RnoINT0024729 @ rn6
Intron Retention
Gene
ENSRNOG00000002117 | Barhl2
Description
BarH-like homeobox 2 [Source:RGD Symbol;Acc:620726]
Coordinates
chr14:4364982-4367605:+
Coord C1 exon
chr14:4364982-4365207
Coord A exon
chr14:4365208-4366951
Coord C2 exon
chr14:4366952-4367605
Length
1744 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GCCCACCCGATTTCTTTCAGAAC
3' ss Score
7.68
Exon sequences
Seq C1 exon
GAACAAAGGAGGAAGGAGACCGGGAGATTACAAGTAGCCGAGAGAGTCCCCCTGTGAGAGCCAAGAAACCTCGAAAGGCCAGGACAGCTTTCTCGGACCACCAGCTCAATCAACTGGAACGTAGCTTTGAGCGGCAGAAGTACCTCAGTGTACAGGACCGCATGGACCTGGCAGCTGCACTCAACCTCACTGATACCCAAGTCAAGACCTGGTACCAGAACCGCAG
Seq A exon
GTGAGGAGAGCTGCTGAGTCCCTGCCAGCCAGATCCTTAATGCCTTCTCTCCCGCCCTCTGGAAACAGAGTCAAAGGGTCTGTAGTGGGCGCTTTCAGGCAGAGGTCAGGCACACTTCCAAATGGGAGCGGCTAAGGGCACAGGGGTTTGAATACTTTTGTGCTCTAAATGTCTTAACATTCGGTTCTTTTCCTTCCGAAACTCGTGGTGCCACAGTTTCCCCCCATTTTGTCCTCAAACAGACCAAGCTACACTCAGATTGAAATATCTGTGTAGCTGACACCCAGGATAAGTCTGTGTGCACAGAGTACCCTTAGAACTGCCACAGGCGGGCTCCAAATGTCTGCACCAGGCCACAGGACCTAGGTATTGAAGTCTCCACAGAGCTGCCCCACCAGCCTTGGCTTAAATGTTAGGCAGTTGGGAAAGCCCAGGTCCAAGCCTTGGTTGTCACGACTTAGAAGACCAGGGAAGCCCATCTGGGTTCAAATTGGACTGGAGGCCTTGGGCTGGAGATTCAGGCAGCTGGTTGAGCATCCACGAGTGTACGCGGGGGAAGGGGAGGGAGATGTCTGTCCCCTGTCCTGGCTGTTTCTGAAGTCTCATAAAGAGAAAGGGTGGGGAGGAGGGCACAAACTCTATCCCACACGACTGATTAAAAGAAGACATTAAGAAAGTGTCTGGCCTCACCCTGGAGGCTAGGGACAGACTTGGGCAATAGGAGTTGAGGTTAAGTCCCGTTTCCACACCTGGTGATAAACTCTCTGGGCTCAATTCTCTGCCCCCTCTGTCGTTTGTGTCCTAATCGTTCATAAGTGGGGTTGGAAATGCCCGTCCAGTTGTCATCTTACCATAATTTTCTGTCTCATTACATACGGTTTCAGCCACCCTAATTCTGTCGGAGAACATTAGTGTCATCTGTAGCCAATTTAAAACCAGCGACATGTTTATTAATTTGGCTGGAACTGCTGGGTATAGATGCCCCACCAAGCCTGTCTGCCTTCCTAGGGCGTTTTAGTAAAAACCTCTCTCCTAGCTTGGTGCAGTGGGGAGAGGGGAGGCCCAAAAAAGTGGATCATAGGGTTTAAGCACTATTTTCTCTTTAAGGAGAAAATATCTTGAGATCCATTTCCTTTCACCTAGAGTGGTCAGGAGGCACCGCTCCCTAGGGAGAGCTCACTCTCAAACAAATTCCAGTTTTGAACCTTGTCGCCCTGCTGCCCTAAGCCTGTACTGCCTGGCCAGACTTAAGGAAGAATTGTCCCGGCAGCCTTGGAGAGTGCAAACCCGGAGTACCAGCCGCCCTTTGTTTCTGGTTTTGGTTTCCTTGGGTGCGATGGGGGAGGGGCCGAGAGCCAACCTTTGAGAGATCGCCGGTCGGAGAACATTGGAGGAGAATTGGAGGAACCAAAGGAAAGCGGCTGGTGGAGAGAGGGATCTCATTTGGCCTCCAGGAAAGTTGCAGGACGTAATTAAATCGTGGGGGCAGAGAGTAGGGCAGAGGGCCAGAGAAGGCAGCGAAGCTTGTATGATTCCACCTCCACATGGAAGATGTAGTTTGGAGAACTGATTGCGGGTTTAGGCCGTCCTAAGAGCGTGTGGATGAAGCGGGGGAAGGAGACCTGCATTTGGGGTTCCCCAGGCCTTCCTTGAGTAGGGAGGGTAGGAGAGAGAGAGGAGCTGCGGGGACGGTGCCGGGATCGTCCTCCGCAGCCGCCGCCCGCGCCCACCCGATTTCTTTCAG
Seq C2 exon
AACCAAGTGGAAGCGGCAGACTGCAGTGGGCCTGGAGTTGCTTGCCGAGGCGGGGAACTACTCCGCGCTGCAGAGGATGTTTCCGTCGCCTTATTTCTACCACCCAAGCCTGCTGGGGAGCATGGACAGCACGACGGCGGCCGCGGCGGCCGCGGCAATGTACAGCAGCATGTACCGAACTCCTCCTGCACCCCATCCGCAGCTGCAGCGGCCACTGGTGCCCCGCGTGCTCATCCACGGCCTGGGGCCTGGGGGACAGCCGGCCCTCAACCCTTTGTCCAACCCCATCCCAGGCACCCCGCATCCCCGGTGAGGAAGGAGGGACAGTGCAGCCCGAGCAGCCCTCCAGGTTTCCACCCGGCCGCCGACAGCTGCCCCACCTCTCCCCGCACCAAACCAACAGGAATAGAGGCAGACGAGTAAAGGGGGGGAGCTCACCGGTGGGCTGGGTCCCCAAGGACCGGCCAGCCCTCTGTTCTCCATCTGCCCCCTCAGAGGCAGGGCCGCAAAGCTCCCCAACAGTGTGACTGGAGAAAATACTGACCCCACTGAAAGTGCAACCAGTAAGTGAAAACACCCACCCACCCACCCACCCACACACACACACAAAATGAACCCTCGAGTTCTTTCTTTCTTTCTTTTTTTTTTTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002117:ENSRNOT00000002887:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.566 A=NA C2=0.365
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(89.5=67.1)
A:
NA
C2:
PF0004624=Homeobox=PD(8.8=4.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCACTCAACCTCACTGAT
R:
CTGGGATGGGGTTGGACAAAG
Band lengths:
346-2090
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]