GgaINT1012806 @ galGal4
Intron Retention
Gene
ENSGALG00000008596 | FAM166A
Description
family with sequence similarity 166, member A [Source:HGNC Symbol;Acc:HGNC:33818]
Coordinates
chr17:1868839-1870588:+
Coord C1 exon
chr17:1868839-1868933
Coord A exon
chr17:1868934-1870470
Coord C2 exon
chr17:1870471-1870588
Length
1537 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TGCTATTGATCCTTTTCCAGTTG
3' ss Score
7.89
Exon sequences
Seq C1 exon
GGTACACTGGATTCATACCGCGCTTCAGGTGGGCCATGGGCACTAATTACCTGCAGGGCGTGAAGGAAGCCATGGCTGAATTTGACAGGCAGCAG
Seq A exon
GTAGGGCGCACACAGGGCTGGCTGCAGCCACGTAACCTCTCAGCTGCACCCCCAGCAGCGGTTTTGTTTGCAGCAGAATTGGGGGTATCAGTGCAAGCCAAAAAAACCAGCACTGGGTTAACGTGCTGCAAAAAATGAGCAATTAAATCCTGTAACTTCATTTCCTTGGGACACCGAGGGAGGGTAAATGAGTTCATAAAAGGATTAAGGTTCACGGGAGGCTGTTAAAAACGTAGCTGTGGGTGCAGGACGCCCTTATGCAATGCATCCTTTGCACTGCGGTGGTGGTGGTGGTTTGTTCCTTTACTACCATTGCTCGTCTCTAAAAGGTGGACAACGGATTGAGGAGAAATATCCATGCTGTAAAGCTCCCGTTCCATCTTCTCGCTGTAGCACTCCTCTGTATCACACCATATAATCCTCCTACGTGAGAAACGAGCTCCCTCCCACCGTGCTTAACAGATTCCTCTGTGCTGCTGCACTGGATGTGGCCACAGCCCACTGTGCTGCTCGCCAGCTCTGCCTCTTGCTCATGAGGAAACCCCTGTTTGGGGGACGGATGCTGCTCCCCATTGCAGGACCAGCAGCACAAAGGCCTGCTGAGGTTACTGCTGGTGCTGGAAGGAGGAGCTGAAGGGATGAGGAGAAAAAAAAAAAAAAAAAGAAATCACACCAAATTTCTGTCTAAGATGGCTTCAGCCTTCGAGCCTCTAATCTGCTGCCCTGGATCTCGGTTGCCCTAGGTTACGTGCTGAGATGCGCCGCGGATCATTTCTTGCTGGCTGCATCGGGCAGAACAGTGCAATCCTCTCGCTTCAGTGCAGCTTTGGGAGGGCAGCAGGAGGCTGCAGCACTGCGTGGGGCTCCGTGGGCCCCTTCCCCCCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCCCCCCCCGCCCAGGGCCGCGTAGCATCAGTGGGACCCCTGGGGGGGGGGGTTCTGCCACACAGCTCCCGCTCTGTGTGACCTCACAGCAGGTGACAGAGGCCGATTTACACTCTCCCTTCAGCTCACGCATCCTAAGCCTTCCTCTTCCTCCCAGGCTGGGAATTAGGTGTTAATCACCACCAAGGAAAAGCGGAGCCTGGGACGGGGGTGACAGCAAACAGACGTGCAGAGTCACGGCTCGAGGTGCCCACTGCAGCAGTGGGTCTCAGTACATCACCGTACATCACCGTTCTGAGCACAACACGGCCGGGCTTTGGGGCCGGCGCCAAATGCAGAGCTGCAGTGTGAAGTCTGCGGGGCCGCTGCCAGATCCCATAAAGGCAGAACTTCGGGGTGGGGAGGGGTGGCTGAATCTCCCAGGGAAGTGTAGCTTAGAAATAGTAGAAAATGGAACTGTGAGTTTGAGTGCTGCCTTTAATAAGGACTCGAAGGGCACAGCTTTGTAGCAGCGTGTTTACAACCAACGGTGCTATTGATCCTTTTCCAG
Seq C2 exon
TTGCTGGAGAGGAACCCAATTTACAGCTTTGGCAAGAGATTTCCCCAGACTTACTGGCCTAGCAGCAGCATCTACACCAGCGCTGGACTGATCCCAGCCTATACAGGCTTCGTCCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008596:ENSGALT00000013998:5
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:
PF106294=DUF2475=FE(51.7=100)
A:
NA
C2:
PF106294=DUF2475=PD(35.0=52.5),PF106294=DUF2475=PU(31.7=32.5)
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:
CACTGGATTCATACCGCGCTT
R:
GTGGGACGAAGCCTGTATAG
Band lengths:
209-1746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]