GgaINT0128092 @ galGal3
Intron Retention
Gene
ENSGALG00000001163 | NDEL1_CHICK
Description
NA
Coordinates
chr18:1679245-1680151:+
Coord C1 exon
chr18:1679245-1679396
Coord A exon
chr18:1679397-1680075
Coord C2 exon
chr18:1680076-1680151
Length
679 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CACAGTCCATTGTAGCTCAGGGC
3' ss Score
-0.84
Exon sequences
Seq C1 exon
GCCTTAGAATCCAAATTAGCTGCTTGCAGAAATTTTGCAAAGGACCAGGCATCACGGAAATCCTACATTTCAGGGAATGCTAACAGCAGCATGATGAGCAGCAACGGCACGAAGTACCCTCATCCAGGGCATACTTCTTTCTTTGACAAAGG
Seq A exon
GTAAGTCAGTATGTATTTGTACACTGAGAAGGGTGGGGGGGTGTTTCAGGATGCTGTGTGAAGTTTTCCTTGGCTTGTTTTTAGCCCACCACAGCTCTTGTCCAGTAAGACAAATAATTTGTGGAGCTGTGTTCTCAAGGGGACAGAGAAGCAGCGTTCCACTGCAGGCTTCTGTGAAGCAAAGAGAAAAGCAAGTGTTTGACCTCTCAGCTGGTGGGATGTCATTGCCTGTGCTGCCCCTCTGCTGCCTCAGCTCTTGGTGGCTGCATAAACCTTCTGGTGCAGTGATTGTGCCCTTCAGAAGGATCTCAAGCAGACAGTGGTGGGGTTGCCATAGCTGTTGGTGTGCCTGTGTGTGGCGAGTGCCTGAACTACAGAGCTGGAGGTTCCCTTAGTAAGAGCAGTAAGTGTGGGCAGCATGTGCTCCCTTGGAGAGCAGTGCCCTCTTTGGTCTGCTCCTCCCTGCAATCAGTGAAAAATAAAATGTTATTAACTGTGTAATCCTTGCTGATAGAAGGGGCAGCTGTCCTATACTGTCCTGTTGTGTGTTAGCCGTAATGTTCAAAGCAGCTTTTGCAGAAAAAAAACCACTCTGTGACTTGCTTGTAGTTGGAGCTTCCTCTCTGACATGGGGATGTGGTTCAGCAGGAGGATTTTCCCACAGTCCATTGTAGCTCAG
Seq C2 exon
GGCTCTGAGGTTGTATGACAGCCCTGAGGAGCAGGGTGCACAGCCAAGCTCTCCTCCAGTGTTACCCTGCAATAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001163:ENSGALT00000034920:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.549 A=NA C2=0.962
Domain overlap (PFAM):
C1:
PF048808=NUDE_C=PD(27.6=96.2)
A:
NA
C2:
PF048808=NUDE_C=PD(9.4=73.1)
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:
GCCTTAGAATCCAAATTAGCTGCT
R:
TTGCAGGGTAACACTGGAGGA
Band lengths:
224-903
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]