GgaINT1012978 @ galGal4
Intron Retention
Gene
ENSGALG00000004490 | FAM73B
Description
family with sequence similarity 73, member B [Source:HGNC Symbol;Acc:HGNC:23621]
Coordinates
chr17:5458246-5460135:+
Coord C1 exon
chr17:5458246-5458340
Coord A exon
chr17:5458341-5459894
Coord C2 exon
chr17:5459895-5460135
Length
1554 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
ACTTTTCCCTCTTCCTTCAGGGT
3' ss Score
12.81
Exon sequences
Seq C1 exon
TGCGGCGCGGGGGAAGGAGACGCTGCCCTTCCGCGGCCATGGCGCGCGGCGGGGGGAACGGGGCGCCGAGCGGGGCCGTGCGCCCGCGGGTTGCG
Seq A exon
GTGAGTGGTGTCGGCAGCGCACACCTATGGGGGCTGGGTGAGCCGTACCGCTGCGTCGTAGGGATCGGAGACGGGAACCTCACCGAGCAGCAGTGGTCCTAGTAGGCGGGGGGGATGCGCTGGGTGCAGGGAGCCTAGGGATGCCCGGGGTGCGGGCGGTTTAGGGGTCCCTGAGCTGCAGGAGGGCTCTGGGGCTCGTGGGGGCAAAGTGCCCGAGTGGTGCCCCAGGGATGCCAGGTCCAACCAGAGGGGTGCAAGGGGCATAGGGAGTGCTCGGGGGTATGTGTGTGCGGGGGCTATGGAGACTGGTTCAAGGATGCAAACAGCCCAGGGAGCTCTGCTTGCAGGGCCCCGGTTTGCTGCAGTGCTGCTGTGGGGTATCCCATAGGGAGCATCCAGCCTGGGATGCCCAGGGGAGCAGGGCAGTGCTCGAGGTGTAAATGTGTCTGTGTCCTGGTAGGGCCAGCATTGCTTCGTCCTGAAGGACAAGGACAGGCAAGGCTGTGCTGCAGTGCCCAGCCTGGAGGGTTTTCCTTGGCTTTGTGCTGTGTGTCCCCACTGCCAGTCAGGTGTAGTAACCTGCAGGCTAAACAGTGTCCCCCGCGTTCTTTGCACTTTGCTTATCTTTGTTCTGCTCTAACCAAAATGTTACGTTTAACCTTCTTCTGCAAGCTCCTGGCACTCTGGTCCCCTGAGACTGTTGCCAAACGTGGCTCCTTAACGGGGCTGTGCCAGCCCTGGAGGCTGCAAGGTGCAAGGTTGCTGTGGGCGATGTGGTCAGGTAGATGCAGGGTTATCACGTGGCTTTAAAACACGGGATGGGTTTCACTTGTCAGTGTGGGAAGGCACGTGGAAAGGCACCAGAGTGCAGCGTGGCCGGAGCGTGGCTGCACACGGGTGAGGGCAGTGTTTCCAAGTGCATTGCTGTGAAGGCCGGCCTGGCAAGGAGAGCAGGGCTAAAGCACTTATAACTCTGTGGTGGTTCAGAGATACTTCTCTTGTTTCAATATATATTGTTTTTGTAGCTCTGTCCTTGACATGAAGCAGGGCCCTGCTTCCTGGCTTCCAGCACAGCCAGGAAAGCTCTGCTAAACTCAGCTTACTTTGAAACCTCTTGGGAGAAACAGCCTCTGCTTCGTGGCTCTTTACAGTGACAGAATCAAGGGCGAGCAGAGTTTTGCTGATTAAGGTGCATATGTGGTTATTTGGAATAATTATGTGATTTATATATGTATCTTTTTTTACACGGGGACTGCCAAAGTTCTGTCCAACCACGTGCAACCCATTGTGGAGCATGTGGAAATCTCTGGCACAGCTTCAGCTTTTGAGTGCAAGGACATTGCTGCTGCTATAGAGCAGTTTGTGAACCTTACCCCATACTTGGTACGAGGAGCAACAGTTGCTGCTATGGATGAGGAGATGCTTTAAAGCTCAGGTTTGGCTCTAGCAGCACTGCTGCTCTGAGTGAGCTGGTGTGCTGTTTGTGAAGTGCAGCACAGGGAAGTACAGGCTGTGCATTCCCTTCTCTTACCTGACTTTTCCCTCTTCCTTCAG
Seq C2 exon
GGTTGCTGGATGAAGGCTGGCTCCAGGACACTGAGCTCGATGTCAGATGGAAGCTGGATTTCCTTGTGAGTGGCTCGTGCAGCATCCATCCAAAAGTGTCCTTCCCCTTCGTGACTCCTGGAGGTGCTGAGGTCATCCTTTAGCCATGGCATTTAGAAGGACCGAGGGAATGTCCATCATCCAGGCCTTGGCAATGACCGTGGCGGAGATCCCCGTGTTTGTGTACACAACGTTTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004490:ENSGALT00000007150:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF102654=DUF2217=PU(0.4=6.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGGGAAGGAGACGCTG
R:
TGCCCAAACGTTGTGTACACA
Band lengths:
328-1882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]