GgaINT0041343 @ galGal4
Intron Retention
Gene
ENSGALG00000003135 | chAnk3
Description
ankyrin 3, node of Ranvier (ankyrin G) [Source:RefSeq peptide;Acc:NP_001264026]
Coordinates
chr6:8383001-8385048:+
Coord C1 exon
chr6:8383001-8383186
Coord A exon
chr6:8383187-8384949
Coord C2 exon
chr6:8384950-8385048
Length
1763 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TTGTTTGTTTGTTTTTCCAGAGT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GACGGTTTCACACCTTTGGCAGTAGCTTTACAGCAAGGTCATGACCAGGTGGTTTCACTGTTGCTTGAAAATGATACAAAAGGAAAAGTCCGTCTTCCTGCTCTTCACATCGCTGCTCGGAAGGATGATACGAAGGCAGCGGCTCTGCTCCTGCAGAATGACCACAATGCTGATGTTGAGTCAAAG
Seq A exon
GTCAGTTGTAAGGGGTTTGATGCTGTTAAGTGCTGAGCACGTCTTGTGTCCAGTGAAGATCTCCCTTTATTAAAGTGTTTGGCTTATGAGTTGCACGTAACTTTCTCCTATAGCTTGTGACTAAAAGTATTGTTTCATTAGCTTCCCTTGCCTCTTCTTTTTCCTCACTCCCTTTTTGTTTGAATCAGGGTTAACTTCTCTTGTAGATACTTTCAAATGGAAAATAAAAGCAAAATATTACTACAGTCATTCTCTTGAAAATGGAAGCCACTGTTGAGGTGGTCTGCTAGAGAGACCATACAATTAAGTCATTTGATTAGCTGTTTGTGAAATTGCCTCTTTAAGAACTCTGATAAACATGTAACAATTAAAGCTCAAAATTCTCAATCATTCAGCTTCCATTCAGTCAAGCTTTCTTTGTGCCAGTTGTGCTGTCGTCTGAGCTGCCATGCCACGTAGCAATCATGAAGCTTTTTGCATCCATATCACCAGTGGTGAACTAACCGTTCATTTTTTCCCCCTCTTTGCTTCCAAATGTGTTAACCTAGATGATGGTGAATAGAACAACAGAGGTATATATAAATATATATATGCATCATCACTCCTCCATGACTTAGTGCTGCTGCATCATATTTTCCTCCTCCTTGTTGCATTGCCTTCTATAGGATAGATACCTGCTTTAGATGAAATGAAGTAGCATGTGCCAGAGAACACTGTAGTTTAGATACCAGGGCTTTCTGCAGCTGAAACTAGGGTTTAAAAATGAGAGTAAGTGTTCTTGGGTGCTGATTGCCATCATAAAAGAGCGATATTATGTAAGATGGAGTTTTCAGGGATTCTCACGGAGTAGACGTTTACCAGATGTGTCAAGAGCTGCAGACAACCCTGTTGTGTTGTGCATCCAGGACTGATTTCAGGCTTCTGCATGACACTTACCTTGATGGTGTCAGCAAATAGAGTGATCTGTGATTTTTAAATCTGCAAAACTCCTGAAGCAAGACAGTGGCAGCTAGCATGGCTTGCTAACAATTTAGAAACGCATCTAGATCCCATAAGGTTTCATACTTTGCAGGACTGATGGAATTGCTGCATGTTTTAGCATTATTTTAAAAAGAAGTAAAACTACTTAAATATGAAAATAACTTGCTGAAGTGATGTTATCAGTAAGGAATCTTCTAATTAGGTTGATAAATTGTGGTGTCTGAACATTAACCCAGTGTGATTGCCCTCAGTGGGAGACTGATCTTCATGGTTCTAACTCTTGGAAAAAAAAAAATCCATATTAATCATTTAAAATGGTCTTTGATGTTGTTTTCATTTGCATCTACTTTGAATTTATAAAAACAGTTAGCAAGTATCATCAAATGACTTGTATCTGAACTTCTCCAAAGAATCTCTAAGAAATTTGGCTTGCAAGTCTGATATAATGCCAGTAACAAGTAGACATTTGAAATTACTGTATTATAAAAGACAGATCACTGCTTTAATAGTCACATGTTTTGCTGCTGTTTTTTTCTGAAATATCTAAAAGTTTTATCTTAGTTCTCATCTTCTAGAATAATTATGCTAATTTAATTTTCCCTCCTGCACAGCAGTATGATTTTCTTTAGACTGTCAGAGTGAGTAAATAATTGTTAGTGAGTGAAAACTAGTACAGATTTGGAATGGTGACTTGCAGCACACTCCTGTTATTAGCTTTAGTCAACGATGTGCTACAAATTTTGATATTAATATATATGTTGTTTGTTTGTTTGTTTTTCCAG
Seq C2 exon
AGTGGGTTCACACCCCTTCACATAGCTGCTCACTATGGAAATATCAATGTAGCTACATTGCTGTTAAATCGAGGAGCTGCTGTGGACTTCACTGCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003135:ENSGALT00000041033:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PD(45.6=50.0),PF127962=Ank_2=PU(28.4=43.5)
A:
NA
C2:
PF127962=Ank_2=PU(28.4=81.8)
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:
GACGGTTTCACACCTTTGGCA
R:
GTGAAGTCCACAGCAGCTCC
Band lengths:
278-2041
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]