RnoINT0024726 @ rn6
Intron Retention
Gene
ENSRNOG00000013209 | Barhl1
Description
BarH-like homeobox 1 [Source:RGD Symbol;Acc:620648]
Coordinates
chr3:7493606-7498555:-
Coord C1 exon
chr3:7497331-7498555
Coord A exon
chr3:7493829-7497330
Coord C2 exon
chr3:7493606-7493828
Length
3502 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TGCTTTCTGTGTCTCCGCAGTGA
3' ss Score
11.74
Exon sequences
Seq C1 exon
GAAACAACAACAAAAAAGCCAGCCCTAAAGTAAAAGTGACACAAGTTCTATTTTTTTTTTAAAGGAAGGAGGGGGGTTGGCGGCGAAGGCGCGCGCCGAGGACAGGTGAGAGCTGCAGTGGGAGCGGCAGGGAGCTGTCCACGGTGCTGACGGGCCCTGGCGGGGCCGAGCGTGCACGCAGGAGCTCTGGGGCCAGGTGGGGCTGCTTGATCCTGGGGCCGCGGCCGCTGTCCGCGGTGCTGAACCTCCAGGTGCGCTCCGTTCTGCCTGCTGGTAACGCGGCCCGGGCCGGCTGCTATCCGCCGTGCTGACCCCTGCCCTGGGCTACCGTTTGCCTGGAGGAAGCGTGCCGTTTGGATTTTGCTTTTTCAAAAGACGATCTTTATTCAGATTCTATCAGCCTCGCGTTTCTTCAGTGCCAAAGGGGCCCTCGGGCCGTTCTTCTACCCTTTGGCTCTTCCCAACTTGGCGCGCCCTCCTCCCATTCCTCCCTGACACTCCCACCACCACCACCCCACCCCCTCGGCTCGGCGGCTCGGCGCGGTGCTGCAGAAGACGCTTTGAGCCCTTTTGGATGTGATGCGCAGAGGAGGTTGGCCCAGAGCTCCCAGGCTCCCCCAAGGCTGAACTCCATCCAAGGTGCCCACAGGCTCCCTGCCCGCCTTCCCCATGCCAGCCCGCAGCTAGGGGCAGGGGCAGCGGCGGCTGGGGTTGGGGGTGGGTGGGGAGCTTTTGGGGAGGACAGGTCGCAGCTTGGCTATGGAAGGCTCCAATGGCTTTGGGATTGACTCCATTCTCTCCCACCGAGCGGGCAGCCCCGCCCTTCCCAAGGGGGACCCCTTGCTTGGGGACTGCCGTTCACCCCTGGAGCTGAGTCCACGCTCAGAGAGCAGCAGCGACTGCTCTTCACCAGCCTCGCCCGGAAGAGACTGTCTGGAGACCAGTACCTCGCGGCCTGGTGCAGCATCTGGCCCAGGTTTGGACTCCCACCTGCAGCCGGGGCAGCTTTCAGCCCCAGCCCAGTCGCGAACTGTCACCTCCTCCTTTCTGATCAGGGACATCCTTGCTGACTGCAAACCTCTGGCGGCCTGTGCACCCTACTCTAGCAGTGGGCAGCCTGCAGCCCCTGAGCCTGGGGGCCGCCTTGCGGCCAAGGCCGGGGAGGACTTTCGAGACAAGCTGGACAAAAGTGTCAGCAGCGCTTCATCGGACTCTGAGTACAAAG
Seq A exon
