GgaINT0145588 @ galGal3
Intron Retention
Gene
ENSGALG00000000327 | Q804J3_CHICK
Description
NA
Coordinates
chr28:360250-361984:+
Coord C1 exon
chr28:360250-360375
Coord A exon
chr28:360376-361777
Coord C2 exon
chr28:361778-361984
Length
1402 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATT
5' ss Score
5.73
3' ss Seq
TTCCCACCCTCTCTATCCAGACA
3' ss Score
9.47
Exon sequences
Seq C1 exon
ATGAGAATGAGTGCCGCACCAAGCCTGGAATCTGCCCCAACGGCCGCTGCATCAACACGGTGGGAAGTTACCGCTGCGACTGCAATGAGGGTTTTGAAGTCAGTCCCTCTGGCACAGAGTGTATTG
Seq A exon
GTAATTACCGTGGTCTTGATCAGCCTCTGGTTAGTGGCACATGGTGCTTTTCAGGTGCTTCGGGGTTTTCTGAAGGGAATTTGCCCAAAGTAAGGTTTGAAAATGTTGAGCCACAGGTTCAGCGAGCTGTGGGGACAGAAGAAAAGTGCAGACAGGGTTGCTGCTAAGATATGCTTTGTGGACAGTTTGTCGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCAGACGGGTTGCTGCTAAATTTGCTTTGTGGACAGTTTGTCGTCTATACTTAATCATGTTCAGTTTTGCCCATTGCAGTAAGGTGCACCTCGAGTGCCTTGTAGGGCACTGAGCCTTGACTCAGGCACTGCTGTGCCAGGAGAGTTGGGAGGATAGAAGCAGCCTGGGAAGTGCCAAGGAGACCCCCAGGATCTGGCAGGTTCAGTGGCAAGGGATTGGGCCAGAACTGGGGCTCAGGACAGGAACAAAAAGGATTCACCTGTTGGATAGAAGTGTCCCATGGGAGCTACATATCCTCATGGAAAACTGGGACTTTATCCATCTCAGAAAGTGGGAGCTGTCATCTGTGGTTCAGGACACAGTTTCTCTGATGTATATTCAAGCAGCGCCAGGGAATATGGCGAAGCCTATGGAAATGGGAAGGCTAGAGCCAGGGACTAGGCTGGACACCCAGCACCCAAGCTTCAGGGAGATGCTTCTTGTGGAATCACCTCTGCCTTTTGTATTACCCAAACCACATTAGCCTCTGTGCTGGAACTTGCACAGTCTGGACAGGTTACTCAGTTCATTGCTGCTGGCACAGTCTCACATCCTGAACTTGTCTTCCCACCCTCTCTATCCAG
Seq C2 exon
ACACCCGCCAGGGCTTCTGCTTCACTGAAGTACTGCAAACCATGTGCCAGATGTCTTCCACCAACCGCAACCTGGTCACCAAATCTGAGTGCTGCTGCAACAGTGGGCGCAGTTGGGGACCTCAGTGTGAGCTCTGCCCCCTTCTTGGAACCGCCCAGTACAAGAAAATGTGTCCTCATGGCCCAGGGTACTCCACTGATGGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000327:ENSGALT00000000433:56
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=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.3)
A:
NA
C2:
PF0068312=TB=WD(100=62.9),PF0764510=EGF_CA=PU(0.1=0.0)
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:
ATGAGAATGAGTGCCGCACC
R:
ATCAGTGGAGTACCCTGGGC
Band lengths:
326-1728
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]