DreINT0126261 @ danRer10
Intron Retention
Gene
ENSDARG00000070831 | rftn1a
Description
raftlin, lipid raft linker 1a [Source:ZFIN;Acc:ZDB-GENE-060503-293]
Coordinates
chr19:20717050-20717984:-
Coord C1 exon
chr19:20717909-20717984
Coord A exon
chr19:20717728-20717908
Coord C2 exon
chr19:20717050-20717727
Length
181 bp
Sequences
Splice sites
5' ss Seq
ACAGTGCGT
5' ss Score
5.66
3' ss Seq
TGTGTGTTTTTTTTTTCCAGAAA
3' ss Score
11.15
Exon sequences
Seq C1 exon
TGATGGAAGTTTGGCCACAAAGCAGATCCTGTTTCTCCAGAGACCCACACTGCCTCGCAAGAGAAGAGACTTGACA
Seq A exon
GTGCGTATACATGACACAAAGTTTATTTCTGACACACAAAAAAAGAAAAGATCTTGCTAAAATTAGATTAGAGCCATCTAAGAGAACTTGTGAAATTGTAATAGCATTGTCAGTTCTCTTTAAAATCCTCAAAAGCAGCTCAGCGACTGACAGTTTGTGTGTGTGTGTTTTTTTTTTCCAG
Seq C2 exon
AAACTGCATCTCAGAGGTCAAAACAAAAGAAACATGAACGGTAAAGGGACACAAGAGAGGGAAACGACACCGCTAGCGACGATTGAGAGAGAAATGGAAAGAATGGAAAGAGAAAACACAAGTCTGATGAGAAAACGTGAGATAATTCGAAAGGAAAACGGCCAGAATTTGCCAGAAAGCCCTGAGAAGAGAGATCAAGCAGAAAGAACAGTGGAATCTCACACGCAGAGGATCAGCATCGCAAAATTCAGCCCGGTAAAAAAGGACGTTACAAATGGCAATAAAGAATTAAATCACACAATTACATGTGGTAAACTTCAGGATGTGCGAGCGCTGGTAACAGAGAGAGCTTTATTCTCTGGGGTCTGCTGACAATATTTATGTATGCATATTTAACCATTACAATATGTTTATGTTTATTCAGGCAGAACACACTCTCTGCAGATCTGTGTCTGGGCATATACATATACATCTGACGGAGTGATTGTCCTGGTAAGAGCTGTTTGAATCTCACTACTCTTAATTATTTGGGTTTTTAAAAGAATAGTTCACCCAAAAGTTAATACTTACTGTACTCACAATGATTTTCTGTCGGTTAGAAAAATACTGTGAAAGTCAATAGCCATTTTTTTTCCATTAGGCCTACACTACCTAACAAAAGTCTTGTCATAGATCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070831:ENSDART00000132272:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.861
Domain overlap (PFAM):
C1:
PF152501=Raftlin=FE(8.5=100)
A:
NA
C2:
PF152501=Raftlin=PD(14.1=33.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGTTTGGCCACAAAGCA
R:
GGCAAATTCTGGCCGTTTTCC
Band lengths:
246-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]