GTAAGAAACCAAGGGGAAAACTGGGAGTTGGGGGATTTCTAAAAAGTGGTATGTAAGAGTTGAGAGCACACACTTGGAGACAGGAACATAGTCATCTCTGGTATTTCCCAGGCCCAGGCTGAGAGTTAGTTTTTGTCTAGACCTCTCTCTCAGCCCCAAAGGTTGGGGCCCTGGAGCAACAAAGAGTTCAGTGTGTGTGGCTGGGAGAAGTTGAGGAGGATACTGTGTAGAGGAGAGCAAGCCTCCCCAGGTGGACAAACTTTCTAACTTCCTGACTGGGACCACAACTCTTCCAGCAGCTGTGCTGGTGGACAAGAGCCTCCCCTTCTGAGGATCCTGGGAGGAGACCTTGCAACAGTGCATAGCTTGGAGGCTGCTGCCTTGTTGGAGTGAGAACCTGGTAGAAAATTCTCACCAGAGCCCTTAGTACAGTAAGACATTTCTAGCTTTTAATCTGAATTTCCCAATAAGAGGAAAACGTGGACCTCCCCATTTGGGTGCAGGTGTAGTCTAGGCCTGGGAACCATGAAGAAAAAGAGATCAACTCGAACAAGGAACAGGCAGTTAGGCCACCAAGTGGCTGGCTGGAAAAGGTTCTGAGGCGATGGGGAAGAATGTCACACCTACACAGCAGCTCTCTCTGACCTGGGTCTTCAGTGGGTTGAATAGTGGTCACCAGGCTGTGTTCAAGACCCAGGGATTTCTGAGTGGTCAAGTTAATCCTACTTTCACTTTGGGAATCTCTGTGACAGGAAAAAAGAGGAGGGGAGGGAAGAAAGAAGGAAAAGTTTCCTTAGTTTTGTATCTTTCCTTTAGGTTCTGCCTTGACTCTCGATGTTTATTGGGTCCTGGGGCACAAAGTTCTCTCGCAGGAGAAGTTGAGTGGCAGAGGCCAGGGTGTCAGAGGCATCAGATGGAGCTCTCTTAGCAGGCATCAGAAAAGCAGGACCTGGTAGAGACTGCTCCTGGGTTGTAACAATTACAACGGACTCTCCAAGCCTCTTCCTCGGGTGAATACTTTGCTAGAAAGACAGCGTCATTTGTGCTAAATTTCACTAAATTTAGTTAGAGTCACTTGAGTCTTCCTTTCAAAAAAGAATTCCTTTGAAGGTAGACCCAGACTCCAAAGTGAAGCCCACCAGGGGTCTTCTAGACCTCCTTTCTCTCTTCTTCCCCTAGTAGAAACGGCTAGGTCGCCTTCAATCAGGCTGTGGAACCATCGTTTCTACAAAGTCTCTAGTTTAACCACAGAGCTCAGGAAGAGGTGTTCGGGAATTTTGGCCCTTGTGCCTCCCCCGACTTCCCAGGGGCCTGTTTAGAGAGGCAAAGAGAACTCACCTTGGAGAAAGGTGTGTGTGTGCGTGCACATGCGTGTTATTCCTTACAATTTGCAACCAGATCTACCTAGTTTCATGATTAGGGCAAAGAGCGATTGGGTCTCGCCCTGCTGTAAAACTGTTACTTCCTTTTATGGTTTTGCCCCTAAGCAGGATTTTGAGGGGCGATTCCATTTCGTTTAAGATAATTGGAATATCAATTTTCTTCTCCGGTCCCTGGTGATATCTGAGGAGGGAGATGACAGAGAGAGTCGGCTATGGCTACAGCTAAGGCTCCGTATCACTTAAACAGGTTTGGAGCAGGGATGCTGTAGGAAGTTCCAGCCACCCCTAGGCACTGACTGTTGCTTTTGCCCTTAACAAAAGTCTCTGAAGTAAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGCGCGCGTGCGGCCCACAAAGCCATGCCTAGCACATTTCTCAAACAGGGGTGACTTGCAAAGTCTGAGTTAGGAAGCTAGTTTGAGAGACAGACACAGGAGCCAGCCCGAAGGTGCATTTAAGTCCATCACCATCCAGCCACAAACTATTCTGAGTCATTTCATCCTTGGAGGCAGGGGTGGGGAACAGGCCAGTCTCATCACAAGTTTCTGGTGGGAAAGGTTTCTTAAACAGTAATTACTGAAGTTGGAACGGGGCTCCGGAAGTAAGGTGGGTGGCAACAGTACACTGGCTGGAGCTCTATGCTCTTGGAGAAACCAAACCAGGCTTCACTCCACGAAGACAGGGTCTTCGGCCCCCAGGCTCTAGACCCACGGAGATGGAGTGCAGCTCTGAGGCCAAAGTCTGAAAGATTGGACACGAGACTGAACTGCGGGAGTAAAGGCAGAGCCGGGAAAAGAAACGGTTGGCCACTCCACCGGAATGAGGGATTGTTATAAATAGTCCAAACAATTAGGAGGTAAAGTAAGACTTCTGCAACAACAAGTTTGAGGTTTGAATAAGGAAAAGTTTTAGGCTTTCGAGGGAGAAAAGTCATCTTTGTCCCTGCCGGGTTCTGAAAAGCCTCCCAGCGGAGGCAGAAAGCGGAAGGCCGTCTGAGGCAGAGTTACTCCGGACACCAAGTGCTTGGGTGCTGGGGCTTCAGGCTCCCTCCCTGCCTGCCGTAAAGCACAGCCTTTCCGGCTGAAAAGCCTCCCTCCCCAGTGGCTCAATTAACCGGATTATTGTTTCCTACAGAGAAAAATAACCTCGCATTCAGCTGAACCCTGTCACGGCAAATGCCACGCACAATGAAACTCACCATAAAAGAAAAGAAAGCAAACAGGGGGTAGGGTGGGCGGGAGCCCCGGCCTACAGGGTTATTTTGGGAGAAGTGGACTGTTCTGTTCCAATCTTTCCTTGGGAGATGGAGAGGGGAATGCCAGCCTTGTTTAATTAAGTGTTTTCTGTTAAGTCAAACCCAACGAAAGTAGAGGAAAACGAAATAATGTAGCTTTGTCTGGTCTACATTGGACCTCAGGAGCCGGGAACAGATGGACATTTGCCCGACCGAGGGCTGTTGCGCGGGTGGGTGGGAGCCACAGCGGGCACAGCGAAGCCGGGAGCTCTGTAATGCACGCAGCTCTTTGAGCCCTGGGACGATGGGTGTTTCTTGCAGCTCAGAGCACTCTCGGATGCCGGCATTCCATCCGCTTAGTTCGAAATTGGTCTAGGAACCCATCTCTATAGATTCCTGGCCAAACCAGGGTCGGTGAGGCGTGGGCACAATTGTCTGCTCTTTGAGGCGATGCGGTACTGTGGAGCAAACAGGGTTTTGTTTCTTCACGCCAGCCTTGCACCCAAACGGAGCCCACCCTCCAGATTTCTGTGCTCGGCCGGTCCGCCCCAGGCAGTCTTTATCCCCCACCCCCCAACCAACCCCCGGGGAGGCGGGAGAAAAAGGGTTGAATTTTTTCAGGGAGCTGCCAGCGGCCTTGGCCCTGTGCACTTCTTACACCATTTTCTCCTCGCTCATAGTTCACATCATTTTGCGGGCAGGGAATCCTGGCACCGAAGGCCGTGCTGTAGCGTCCCCACGGGTTTGGGTATTATGGGACCCCAGAGGTCTCTGCCCTGACGACTGGGACCCGAGGGTGCAGGCACTGCCCAGCCCTGACATGCTTTCTGTGTCTCCGCAG
Seq C2 exon
TGAAGGAGGAGGGCGACCGCGAAATCTCCAGCTCTCGGGACAGTCCTCCCGTGCGCCTGAAAAAGCCACGCAAAGCACGCACCGCCTTCACCGACCATCAGCTGGCGCAGCTGGAGCGTAGCTTCGAGCGGCAGAAATACCTGAGTGTGCAAGACCGCATGGAGCTGGCCGCCTCTCTGAACCTCACCGACACGCAGGTCAAGACCTGGTACCAGAACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013209:ENSRNOT00000017725:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.801 A=NA C2=0.427
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(89.5=68.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]