RnoINT0006731 @ rn6
Intron Retention
Gene
ENSRNOG00000010822 | AABR07059679.1
Description
distal-less homeobox 6 [Source:NCBI gene;Acc:500023]
Coordinates
chr4:32373641-32375122:+
Coord C1 exon
chr4:32373641-32373722
Coord A exon
chr4:32373723-32374928
Coord C2 exon
chr4:32374929-32375122
Length
1206 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TCTGTGTCATTTGCTTACAGATC
3' ss Score
9.8
Exon sequences
Seq C1 exon
ATGAGCCACTCGCAGCACAGCCCTTACCTCCAGTCCTACCACAACAGCAGCGCGGCCGCCCAGACGCGCGGGGACGACACAG
Seq A exon
GTGAGAGGCCGCCTAGGCAGCTAGCTTCGCCCGCCTCCCCACTGCCTCCGACCCCTCCCGCCCCGCTCACTTCCTCCACGCCGGGGCCTCCGCCGGCCCCCTCCTGCGGGCGGCCCCGCGCGCCCCAAATCGGGCCCCGTGCGCTCCCGATTGCCTGGCGCCTGCCTGCCGGCCTCTCCCAGCCGTGCCCCTTCCCGCCGCCGTGGACCCCCGGCTGGCTCGCCCGCGTGTGTTTCCCACTGAACCTCCGGGCTGTGCGCTAGCCTGGCCTTACGGTCCGCACTGCGCCCTCCAGCCCACCAGGTCTATGTGCTCTCTGCTTGTCCCTTCCCTCTCCTCTGGGACCCGCGTTTGTCGGGACTGGAGACAATTCTGGGCCAGGACTGAAGGGCTAGTTAAGGCTTCCTATCCCAACGCTGGACGAGCAGTGGCCTACTTTGCGTGGGGCACTTGGTGCGCCTTGGTGACTTTTAACGAAGCTGTTGCGGCCGATAGATACTAATGACAACTGGGGTTTGTTTCTTTTTTAATTCTTCCCTTGTGAGCTTTGAGGTGTCCCCTGCCCCCAATCCTGACCCGGCCCCCTCTCTCTGGGTTTTCGATAGTACTTTGACCGCTCCTTTGTTCTTGGAGGCGAAGCAGAGGCCCTGGGGTTGATAGCTCTCTGTTGTCCAGAATGTCTCAGCCTGCTCTGGATCTGCTCTGAGCTCCTGGTTGTGTTTTGTGTTTGTGTTTTGATCCACGCGAGCATAATCATTTCAAACATTCAGAAGGGACTTAAAACACTAAGCTTGCAGTTGGGTGACACAAAACTAACTGGTCAAGTAAACACCCTGGTGTCTCTGATAAAGCTCTAGGCGCTGTAAAAAGTCAGGCCAAGAAACCACTCTCCGCCCAGAGAAGAGAAGCCTTGCAGTGCCGCGGACTCCGGAAAGCGGCCCGCGCTGTCTCCGTTCTTATGCAGCGCCTCTTTTATGCCCCGGGCTTCCTAGATTCGACCAATATTATGCATTGTTAGGGTCAGAGACACGGTCACAGAGAAGCTTTCCCAGACTCTGGGGGCACGTGCCCACGGTGGTATAGCGGTGATATTACGAGGAACCTTGTTTAAACTTGGGAGAAGCTCCTCGCAGGCCTTGTCACACGAAGGGGAGAAAGCAGCAATGGCCTCAAGGGTGACCGCTCCTCTGTGTCATTTGCTTACAG
Seq C2 exon
ATCAACAAAAAACGACAGTGATCGAAAACGGGGAAATCAGGTTCAACGGAAAGGGGAAAAAGATTCGGAAGCCTCGGACCATTTATTCCAGCCTGCAGCTCCAGGCTTTAAACCACCGCTTTCAGCAGACTCAATACCTGGCCCTTCCAGAGAGAGCCGAACTGGCTGCTTCCTTAGGACTGACACAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010822:ENSRNOT00000076086:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.964 A=NA C2=0.354
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=64.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGCCACTCGCAGCACA
R:
TTGTGTCAGTCCTAAGGAAGCA
Band lengths:
270-1476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]