MmuINT0005391 @ mm9
Intron Retention
Gene
ENSMUSG00000024269 | 5730494M16Rik
Description
RIKEN cDNA 5730494M16 gene [Source:MGI Symbol;Acc:MGI:1913898]
Coordinates
chr18:25294540-25299107:-
Coord C1 exon
chr18:25298947-25299107
Coord A exon
chr18:25297641-25298946
Coord C2 exon
chr18:25294540-25297640
Length
1306 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ACTCTATTTGTGCCTTACAGCAA
3' ss Score
8.51
Exon sequences
Seq C1 exon
GGTTAGCTCATGACACTGAGATATGGTTCCTGGACAGAGCATTATACTGGCACTTTCTCACGGATACCTTTACCGCCTATTACCGCCTGCTCATCACCCACCTGGGCCTGCCCCAGTGGCAGTATGCCTTTACCAGCTATGGCATTAGCCCACAGGCCAAG
Seq A exon
GTAAGGAGAGAACCCTGCCATCTCAGAATCTGATATGTACCAAGACTATTCTGTGGAAATGGTTACCTTCCGAATTCCCCATCTGCTTTAAATAGATCAAGGGGTAGAACCAATATTTTCAATAAGCAGGACTAAGTGACTCCAGTGTTTGCTAATAGCCTCACATGATTTAGATTTAATTAAGTAATCAGGATCAACTGGAGTGTTGTTTTTAATTAAAATGTTACTGAGGGCTTGGGCCTAGTCAGTCATTATTTGGATTGACAGTACACACACTTAGAAAGATTGACAAGTCTCCAGGTATGCATCCCCATGGCCCGGCATAGTTGTCAGTGTAGTGTGTATGTACCTGAGATACTCAGTCCATGTGAGGCATTGGTAGCATGTTTCTTTTTATATTTTTACTAACACAGATATAGCAATTCTGCACTCTTGGTTTTGCCTTAGTGCTCCATTGCGGAGTACCCATAGAGCTGTCTTCTATATGTTACAGATTTGGGCATCATTTCAGAGATTTATAGAACGTGCCTTGAAAATGCCAAGCGCTGGCCAGAACTTTAGACCAGAGCGAACTGGTGTGGTTTAAAGAAAAATCACAGTGATTTCTTATAGCACTTAGTCATCAAAAACTCCCACTGTATCTATACTAGCTGGCCTCATTGTTCTCACAGATTTTCATAATTACAGCTTCCATGTAATGTGGTGTGAACTGGTTTTGATCAAATCATGGCAAAATATGTGGCAGCCCCTTTCCCCAATAGCTATAATTATTAAAAAAACAAAAACAAAAACAAAACCAAATCACTGCAGGTATAGAGTACCAGCACACCGCTTCCCATAGGAAAGTTCTGCACGGACCTCTGTTGCAATACCCATACTGGGCACCGTGTGCATTGATGGCAAGCAGGACAGTGTCCTTGGCAGGCTCACTAGTTCTAAGGCACCAATAAGTATACTTGGCTCCTTAGTTCTCATAGTACCTTTATTTTAAAGGCCTTAAAAAGCACCTTATGTGCTTGACCAAGGGTTGATGGCATCCCTCACCACTTACTGTTCCAGTGCTCATAAATTTTCAAGGCAGTTTTTCATAAAAATGTGTATAAGTTCAATATTACATCACTGAAATGTACTGGACCAAAAATGTTTTATATTTTACAGCATTTTCAATTTTGAAATAATCGCATGTACTTTACCAGTTGACACTGAAAAAAAATGTAGGTTAGTGATAGTTAATTTGTAATGTCTGTACTGTCGCCTGCTCTCCCCCATTTCTCCTTCCAACTGAGACTCTATTTGTGCCTTACAG
Seq C2 exon
CAATGGTTCAGTATGTACAAACCCATCACCTACAACACAAGCCTGCTCACAGAAGAGTCCGACAACTTTGTGAACAAGCTAGACCCCAGCAAAGTGTTCAAGAGCAAGAACAAGATTTTAATCCCAAAAAAGAAAGGGCCTGTACCACCTGCCAGTGGTCAGAAAGGGCCTGGGCCCTTACCTCCTCCTACCTCTAAGCCTACCACAGGCTCTGGAAATCCTGTCCGAAAATAAGCATTCTATCACCTCAGTAATATCCAGACACAGATGGCCCTGTGGCAGCGGCATTCTCCTGAGAGACCAAAGCCTTAGGCCTTTGTTTCCACTGTCATTAGCTAGGGGCTGGGACGATCACACTGAATTCTCCTCAGGAGTTCCTTCCTCTGTAGGTTGTGACAACCTCATCTCCAAAGCCAACGAAGACTTTCAGATGTACCTGAGCTTTCTTATGTCTGTACCCAATCCTTAACTTCTTAGCAGTAATTAGAGAGGTCACCCTCCCAAATAAACCCATGGTTTGACTCATGAAGCATCAGTATCGACTAGTTATGTGACCATCTCAGTTAATGAAAATTGCACACCTTCAGTTGCATTCACCACACTTCAGCTATGCACCTGATGGTAGAGTCCATATTGGACAGCACAGAAAGGGGAAGGTTTTTGTCACAGAAGTGTTTTGGACAACATTGCATGTGAACACGTTCATACTGTCCTTCAGATACAATAACGTAATGCCTTAGTTTCATACGCTTTATGTTTTGAGAAAACATTTTCAAAGACAGTCTTGTGTTCTTTACAACCTAGACCAGGAATGCTTAAAGGTGTGATCCCTAGACTTAGAATTGTGCACCAAAGTCACTGGTATCATGTGGGGATAAGATGATTGGATTCCAGTTCTGATCTGCAAAATAAGAATTTCCAAGAAAAATTCCAGGTGTCAGGGTTTTCTTTTTAAGACAAGGTCTCACTATATAGTTTAGGCTGACCTATAGCTCACACACCCTATATAGCTTCCTGACACACACACACACACCCTGTCACTAACGTTTTAATTACAGATGTACAGTATCATGCGTAACATTGGATTTTTAGTCAATTTAACAGTACTTCTGAGTTTGAAACTTTCAGCTTAAGATCTCAGTGGTTTCAAACCACAAAGTTTCTTTGTAATTGGGTAAAGCACGTATAACTTTTTTGTTTTTTTTTTTTTGTTTTTTTTTTTTTGAAACAGGGTTTTTCTGTGTAGTCCTGGCTGTCCTGGAACTCATGGAGTTGTGGCTGCTAAATGACTTAGTGCATAGAGTTAGTTATCCTGTCCTTCCTTTGTAATGTGACCCTACGGTTGCTAATTATGACCTTCCTGCTAGCAGCTGTGATCTCTTAAGTCGTTCATTTTTTGCTTGCAAGACACCAGTTGGGTTCTCACTTGTGCCTTTATACCTGTCCTTTCCTTGTGAGGTTCAGCTCTAGTCTGCCTCTACTCAAAGCTCAGTGAAGCTCCAACTCCCCTAGGTGAGCAGTGATTTTTTTGTGCTTCTCCAGAAAGCCATCCTAATCAATTCTGCATTAACCCAAATAAATGTGTCATATTTTAGGGCAATAAATTAGAATGAATGAGTAAAGTTGTGAAAATGTTTAACTTTAAAAATTGAGAAGACAATAATTGCCTTATTTTAGAGTCTGGATATCTTTCACTCATCTTACGGTCTGTGTCACAAAACCATCAAAATGAAATAGGTTACACATGAAGCCATGAATGCCACTGGTCTTTTCTGCACCCAGAAACTATGTTGTACCCAGATACTACCTAACTGGATATCCCACCAATAACTGTCTTGATAAGGCTCTAAAAGACCAAAAAGTAACTCGTGAGACATGGTGGGATGTGAAACTTCTTACCCTGTATCTAGGAAAAGTTCTTCAACACCATTGATGCTGTTTCTTCAGATGTAAAATGAAAATTTATGGAAGGGCTATAAAACTATTAAATAATGCAAATGGAGTACACATGGAGATGCTTTCAGTAAGCAACAGCTTTTAAAATAGCATTCAGAAAGTCCATTTTCTCCCCATGAATTACCTAACCAACAGAACCAATTGCTTTACCAGATGATTTTTTGACAAAATTGATTATTTTAACACCTATCTTTACTGTCTATTTCAAAGCCATTAGCTTTCTTATAAAATCGCAAAGACATTTCATTCCTGAAGCAATTTGGTACTTTTGTGGTGTAGTTACCTCTCTGATAAAATGATTTCTAATCAAAACTAGAAATAGCTAAAGAATGGGGGATAACTGAAATTTAATTGGATGACAGCCTCCCACAGCTTCTGTTAGACCTCCTGAGGAGAAGGATCAAGGCTCTCATTTTCCCAACTGACCACCCAGCCCTGTCACAGAGCTACCTACAAACCTGGCCCTTAGTGCATAGTTTGTTCTACTGTGTTTTCAGGACCTGATGGCTTAATACACATAAGTTTACCCGTGTGTATTTCTGCAGGCCAGAAGTTCAATGTCAGTTTTATAGAGCCAAAATCTAGTTGTCACTGGGCCAGGACTTGGGAGGCTCCTATAGAGTCTGTCCCTGCTTCCTCCTGCAGATTGTTGTTTGGGTTCATATCACTTCAGTCCTGTTGCTTTCACTTCGTCTTCTCTTTCTCCAAATCTCTTCTGACTGTCCTTTATAAGGACACTTATGATTGGATTTGAGGCATGTCGGACACTACAGGATGATCTTCTCACACCTGCAAGGAATCCTTACAAAGGAATTGTACATTTCAGAGATTAGAACCGGAGGCCCCAGAGATGTTGAGTCAATGTATTACAGTAGTGTTTGCTACTTCACCATTTCAAGGGACTGTGGATATAAATGATTGTTTTGAAGGCCATAACGGATCTATAAGCCACTTTAGAGCTGGGAAACTAAGCTGCCGTTTGTACCCCTGCTCATCTTCTCTACATTGTGTTCAACAATGAACCTTGAAGAAAATAAAACCCAGGTCTCCAGCCTTCCCCAGCCCCGTGCATGCGCATTCTCCTTCACCCCCAATTCCTTTTGAGTAAGTTACTTGTTAAAATAAATCCTTAAGGTTCAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024269-5730494M16Rik:NM_001004361:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.442
Domain overlap (PFAM):
C1:
PF093465=SMI1_KNR4=PD(19.0=53.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCACTTTCTCACGGATACC
R:
TCGGACAGGATTTCCAGAGCC
Band lengths:
342-1648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: