RnoINT0065500 @ rn6
Intron Retention
Gene
ENSRNOG00000021765 | Gli4
Description
GLI family zinc finger 4 [Source:RGD Symbol;Acc:1560906]
Coordinates
chr7:116673192-116675170:+
Coord C1 exon
chr7:116673192-116673344
Coord A exon
chr7:116673345-116675074
Coord C2 exon
chr7:116675075-116675170
Length
1730 bp
Sequences
Splice sites
5' ss Seq
ACGGTATTT
5' ss Score
5.46
3' ss Seq
CCTCAATCCCCTGCCTCCAGGCT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GTCCCAAGGTGCCTCCTTGAGCAGGACTCAGGAAGATGGCTGCACTAGAGGGTGTAGAGGAGGCCCCTCCTGTCTTATCACTCAACAGTCTCTCATCACCAGGGACACCTGGAGACCAGCACCATGTGGCACTCCATGGACACCCTCACCACG
Seq A exon
GTATTTGCCCCAGACTGCTATGCCCCTCTGCCCCACTTCTACCTCATAAGACTGCTCTGACCTGTGTTTTGGCCAGCTGAGGAAGGGAGTGCGCACTTACGAAGCTCATTCAGTGCTGGGGCATCTGGGACGAGCCCTGAGGGAGTGGTGGAAAATAGCAGTGGTAGAGGCCACCCTCTGACCCCAGGGAATAGCCCCCTGGGTATGTTTCTTCCTCAGTATTAAAGGAAAAATGGCCTCAGAAGGGGCCCTGTTTTAGGAAGAGAAGATCCCCCTCTGACAGCACATCCTAGGCCAGGAAGAGAGGCAGCATTCTTCCTGGTTAATTCGGGTGCCGGCCTAGACTAATTATGGCTGATACGGTGAAGCGAGCTTTTATGGGAGGCAGCTGTGCTCTGTGTCAGGCTCCCTTAGGTGATGCCCAAGCTTATAGACGGACATTCACGGATGAGGACAGACATCACACTTCCCTGGGGAACCACGGGGTCAACCCCAGACCAGGTAGGAACCCTAAGCCCTGTCCTGTTTGCTGCCTGGCTCCAGGACCCTTCTGCCTATTCCTAGAACAATTCTTAGGCAGGGCCTTAGCTTTAGGCTGTCCCTGGTGGGCCTGTGAACACGTAAGCAAAGTGGGTCCTAGACTAAGGTAGACTTGGTAGCGGGGACTTTACCACGTCATAGTGGAGCTCGGGAAGGCACTGATCTGGAGGGAGACGAGGGAATGGCCATCACCCCTTGTATAGATAAACAGGTGACAGGTGGTCTCTGTGCCTGCTTCCTAGCCACCAGCAAGGTCAGGGCCGCCTCTCAGAGACCAAGCTATTCTACGTTTGAAGGCCCATGGGTTGCATTTTTGTCTTCTTTTGGTTGTTTTTTTTTTTGGGGGGGGGGTATAGAATCTCAGTGTTGTCTCCCTGCCTTAGCCCCCAAGTCTCTGGGATTACCCTGTGTCACATCATTTGGGCTTGTTCCACACATTCCTCACCAGAGGAGACCCCAATGTTCTGAAACCTGCCTGCAGTTCTGCCAGGACTTCTTGGAACCTCGGGCTCCCAAAGAGGCCCATCCAGAATATCTAAGTCCCAGCAGCTTGCAAAGTGACCTTCTACACGGTCATTTCAGGGTCCTTTGGGAATGGCAGGAGGTGAGAAAAAGCATAAGGGAGAAGCACACAAGGGTCCCTGTACCAGAAGTCTGTAGGAGAGGCTCCAAGCCCCACCCTGGCTAACCTAGAAGCAGGAGGCCTGCCTAGGCGGTACGGGATAAAGCGATCCTTCTAGGGTCTCTCTAACCTTGCAGACACAGATCAGGAGCCAGGGCTGGCTTGTGATGCTAAGAAATGAGAAGATGGGACCATGGGGTAGCTGCAGGGCTGAGTGCAGAGAGCAAGGATGGGTGGAAAGGAATAAGACCAGAGTCAGCCAAGGCATCAGCCAGCATGGGGCAGAAATAAGAGCTGCCTGGGCAGCCCAGCTTGTACTTGCCTGCAGAACTAAGGGAGAATGAGTCCCCAAAGCTGGAACCTCAGGAGGGTTGCTTGATGGGCTAGCCAAGGCAATGGCACCTCATCCATCTCAGCGTCTCTTTGGGAGCATAAGGGATGCTGGGTAGGTGGGGAATTTCTGTGTGTCGGGGTCTTGGCCCCTTGGAGTCTTGCATTCAGGAAGGAGGGAAGGGCCAGATGCTGCCCTCTGGAGAGTAGGGTATGAGCCTCAATCCCCTGCCTCCAG
Seq C2 exon
GCTCTCCCTGTTCCAGCCCTGAGGTGCCTTCCCAGACAGCAGACCCAGACCTCCGAGTCGTAGAGGAAGTGGAGAGCACCAGAGATACCTGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021765:ENSRNOT00000029711:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGCCTCCTTGAGCAGG
R:
CAGGTATCTCTGGTGCTCTCCA
Band lengths:
238-1968
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]