGTAAAGTAATAGTACTTTAAGATAGCTCCAGAGATACTCCAGAATTCTTTCACTGAAACTCAGGTATGTCCCCTGAATTCCCTCTCTCTTCAATCCTGATTCTCTTATGATAGTATTTCCCCTCACCTGGTCCTTCTTCCGCAGTGAAAGGTTTTCTGAACAAATAGAAATAATAGGGCTGTTAATGGCACTTTACAGATGGACTCCACTCTGCCAGATATTAAGTGCTTGCCCATGCCTCACGGCAAACCAGGAGCCATCAATCCCGATTTACAGATGGGAAAGCTGAGGCCCAATGAGGCACAGTGAGCCCTGGCAAAGCCTCAGCTAACCTTTCTGCATAATCTTGAGCATGCCCCTTGCCCCTTCTAATCTTATTTATCTGTAAGACGGGGATAGTGAGTTTTGTTCTGCAAGCCCCTCAGGACTGTGCATGGCCCTCCCTGGTGGGCAAGACCTTCTTTATCTCCCCAACTTGAACATACGTTGGGCTTCTGAGAACCCTGGAAAGAAATGAAAACATGCTTGTGAAAGTGTTGTATAAACTATAGTGTACGCCTAGGCAGCACAAATAAATGACCAGAATTGGCAAAGCGGGGCAGACTTCCTTGGACCCCAGCTGAGGCTGAGTCTCCAGCTCTGGAAGTAAAATCTGTTTGTCTTCTCCAGGGAAACCCTCTCATTCTCTCCAGGAACCAGAACCTTGGCCTCTGACCCCACTCCCTTCTCTCCTACTCTAG
Seq C2 exon
TCCTGGGCCACTCGACTCTCACAGCACTGCCACCGTCAGCCACAAGAGTGGACTGGGCCTGGCACACAGAGCCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003020:ENSBTAT00000003928:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.111
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
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]