GgaINT0040809 @ galGal3
Intron Retention
Gene
ENSGALG00000004222 | F1NEI1_CHICK
Description
NA
Coordinates
chr6:12003604-12005221:+
Coord C1 exon
chr6:12003604-12003837
Coord A exon
chr6:12003838-12004516
Coord C2 exon
chr6:12004517-12005221
Length
679 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GCCATTGTTTCCCTTTGCAGCTT
3' ss Score
11.13
Exon sequences
Seq C1 exon
CGACAGGTTAGCCTTGCTTCAGGTGCGAACCATTCTCCAGCAGCTGGGGCTCAACAGCACGTGCGATGACAGTATCATTGTCAAGACAGTGTGCGGAGCGGTGTCAAAGCGAGCAGCTCAGTTATGTGGTGCCGGAATGGCTGCCGTTGTAGATAAAATTAGGGAGAACAGAGGCTTAGAGCACCTGGAGATAACGGTTGGTGTGGATGGGACTCTGTACAAACTACACCCACA
Seq A exon
GTGAGTATTCACCTCTGTGTTTGTTTGCCTGTGACTTGTAGCGCGTTGCTGCGTGTCCTTTTCCCAAGCGATTTCACTTGTTTGCTAGGATTAGAGCCAGGGAAAAGAGATCTTAATCAGGGCTGGCTGGAGCCTTCTAGAGGGTAATGAGGATCAAGAAGGACTTGTGAAGGACTCAGGGGGCTGTGCCAAGCTGAAGGTGACACAGCTTGCTGAACAGGTTTGAGGCCACATAGCAAGGGAATGATCTCTTGGCTATGTACAGGCAATGACAGAGCAACTTGAGTGCCTGATGCCTCTTTGGGAGATGGTCCTGCTCAGCAGGCAGAGGGGATGGACCATTAGGAAGCAGTGACAGGCAAAGGAAGAGGTCTAGTACAGCTAGGCCCACAGGGAGGACAGGAGTAGTGCCTGTCTCCTGTGTAAGGAGGTAGATGGGAAGGAGAAGAGCATACAATATCTCTTTTTCCACTTTGCTGTGGTTCTAGCTGTCCAGGTAGCCCCATGTGAAGAGAGAGAGAGAAAAGACCTCTGCTCCCAGTCTTCCCACCCACTATAGTTTCCAGCATTTAGTTCCCTCCGCTGTGATAAGGGGAGCACTGCAAAGGCCCGCAGCAGTGCTGTGCTCTGCAGGTGCTGCAGGACCTCCCTTGCCCACTGCCATTGTTTCCCTTTGCAG
Seq C2 exon
CTTTTCGAGGATTATGCACCAAACAGTCAAAGACCTGGCACCCAAGTGTGATGTGACCTTCCTGCTCTCGGAGGACGGCAGCGGGAAAGGGGCAGCGCTCATCACGGCGGTGGGATGCAGGCTTCGCGATGCTGAGCAGAACTGAGCTCCACAGCCCTGGCCCCGAGTCTGTCTTGTGAGCACCTTCTCCTAAAGCAGCGACTGCATAGCCTGAACTGGTTAAAAAAAGAAAGAAAAGAAAGAAAACAACGGAACTCACTGCTTTATCGGGGAAAAAAATACAACTAATGACATAAAAAGAATAGGATACAAGATAGAATGTGTGCTGTTAATAATATCTCCTGTTTATGGACCCCAATCTGCATGTTTCTTATTCACCTTGTTGGTACCTTCCCCATCTGTAGGTCATGGAAAAAACCGGTCTATAATTTCTGCAGTCACAGAACAATCGGTTGTTGTCCGAGATGAAATTTCCCCCCGTTGATGTGCGTTGAGACCTGCCATTGCGTCGTACCGAGTGTGACCTCTGCAGCATCCCTGTCAAGTGCACCGCCAGCACGCTGACCACCACGCCTGGGCGCTGGTGCTTTCGGTGGAAGGGAAGCAACAGTTCCCTCCCGCAGATCTACCTGCTGCTGTTATGTTTAAGGCCACTGTGGAAGAATTGCGGTGTGTCGGCGCTGTGCACGCACGTAACTATAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(32.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGCAGCTCAGTTATGTGGT
R:
CCAGTTCAGGCTATGCAGTCG
Band lengths:
344-1023
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]