BtaINT0084745 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017395 | LASS5
Description
Bos taurus ceramide synthase 5 (CERS5), mRNA. [Source:RefSeq mRNA;Acc:NM_001102132]
Coordinates
chr5:29932014-29933124:+
Coord C1 exon
chr5:29932014-29932170
Coord A exon
chr5:29932171-29933015
Coord C2 exon
chr5:29933016-29933124
Length
845 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TGCTTTTCTTCCCTGACCAGGTG
3' ss Score
10.86
Exon sequences
Seq C1 exon
GATCCTGAACACGACCCTCTTTGAGAGTTGGGAGATAATCGGGCCCTATCGCTCCTGGTGGCTTTTCAATGGCCTTCTCCTGGTCCTACAGGTTCTGCATGTCATCTGGTCCTACCTAATTGCACGAATTGCTTTCAAAGCCTTGATCCGAGGAAAG
Seq A exon
GTAAGGGTGAAAGATGGCTTCTTTCTTTGGGGTATTACCAAGCAAAAAGCCTAGAGCTCTAAGGTTTTCATCTTTTCTTTAAGTATGAATGTTTAGCCATCTAAGACATGACTTAGATGTCAGAAGCAGGATCTGCCTTCTTCCTGTCCCATAGGAATGACTTTTGTTAAATAATAAACAGGATTAGGTTTTGGAGACCATTTCAACCTACCCCTTACCTACCTACATCATGGATTTCATATTTTTATTTTTAGCATGGAAGCCTTTTTTCAAAGGAAATCATATGCAGAGCTCCAAGATGTAAGGAAATCATATGCAGAGTTCCAAGATATAAACTGTATAGAAGGCAAGATGTTAGATTGCCTAGAAGTGGTATGGTAATTCACAAGCCACCCCAAGATGGCCACACTGTGGTGTTCAAGATACAGTTTATGTAAGGAATTAAGTACCAGCCTCACTTACTGTTGCATGAGGCAGGGTCTTAAGTGAGATAGGTTTTTAGGGCTTCAAATACCCACTTTACTTCAAGAGCCCAAAAGCACAAAGAAAGACATCATTCTGTGATAAAACTCATAACTGAATTTTGCAAATTCTGAAGCAGTCAGTCAAACTGTGATTAGCCTGAGGGATTCAGCCTTCAGTAACATACAATCCCAAGGGGAGGGGCTCTGGTAGTGGATACAGACTCTAGGACAAAGGGATGGAATGTTTCCCAGGAATATATGATCTCTTGTGACACTGTTCCTTATGGCTTTAATTGGTTTCAGAACTTGCTTAGTGTGCCTGTGCATCTTGGTGTAGCTATTGGACATCTCTCTTTTCCCTTGCTTTTCTTCCCTGACCAG
Seq C2 exon
GTGACCTATCCAGGAAGGATTAGACCCAGACTCTGTACTCTCCACTCTTTTCTCACCTCCTTCCTTTTTTCTATGCCTGGTGGGAGCTGGACAGTTTCATCTCTTGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017395:ENSBTAT00000029121:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGAACACGACCCTCTTTG
R:
GCAAGAGATGAAACTGTCCAGCT
Band lengths:
262-1107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]