GgaINT1028530 @ galGal4
Intron Retention
Gene
ENSGALG00000028301 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr18:4604516-4606554:+
Coord C1 exon
chr18:4604516-4604953
Coord A exon
chr18:4604954-4606458
Coord C2 exon
chr18:4606459-4606554
Length
1505 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGC
5' ss Score
7.52
3' ss Seq
CTCGTCCTTTGTGCCTGCAGGCC
3' ss Score
10.97
Exon sequences
Seq C1 exon
TCCGGGCCTGGATCCCCCCCCGGTAGCGCCGGGTTCAGCGGAACGGGACCCAGCGGAGCCGAGTCCTCCCCCTCCGAGATGGCGCCGGGAGCTGAAGAGGAGCCGGGGGGAGAAGCGGAGCTGGAGGAGGGGACTGCGGCGGTGCTGTGCGACGTGTGCCCCGAGGGCGATCGGGCGGCGGCTGCCCGCTCGTGCCTGGTGTGCCTGGCGTCCTTCTGCGGGGCCCACCTGGAGCCCCACCGCCGCTCCCCCGCGTTCCGCTCGCACCGCCTCGTAGCCCCGTTGCGGCGCTTGGAAGAAGGGCTGTGCCCGCGGCACCTGCAGCCCCTCGACGGCTTCTGCCGGGCCGAGCAGACCTGCGTGTGCGTCCGCTGCCGCGCCAACGAGCACCGCGGCCACGACGTGGTGTCCCTCGAGAAGGAGCGCGAGCTGAAGGAG
Seq A exon
GTGCGCGGGGGGGGCAAAGGGTGGGCGGCAGAGGGGGCCCGGGGGTGTAATTGGGGTTCTGCGTGGGAACCCTGACTCTGTGGAGGAGCTCAGCCCGGCACAGGGGTGGCACGGTGCCCCGTGTGTGTGGTGGGGAAGGGGAATAGGGAGGATGGAACGACCTTGCAGTCCCTATGGGTTTGGGGCTGGGGGTGAGGGCACCTGGGACCCCCCCACAGCCGGGTGCTGCACCGTGGTGTCTGCATGTCAGGGAATAAAGCAGAACGCTGTGTTATTGGGGTGAGGGCTGCATGCATCTCCCCGTGTGGGGTCTCACCCTGGCACACGGATGGATGGGATGCCCTGGATGGGGTGGATGCTGCACCCCGTCCTCATGTGGGACCTCACCCCAGCAAGGTGGGCTGCTTGCACGGGGTGCTGCAGCAGTGGGACACCCCATCCCATTGCTGGGGCGCTACGCTCAGTCCCGCCCTCTCCATGGGTTTAGGGGTGCAGCCACCAAGGGGTCCCCACCCCCCGGGCACCCCCGCATGGTGCCTGCCTTCCCCGTCTGGTTCCCACAGCTCCATCAAGGCGGTTTTTCTCCTCGCCCTGGCTCGCTGCCCGCCCGCCTCTCCCGCTCCATGAGCCCTTTGTGTTGCTCCTTTTGGCAGCGGGGATTTTTTCCGTCACTCCCATTCCCAGATGTGGCTGAGTCACCTCCCAAGTTTGCACCCACGAACCTCCCTGCGGTTCTGAGTGCGGGGAGATGGAGCTGCCAGGCTGGAGGTGTGGAGGCATCCCTGTCTCAGTGTGGGGCCATCGGGGGACCTCAGCATGGTCCCTTTCCCAGGGGGCCATGCAGACACCCAGCAGCAGCCCCGGGTTGGCTGCTCCTCCTTCATGGCCTCTTGGGGCCGTGGGGAAACCCTTCTATTAGTCATAAGACCGTTGAAATAGAAAGCTATCTCTCCTCAACAGGCATTGCTCAGTGTCGCTGCTGTCTGCGGGGTGGGAAGGAGGGACTGGGAAAGCTCCTCTCCCACCTCCCCAGGCTGAGCGCTGGGGGAAATCGGCCCAGTAACACATGTGGTGCTCCCAAAAGGCTCCCAAGGGGCCTGTCCCCATGGTGGGCAGCAGGCTGGGGCTAACAATAGCCATCAGGAAGCGCTGTGCTGGGACGGTGCTTCCTTTGCAGCCCAGCAGCACCTCGTGCTCCTGAGCTGATTCGCTTTGCTCTTACAAGAAATGTCCCAGGAATGCGGTGCTGAGTTCCTGCCCTGGTCCCAGTTTGCTTTTTCCAGCCTTGAGCACTTTGCTGGGCGTGCAGAAGAAGGGATGTTTGCGGGTTGGGTGGGTTTAGAGGGTTGCACAAGGAGGAAACAGGGAAAGTGACTTGTGATTCCTACGTACCCAATAACAAAACCATGGCTGGGGGGAGGAGGGGGCTGCAGCTGGGCTGGGTTTATCATTGTGCTCTGCTCCCTATGGATGTGGAGCTCAGTGCTCGTCCTTTGTGCCTGCAG
Seq C2 exon
GCCCAGCGAGCCAAATTCCTCAGCAGTGTGGACAACGAGCTGGAGGAGCTGGCTGTGACCATCGCACAGACCAGGAAGATGGTGGAGCTCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028301:ENSGALT00000045376:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.322 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064319=zf-B_box=WD(100=28.1),PF058526=DUF848=PU(7.2=5.5)
A:
NA
C2:
PF058526=DUF848=FE(27.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTGGAGGAGGGGACTG
R:
ACTGCTGAGGAATTTGGCTCG
Band lengths:
348-1853
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]