GgaINT0035400 @ galGal3
Intron Retention
Gene
ENSGALG00000004620 | Q5ZIH4_CHICK
Description
NA
Coordinates
chr8:7835089-7836157:+
Coord C1 exon
chr8:7835089-7835188
Coord A exon
chr8:7835189-7835567
Coord C2 exon
chr8:7835568-7836157
Length
379 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GTTCCCTTTTGGCTTTTCAGGGC
3' ss Score
10.6
Exon sequences
Seq C1 exon
GCCTCACAGGCAGCCCAGGAGGCAGAAGACAACGCAAGAAAAGCGAAAAACTCTGTGAACAGCTTGCTTGCTGTCATTAATGACCTTTTAGACCAACTAG
Seq A exon
GTAAGGCTGTCCTTTTTTCTTGTCTCCTAACAGGGAAGTGCTGGCAGCCAGCGTGATGCGGTGCTGTGCTGGGAACCAAACAAATTTTGTTTTCCTAGAAATTAAATTAATGTGGTTTTGGCAAGTGGTTTTTTTTTTTTTTTTTTGGTGGAGTAGCCTCAAAACTCATTGTGCAGTGTTCTGTGCCACTTCCCTGCAAGCTATGGATTCAATATGAGGCACTGGAGGTGGAGCCCCTTCAGTTGCTCTTGTTTCTTACTCAGAGATGGCCTGATACAGATCTTGCTTCTCTCACTCGGAACATGGGATCTGCTCTGTAAGCACCTGGAAGCTTCAAAGGCTTTTTAATGGTCTTCACTGTTCCCTTTTGGCTTTTCAG
Seq C2 exon
GGCAACTGGAGACGGTGGACCTGAACAAACTGAATGAGATTGAGGGTACCCTGAACAGTGCCAAAGACCAGATGAAAGATAGCGACCTGGACCAGAAGGTAGCTTTCCTTGAGAGAGAAGCCAGGAAGCAAGATGATGCGATACAGTCCTACAACAGGGACATTGAGGAAATCCTGAAAGACATTAGCAACCTGGAGGACATCAGGAAGACCTTGCCATCTGGCTGCTTTAACACCCCGTCCATTGAGAAACCCTAAGGGTGTGCTGGGGGTGGAGGGTATTCCCCCGCTGATCGGTGGAGCGATTGTTTGGCTATGGAGTGCCTTAACACACGTTACCTTCTTCCAATCCCCATCTCTTTGCTGCTTGCAGCCTCTGTTTTCTTCTCAAATCAGGATAAGTTGAAAAGGATTTTTTTCCTTTTTTTTTTTTAAGAGAAGCAAATTAAATATCCGTCTTTGGGCATCAAAGGGTTTTTTTTTTTAATATAAATTGTCTTCCTGAGCACTCTGCCTTTGCCCCTTTCTCAGACACAGTTTCCCTTTGATTAGTGCAAGGATGAGAGATGCTCTGGACTCTTTATACTGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004620:ENSGALT00000007355:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.388
Domain overlap (PFAM):
C1:
PF083176=Spc7=FE(24.4=100),PF052626=Borrelia_P83=FE(23.2=100),PF131661=AAA_13=FE(24.3=100),PF0106216=Bestrophin=FE(47.1=100),PF058526=DUF848=FE(30.6=100)
A:
NA
C2:
PF083176=Spc7=PD(54.1=84.9),PF052626=Borrelia_P83=PD(56.3=93.0),PF131661=AAA_13=PD(54.4=86.0),PF0106216=Bestrophin=PD(11.4=9.3),PF058526=DUF848=PD(62.0=77.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTGAACAGCTTGCTTGCT
R:
AACAATCGCTCCACCGATCAG
Band lengths:
358-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]