RnoINT0093367 @ rn6
Intron Retention
Gene
ENSRNOG00000046959 | Mnx1
Description
motor neuron and pancreas homeobox 1 [Source:RGD Symbol;Acc:1588091]
Coordinates
chr4:2377862-2380798:-
Coord C1 exon
chr4:2380582-2380798
Coord A exon
chr4:2378023-2380581
Coord C2 exon
chr4:2377862-2378022
Length
2559 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CTTGCCCTTTCCGTCCACAGCCC
3' ss Score
12.43
Exon sequences
Seq C1 exon
TACGGACACCCGGTCTACAGTTACTCGGCAGCAGCTGCAGCGGCCGCGCTAGCTGGCCAGCACCCGGCGCTTTCCTACTCGTATCCTCAGGTGCAGGGCGCGCACCCTGCTCACCCTGCCGACCCCATCAAGCTGGGTGCCGGCACCTTTCAACTGGACCAGTGGCTGCGCGCGTCTACTGCGGGCATGATCCTGCCCAAGATGCCGGACTTCAGCT
Seq A exon
GTGAGTACCCGCGCCGCACCAGTCCTGATGCGCATCCTCTTCTCTCGCACCCTCTTCCTTTTGCCCTCACCTCCCAGAGAGCTGTGGAAGCGCAGCGAAGCCGCGGTGGCTCATTCCTGGGCCTGTGAGGCTTCCCGTGGGCCGCACAGAGTGAAAGGAACAGAGAATTATTAAGATGGCCACGAGCAGGCCTTGCCTTCTCTTTCTCTCTTAACGGGCAGGGGAGGTTGGAGGTGTGAGCCTGAAATCTAATGATTAACCTGCAAGCTGGAGAAGGAAGTGCACGTGAAGGCTAGCCAAAGAAGGCCTCGATTGGGGCAGGTTTTGGGGGTCGCTGAAACCGGAACATGGACTTGGTCAGGGGTTCATTTTAGGCTAAGAATAGACACATCATTGGGTCCAGAAGTAGCTCTTCCCTGGCCCTTGTATGGACTCTGCCTTCCTCTGAAGGGCAAGGCGTTTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTAAGGGTGGAGTGGGGGTCCCTCCATACAATGTCTGTTTTGAATATAGGGTCGCGGGGACTGTAAATAGAAAGCGCCTGGCTGGGAACTCCAGGTGCCCAAGCCCTTAGGGAGTTCCTGTCCAAGGTGAAGATAAGGAAGGTCCAGCCTTCTGCATCCTCTCTGTCACTCAAAAGGGACAACCTTGCAGGGCCATTTCAGACTTCCCTGGCACACCGGCGTCTGTGTCAGGCTCCGTAACTCTGTCCTGTTCTGTACCCCACGCGGACGGGGCACGTTGCCTTTCCCTTCGGGATGGAAGAGAGGATGTATGTGGCTTTCTCCTGTCAGCCGCCCGACACCCAAACAAAGAGACCCCATTGTTTCCGTCTCAGTGGGTTTGTTTAGACTGGGGAGATGCAGGCACTGGAGGGGAAAAAAGCAAAAAAGAACACAGAAATAAACACTTGCCAGAATTCAGATTCCTCTGCTGGAATTGGTGGTTGTAACTAAACAGAGAACTGCAGAAGTAGCATGGTGGTGAGAGAATCTCAGCCTGCACACTTGTTTGCTCGCAGCCACCCAGGTTTTTCCCAGCTTGGCTCCAAGAAGGCCAGCCTTGTTGATCTCAGCAAAGAGGAGAGACTCCCATAAACCTCAGTTGTGCTGCAGCTCAGACATCTCTGAAATCATTCCTATCCACTAAGTCCTGGGCAGGACTGGAGCCTGGCTGAGGAACCCAGGTTTCAGATGGAGAGCTATGTACGTACGGATGTCCACTATGGCTGCACTTTTCAGGCCTGAGAGGCATAGTGGTCCAGAGAAGAGCTGGCCAGTGGTCAACAGCAGGCCTCTACCGGCTCTGGGTTTCCTGGCTACAAAAGTAGTCTCTGGGAGAGAAGGGATATTTTTGTGGAGCCCATGATCACTCAAAATCCACGCAAGTGGGACCCCTTTGCCAGCACACCCAACCCATGATGTCTCATGGTGTCTGCACTTACAGTATGGCCAGATCTACATTAGAAAAGGGACCCTAAGGAATGCAGCAGAAGGTGGCCAGAGGTGTTCTGTTCCTGGGACTTCCCTCTCACCTGGGAAAACTAGTTTGGTTTTTTTTAATTGGTTGTTTCTATTGGATGGCATTTCCCAAATGATCCCTTCCAAGACAGCATTTTAATTAGAGTTCTAATGTATTGTCAAGTTGGGAATTTGTAGCCTTGTTTAACTAAAGAGGGGGCGTGGACCTTCCTATAAAGCAAATTACCCATCCCAGGGGAGCCTGAGCTCATCCCAGCCAGGGGCTGGCCTCTTTCTTTCCTTTGCTTTCTTTCTTTTATTGTCTAACACTCTTCGGACTCCTGGGAAATCAAGGGAAGTTTCATTTTGAGGTCATAAAATTCTCTGTGATGTAACCGTGCGAAATTATGTAAATAAAGCTGGACAGATCTCCCGGAACACACAGAAAGCCAGATCCACTCACAGCTCAGCCTTTAATTTGAGTAATGAGAATCATCCCAACAGGCTTCCAGTGCTCAGCCTTTGCTCCTAGCACTAGGAGTGAGCTTGTCAAGACAGAGGCGGAGACTCCCTGATGAATGCCTATTTAGACTCTAGCTTCAGCCCTGTCCTTCCCTTTCTCCTTCCCCCAAACTCCTTTTCTCTTCTGCTTAAAGCAGGTGGTGGCAGAACCAAGAGGATCGGTTTTTCTCCAGCTTGAGGTGGGGCGATTTGGGCTCTTGTTTGCTGGTGCTGCCCAGCAACCCAAGCCTTTAGACCAACCCTAGTCCTACCAATGTTCATTCAGGTGGCCATGGCGCGCAGGCAACAGGCCCTCTTTAATCACGACTCTCAAACGAGATGAGCCCTCCGCTTCCACTTGGTGTCTTAGTTGTGGGCCATGGGGGGTAGGCACTGATGCTGAAGCGTCTGTTGGGTGGGTGCTGGAGGTTGGACCACCAGAGGGAAAAGGGCAGCGAACGGAGGAACACCCTCCCACCCCCACTCCCATCCCGACCCTTGCAGTGGACACGCTTACAGAGGCCTCTTGCCCTTTCCGTCCACAG
Seq C2 exon
CCCAGGCGCAATCGAACCTCTTGGGGAAGTGCCGAAGGCCTCGCACGGCCTTCACCAGCCAGCAGCTGTTGGAGCTGGAACACCAGTTCAAGCTCAACAAGTACCTGTCGCGACCCAAGCGTTTTGAGGTGGCTACCTCGCTCATGCTCACCGAGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046959:ENSRNOT00000072287:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.148
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=77.8),PF088806=QLQ=WD(100=51.9),PF090735=BUD22=PU(23.8=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
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]