GgaINT1012807 @ galGal4
Intron Retention
Gene
ENSGALG00000008596 | FAM166A
Description
family with sequence similarity 166, member A [Source:HGNC Symbol;Acc:HGNC:33818]
Coordinates
chr17:1870471-1871959:+
Coord C1 exon
chr17:1870471-1870588
Coord A exon
chr17:1870589-1871762
Coord C2 exon
chr17:1871763-1871959
Length
1174 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
CCCGGCTTTCTCTTTTCCAGACC
3' ss Score
11.44
Exon sequences
Seq C1 exon
TTGCTGGAGAGGAACCCAATTTACAGCTTTGGCAAGAGATTTCCCCAGACTTACTGGCCTAGCAGCAGCATCTACACCAGCGCTGGACTGATCCCAGCCTATACAGGCTTCGTCCCAC
Seq A exon
GTAAGTTCATCAGCTGAGCAAAAATGAAAGTCACCAGCACTGATTAATGACCGTCATTACGTAGTGCTGCTGGTAGCTGCAGTGTCAGAGCAGAGGCAGCTTCTGAAGCGTTGAGGGGGGGGAAGGAAATGCATTCCGGGTTGCTCAGTGCTGGGGAGCTGGGCTAGCTGACCTTTCAAGGTCCCTTCCAGCCCTATGGGTTCTGTGGTTCTGCTCAGCCGTGTGCTTCACCCTCTGCCAAAAGCCCCCAGCACTCAGCACAGCTCCCCAGGGGAGGTCTGGCAGGGGAACGTGTGAGCTTCAGGGTAAAGAAAAGGAGAAAAACAGAGCAGAAACCAGCAGCCTAAAAGCAGGGACAAAAATCACTGCTGGAGGTGTCGCCTCATGCTTTAAAAATCTCCTCCATCTTTTCACCTACGGAATTGGGCTGCTGGGTAGGTTTGAAATCGGCCACCTGCTTCTCTGTGCACATCTCACTGCTCAGGGCCATTTCAGCTACTGCTCTCAGGCTGGAAGGAAAAGCCTTAAGACAGAAAACCCTCAAACCAATTACAACCATTTCCTTATTGAGAAAGCAGCCCATCTACCTCCTGCCCAGCTATCCTGGGACAGAACGTAAGAAATCCACCATGCTCTTTGCTGCACTGCTGGAGCTTTCGTGCAACTCCTCTGCAGCCGCAGCACAGCTGCCACGAGCTGCAACGCCCCAGCCAGCTCTGCACTGCTGCATGGGTGCAGCCCGGGCGAGGGCAGCGTTCCTCCCTCCAGAACCACCCACCTGCATCTGAAAGGCAAATCGCTGGCACCATCCGACCGCCCTGGCAGACACTGAGCTGCAGCTTTCAGCCGCCCGCGCTTCCATTCTTTTCTGAGCTGCTCAGCTCTCCGAGGCTGAAGCCTGACCCAGCACCAGTAATAGGAGTCCGTGTTGCAGGTACCTAAATTTAGATGCGGCTTAGAGCTGAATTTCATCCTCCACGTTGAGGGTATTCCCCTCCATCAGTACGTCCAGTTATAAAGCGACTCCACCATTCATTCTTCAACTCCCCACCCAGTGGGACTGCTGCTGTATCCCACCACCACAACTGGTGCCCACCATCAGACGGTGAGGGGAAGCGTGGCGGCCGTGCCCAGGGCTGCTGCTCACGCCACATCCCGGCTTTCTCTTTTCCAG
Seq C2 exon
ACCTCCGCCACACCTACGCGCTTACATTTGGAAACAGCACCCGCAAGGCTTACCACATGGAACAAAGGAGACGAGCCTGTGCACTGTGAAAAATGCTTTAATGGTGCCTGTACAGCATTGGAAGTGACTTGAAGACAAGGAGAAGGAACACAACGCAGAGAGAAGTTTTGAATGAAAGTTCATACAGCTTTAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008596:ENSGALT00000013998:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PD(35.0=52.5),PF106294=DUF2475=PU(31.7=32.5)
A:
NA
C2:
PF106294=DUF2475=PD(65.9=90.0)
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:
TGCTGGAGAGGAACCCAATTT
R:
AGCTGTATGAACTTTCATTCAAAACT
Band lengths:
306-1480
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]