GgaINT0124768 @ galGal4
Intron Retention
Gene
ENSGALG00000008596 | FAM166A
Description
family with sequence similarity 166, member A [Source:HGNC Symbol;Acc:HGNC:33818]
Coordinates
chr17:1864289-1865941:+
Coord C1 exon
chr17:1864289-1864344
Coord A exon
chr17:1864345-1865747
Coord C2 exon
chr17:1865748-1865941
Length
1403 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TGTCTCTGTTCCCTTTCCAGCTA
3' ss Score
11.93
Exon sequences
Seq C1 exon
ATGGCAGCCCCCGGGCAGAGCCCACTCTTCCCTCCCCACCCGCACCACATCCCTGG
Seq A exon
GTAAGTGCTGGGCTTCACCCACAAAGTCGGTTCATTTCCAACGCAAATAGCTCAGGTTGGGATAAAACAGTGAATTCTGTGATTTCTGATTGTTGTTCTTTTTAAAGGCACTCTTAAACGTGCCACATAACGAAGGGATGTGGCTCGGGGGGGGGACACGGATTGGGGGGACAGGCAGTGCCTTGCAGCAGGCTGTAATTAAAGGCAGTGCTGTAGGGCGTTGAGGGGAACTTCAGAACTGCTTTCGTCACTTCAAAACAAGGAGAGGAAATTTCTGGCGCTGCTCTCCGGGATTTGGGCTCAGAACTGAAATAATTCTTGCATCGAGGGTATCTGAAAATCTCCTTTGAGTGAATGTTTGTGTGAATGCAACGCATCGCCAGGGAGCTGCTGGGTCTGTGCTGGTGGCTGAGGGTGGGGGGATCTCAGTGGTACACAGCTGAGCCTTCTGAAGGGCTTTTGCAGTGCTCTCTGATGGCATGGAAGCTGCTGCAGCGGTGGCGATGACTCAAAGATGCTTGAAGGCATTGGGAAGTCAAACCCAACAATAGGAATTCAGGGGAGGGCTCCGTGCATGGAGAAGTGCTCCCATCCTGGGCATTGGCTCTGCCCGTCCTGTCCTGTCCTGTCCCATCCCTGCAGCCCTGGACTGGGGCCAGCGCTGCTCCATGACCAGGGATGGAGGCGGCTGCTCAGGGATGGGTTTTTAGAACAATGGCTGCAATGGTGACCTGCAGAACCGAGCGATTGCTCTGGTTTCTTAAGGAGAATGCCAGCCGCACAAAGCAGCTCAGCCTGCAGAGTGCTGATCCCTCCCCAGAGCACCGCGGCTCACATCAGCCGTGCTGTGATTCACTTTGTGGCAGATCTGTTCTCTGTAAGCCCAGACCTGAGCTCCTCAGATTGCCTTGCTTTTAATTGCTCATAAACAGAATCCTTTCTCAGCCCTGCCATTACTTTGTTCACGATCAGAGCTCCAATGCCCGGCCTGTAATTATTCGGGCTACGTCATCTGCTCAGATTTATCATCCTGCACTGCTTCCTGGTGTTGCAAGAAGTATTGGAAGCCAATGGGAAGAGGCCACCGAGCTCCTCCAGCTCCAGTGAAGGTCCTGCAGGCACTGCAGGAGAGCTGCCAGGTGTAACGCATGGCTCTGCTGTTGAAAGCAGTTGGGATGGAAGGTGCTCACTCATCGCCTTCTGATCCTTGTGCATCATCTGCCTTTATCCCCAGATAGGCATACAGTGGGATTGTTGATGGGGTGGTTGTGTCTCTGTGCTATCACAGGTCCTTCTCCAGTTCTTGGGTTTCAGGGACACCGGGAGATCCCCGGGCTCAACTTCCCCTCACTCTGCCCCATGCACAGCTCCACACGGGCTCCATGTCTCTGTTCCCTTTCCAG
Seq C2 exon
CTATGAGGGCTTCCTCCCTCAGTACAACTACCAGTTTGGAGAGACCTATGGCAAAACCACGTACCGCCTGCTGACGGACCCACACATCCGGAGGAGCCCTCGCTCTGTGCTGGCACCGCTGTGCAAGCCGAGGTTCATTGAGGACTTCAGCGGGACACAGCACGGCCTGCAGCCCTTCCTCCCTGCACACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008596:ENSGALT00000013998:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.684 A=NA C2=0.258
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PU(9.5=31.6)
A:
NA
C2:
PF106294=DUF2475=PD(88.9=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACTCTTCCCTCCCCAC
R:
CTGGGTGTGCAGGGAGGAAG
Band lengths:
230-1633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]