GgaINT0144380 @ galGal3
Intron Retention
Gene
ENSGALG00000000458 | F1NP62_CHICK
Description
NA
Coordinates
chr28:602300-603497:+
Coord C1 exon
chr28:602300-602455
Coord A exon
chr28:602456-603325
Coord C2 exon
chr28:603326-603497
Length
870 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
TGCTCTCTCATCTCTTACAGACT
3' ss Score
10.67
Exon sequences
Seq C1 exon
GTCTGCAGAAGACACGAGTGACCCGAGCCTTGTTGTCCCCAGGGAGCTGCCCTGGTGACATGTTCATGTGCCACAACACGCAGTGCGTGTGGAAAGAAAACCCTGAATGTGACGGCCAGAAGGACTGCGCCGACGCCTCTGATGAAAAGGGCTGCG
Seq A exon
GTGAGTGAACTGCAGCAGGACGGGTGGGGATGGGCCCCAACCCACCACTGCAGATTCTACCAGTAGACTTCTGGGCAGTAGGTTACAAAGACAGCACGTTTTATCAGACAAGTCGTCTGCATCGAGAGGTTGCACCCTAGAAATGTGCTGGTCCTGTTACCAACAGCAAAGGGACATGACAATGCTGGGGTAGAATGTCCTATTCCCATGGGCCAGTGAATCCGATGAGCCCAAACTGCAGCCATTCAGTGGCAGCACCCCAGGAAGCCTAAGCCACAAGGGCATGCCCAGCCCTATCTCCACACACCTGGCAGCGTGGAGCTGAGCTACCTTTGGGCCTTCAGGAGCTCACCTGACACCTGGTGTGGTACACACTTCCTTGCCTGAAAGGACAAGGGTAGGCAGAGTGCATTCTGCAGGCATCTCCCACAGCCACTGCTGGAGATAGGGAGCCTCTCCCATCCCCCCTGCAGTGCTACCATTCCCCTGTGCGTGCCCAGGATGACCTGTGGATGTTGCAGGTCCAGCAACCAGCCCACACCTTCCTGGTCTACAGTGTGCTAGGCAATCATCTCTGCATAGCCATGGACTGCTGGAAGCAGCTCAGCAGTGGCTGAGCTTTTGAAGCTAGAAGAGATATTTCTCTCTGGGTTTTTCCTGCTTGTAGGAGTTTCAGAGAGGACCCTGTGGTGGGTCAGTGCTTTGCAGTTCCCTTTTCCAGGTCTGCAGGTTAAAATCTGGTCTCTTGTGTCATCCCTAGAAATGTTTTGGTTTTTGGGTACGTGCACAAGCAGATTTTCCCACCTGCCCCAGGGAGCGCTTTGCCAGGGCACAGTTGGCACAATCCTGATGCTCTCTCATCTCTTACAG
Seq C2 exon
ACTGTGGGAGCCGCCCTGCCATGCAGACTGCCAGCAGGATAGTCGGAGGCACAGAGGCATCCAGAGGGGAGTTCCCCTGGCAGGTCAGCCTGCGAGAGAACAACGAGCATTTCTGTGGTGCTGCAATCCTCACGGAGAAGTGGCTGGTGTCTGCTGCTCACTGCTTTACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.121
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=71.7)
A:
NA
C2:
PF0008921=Trypsin=PU(19.2=75.9)
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:
TCTGCAGAAGACACGAGTGAC
R:
CAGTGAGCAGCAGACACCAG
Band lengths:
318-1188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]