GgaINT0061040 @ galGal3
Intron Retention
Gene
ENSGALG00000015384 | F1NA49_CHICK
Description
NA
Coordinates
chrZ:52502745-52503933:-
Coord C1 exon
chrZ:52503824-52503933
Coord A exon
chrZ:52503628-52503823
Coord C2 exon
chrZ:52502745-52503627
Length
196 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TCTTTCTGTCTGACTCACAGCGC
3' ss Score
9.12
Exon sequences
Seq C1 exon
GAATGGATGGACCACAAGCTCTCCTGGAATCCAGAGGAATATGGTGGGATCACTGCTATCCGTGTCCCTTCTGAGTCCCTGTGGCTTCCCGACATTGTTCTGTTTGAAAA
Seq A exon
GTGAGTAGCATGTTTCTTACTCCGGACTTAAGCTGTAGCATGGATGAGACACGTCAGCTATCACAGAGCTTGCACACACTCTTAGAAAGCTGCTTATGTAGGCAGTATGAATGTTGGCTTTCCTTGCGTGAGGGTGTGAGTGGATAGCTCTGGGGCACTCTGAACTTGGTTCTGTTTCTTTCTGTCTGACTCACAG
Seq C2 exon
CGCTGATGGACGTTTTGAAGGGTCCCTGATGACCAAAGCCATAGTGAAATACAATGGAGTGGTGACCTGGATGCCACCAGCCAGCTACAAGAGCTCCTGCACGATGGACGTAACCTTCTTCCCCTTCGACAGGCAGAACTGCTCCATGAAATTTGGGTCATGGACATATGATGGCAGTATGGTGGACTTAATTCTAGTGGATGAAAATGTAGACAGGAAAGACTTCTTTGATAACGGGGAGTGGGAGATCTTAAATGCCAAAGGTATGAAAGGCAACAGGAAGGATGGGCTGTACTCTTACCCATTTGTCACTTACTCCTTTGTGTTGAGACGCCTTCCACTGTTCTACACTCTTTTCTTAATAATCCCTTGCCTGGGATTGTCTTTTCTAACTGTCCTGGTGTTTTACCTGCCCTCAGATGAAGGAGAAAAGCTCTCATTGTCCACTTCAGTTCTAGTGTCCCTCACTGTTTTCCTTTTAGTGATCGAGGAAATAATCCCTTCTTCTTCCAAAGTCATCCCCCTGATTGGTGAGTATCTCCTGTTCATCATGATTTTTGTGACCCTCTCTATCATTGTGACTGTCTTTGTTATCAACGTCCACCACCGCTCCTCAGCAACTTACCACCCCATGGCCCCCTGGGTTAAAAGACTCTTCCTCCAGAAGCTGCCTCGGCTGCTCTGCATGAAGGGACACGTAGACCGTTATTCCTTCTCAGACACTGAGGAAAAGGAAACCACCTTGAAATCAAAACTCCCAGGAAAACAGAAACACAAGCAAGCAAAAGATGGAGAGAAAGTCGTGATTGCCTTTCTGGAAAAGGCAGCTGATTCCATTCGGTACATTTCCAGGCATGTTAAAAAGGAGCACTTCATCAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015384:ENSGALT00000024820:4
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=0.022
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=51.2),PF0293211=Neur_chan_memb=PU(63.7=19.7)
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:
GGATGGACCACAAGCTCTCCT
R:
GAGCAGTTCTGCCTGTCGAAG
Band lengths:
250-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]