GgaINT0139183 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1604898-1605889:+
Coord C1 exon
chr24:1604898-1605002
Coord A exon
chr24:1605003-1605781
Coord C2 exon
chr24:1605782-1605889
Length
779 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TTCTCTCTGTTCTTTCTCAGCCT
3' ss Score
8.94
Exon sequences
Seq C1 exon
CCTGTCCTGGCAAGTTTGCCTGCAACACCGGCCGCTGCATTGAGAAAAGCATGCGCTGCGATGGGTGGTTGGACTGCGTTGATGGCAGTGATGAGCGGTCCTGCA
Seq A exon
GTGAGTGCCCTTCCTTCCTTCCTTTTGGCTCTTCATGGAAGGCTGCAGAGCTGCAGGGTGCCCAAGGGTGCTGTGCTGGGCTTGTTCTGGCAGTGAGCCTCAGTGCTGAGGCCTGCTGTGCTGGGTGGTATTGTGGGATGAGTTTAGTTACAGAACTGAGCAGGAGTTGCAGAGTATGTACGGAACACCCGTGTGATGCATGGGTATTGTTCCTTTATGCAGAAGTTTTTCCTCTTGCATTCACAGTGCTATCTAATATGTGTTATTGTTCGTGTTGTTTGAAGTTAATTGTTGTTTTAGAGAGGATGTTTAGAGAGTATAATTCATGTTGTTTAGAGAGGATGAGATTCCCTGTTTTGGGATCTTGTGCTGAGGCATGGGGCTGTTTGCTGAAGGAGAAATGTGCTGCTGGCACAGCTGCCCTGTGGGGCCACCCCCGTGGGCTGGGTATCCCAGGTGCTTTCCCACCAGTGGTGGTAGTGCCTTTCATTTGGGTGTCGTGCTGCAGTGAGGATGGGGTTATGTGAGCACCCACCCTACCTGCCCGAGACATCGCAGCTCTCCAAATAGTTTTGTTTCTGGAGCAGCAGAAATGCCATGTTATAGGCCAAGTGCATGTGTGTTCATACATACATGCGATGTTTTCTGTTGTGTTTGTCTGTGTGCTTGAGCTCCCACCTGGGAGCCATGCAGATCTTCCTGTGATGCCAGGTGTGTCACTGATGACCCCACGGGTAAATTGCAGATCTGTCCCCTGATTTCTCTCTGTTCTTTCTCAG
Seq C2 exon
CCTGCACCGACCAGCAGTTCAGGTGTCAGAACGGCTGGTGCAAGCCCAAGTTCTGGGTCTGTGACAACGTGAACGACTGCGGTGACAACAGCGATGAGTTGCAGTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:11
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:
PF0005713=Ldl_recept_a=PD(94.4=94.4),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=97.3),PF0005713=Ldl_recept_a=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:
CAAGTTTGCCTGCAACACCG
R:
ACTGCAACTCATCGCTGTTGT
Band lengths:
200-979
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]