GgaINT0038630 @ galGal3
Intron Retention
Gene
ENSGALG00000003406 | F1NSP3_CHICK
Description
NA
Coordinates
chr8:5353667-5355362:+
Coord C1 exon
chr8:5353667-5353846
Coord A exon
chr8:5353847-5355201
Coord C2 exon
chr8:5355202-5355362
Length
1355 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
GCTGCTTTTTTGTCCCTTAGCCG
3' ss Score
6.52
Exon sequences
Seq C1 exon
GGAAGCACTATGGGGTGTACAGCTGCGAGGGCTGCAAGGGCTTCTTTAAGAGGACCATCCGGAAAGACCTGATCTACACCTGCCGTGACAACAAGGACTGCCTCATCGACAAGCGCCAGCGCAACCGCTGCCAGTACTGCCGCTATCAGAAGTGCCTCGCCATGGGGATGAAGAGGGAAG
Seq A exon
GTACACGCTTGGCTCGGAGACTTCTTCTTTAGCCCATTCCCCATAGCGCGGTCAGTGCCGCGCTGCCCCAAGCACCGAGGGAAGAGGGGGGTTGTATAAGACCAGGCTTGATTCAAAAACCCAATCTCAGGCTCAGCTCTCCCTTCCTGCCGGGTGCAAAGTGGTTTGGAGGACCGCGGAGTCGATGCGACTTTCCTTCATAGAGCGTGAAAATGCAAACCCCAGGCTGCTGGGGGGCAGTGTGAGGACAAACCTGTGCTGGGAGCGTGTAACATCCTCCCCCCAGCAGCAGTTACCTAACTGAGAATATGAGGATGGAGCTCCCAGGCAGCCTTAGGGCTTGTTGGAGCCTTGCGGAGCGGGTCCCTTCCTCAGCATCCTCTGTCCTCCTCCCATGGGACTTTTATCCCCTTGTTTTCAGGGAGATGACTTCCCCACTCCAACCGCTGAGCACTCAAAGGGGGGGGAAAGGGGCCGGCTTTGCACCCGGCTTCTCCTCAGTGAACCTTTATCACTCCATGTGTATAAATGCCCACAGCTCATTACCCGTGACCAGCCCAGCCCCCAACCTTTCCTTCAGGGCTTACGCTGCATTTTGGTACCCTGGATGGTGCTGTGTGGTCATAGTGGGGCAGTGATGCTGGCTAGCGGGGCTGCTCTGCTCTTTTGGGACTCTTCTCCCTAACAATGAGCTAAACTGATGTGACACCTGCTGGTCACTTGCCTTTCTTTTCTCCTGAAGCAGGATTTCCTTATGGGATTGCCGATACAAAGTTGTGCGCCCAGGACCTGCTATGGGCATAAGACTTGGCAGGCTGTGTGTTCATGTCCTACATTGACCTGTCCTCCACACACCCAGCAGCCCTGGGGGTGAATAACTGATATTTCACCCATCAGCAGATATCTTGGGAAATGGTAGAAGAGTGGGAGAGCTCCAAGCTTGCAGCAGGAGGAGCTCCTTGCGTCGATCCGTGCCCTTATAGATGCGGAGGCCCCAGCTTGGCTCAGGAATTGGGCATGCAGCAAACCTTAGTGGCTGGGAGATGAGGTCCCTCCAGCAGCTGGTGACCACCGAGCCCAGGCTGCCACCTGGAGGCGTTGCCTTCTCCTTCCCCTCTGCTGGAGTTTGGAGGTCAGCACTTTTCCTCGAGTTTGGAGACCACCAATCTGCAGCAACCCCGAAGTTATTGGGGGGGTGATGAGGACGGAGTGGTGATGGCGCTTTGGTTGGACCTGCAGCAGAAGTATCTGTTGATTTTTCTCCCTACCGAGAGAGAGTTCCTCAACCAAGAGGAAAGGAGATGCTCGGCAATGAGTGCTGCCTGGGTGTAAAGAGCTGCTTTTTTGTCCCTTAG
Seq C2 exon
CCGTGCAGGAGGAGAGGCAGCGGAGCAGGGAGCGCAGTGAGAACGAAGCTGAGTCCACGAGCGGCGGCAGCGAGGACATGCCTGTGGAGAGGATCCTGGAAGCCGAGCTGGCAGTCGAACCCAAGACGGAGGCATACAGCGACGTGAACACGGAGAGCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003406:ENSGALT00000005387:4
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=0.611
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(82.9=95.1)
A:
NA
C2:
PF0010425=Hormone_recep=PU(6.2=22.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACTATGGGGTGTACAGCT
R:
GAGCTCTCCGTGTTCACGTC
Band lengths:
337-1692
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]