MmuINT0078739 @ mm9
Intron Retention
Gene
ENSMUSG00000000938 | Hoxa10
Description
homeobox A10 [Source:MGI Symbol;Acc:MGI:96171]
Coordinates
chr6:52181196-52190853:-
Coord C1 exon
chr6:52190277-52190853
Coord A exon
chr6:52182780-52190276
Coord C2 exon
chr6:52181196-52182779
Length
7497 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGTATTCTCTTAAACTCCAGGCA
3' ss Score
7.28
Exon sequences
Seq C1 exon
GCCAGGAGAACTGCTTGCAGGCAGGCGGCGGGCGGGCGCGGGTTTGATTTCTGAGCCCTATAAAAGCCCCATCCTCCGATGGCTGTGACAATGTGGTCGTAAACCCGTCCAGGGCCGGCCAATTTGCATATTTGGAATGCGCCGCTATAAACCCGGCTGGGGTTTTGCAGCAATTTCTTAGATGTAAAAATGAGATCTCAATAGCAGCGGGTTGGGCACATTCTCTTGCTCTTTCTCTGCCCGGCCAGCTTCCTTTTCTGGGCCGCAGGCTGGATCTCCAGCCTCGCCTAGGCTCGCAGCCGCCACGAGATGGCGCACTCCCGATCAATGTCAAAGCCGCCAGGGAGCCCGGAACCCCAGCGAGATTCTTGGCCTTTGTTCGCTTCTGATACTAAGAGCAGCACGGTACGTTATTTCACTTGTCCGGCACCCCTTCGTATTCAAAAAGAGGGGGGGCCCCCGCGCTCAAGAAGTGATTGAGGCTGAAATTTAAAGCAAAGCGCCTTCGTTAGGCCTTTCCGCATCGCGGCGTGGAGAAGCTGCTGCCCCTTGGCAGTGATTTCTGAAATGAGTCAAG
Seq A exon
GTAAGTGGCCACAAGTTTATCAATTTCGCTGTAGTAGAGGTGGGAATGGGAACGTAGCTGTCGCCTAAGCAAAGCTCCGGGCCATGATTGAGTTTCTGGGGTGATGCCCGTTTGCCACCCTCCAACCCCCGCCGTCCCATCGCTCTCTATGGTTGGAAAGCAGTGGGAGGCCTAAGTGGAAAAGTTGTCGGTTTTAGCTCCGTGTGCCAGCATTTCACCCAAGCTTCTCACCACAGGCGATCTTTTGGTTTTGCTGACATTTTCCGATCTGAATAAGTTAGATATGGTCTGAACCCAGACGAAAGGAACTCAGCTGTGCTGGGATTAAGGCTGTTAGGAGAGGAAAGAGATGGTAGGCTAGGGAAAACAAAGTTTCTCCTTGGAAACAATGGGTGGTCAGCGTCTGTGGCCGTTTGAGCCGGGTTTCTCCTCCACCCCCGGGGCAGCACGCCAGAGGTTACCGATTTTCTCGTAGGTGCAGCCTAGAAGTCTGCCTAGCAGACTAGCGCAAAGCTTTGTTCCCAAAAAAGGCCATTCAAAGAAGTCGCATTTGGTTTTTCTGAGGATGTTGGAGACAGCCCGGTACTGCTGTCTCCAACCGGTATTTGGAATGTAGCATCCCCCTGGTTGGCATTTTCCAACAAAATCCCCTAGCCATTAAAATGAGGAGGGACTTCTCATCGCATATTTTGCAAAATTATACAAAAATATACTGGTAAATATCGTTATATTTGCTTAAATGGCATGGGGGATTAAGTCTGACTCCTTGTTTTTGTAAAAACAAGTTTTAAATAACCAAAGTACTTATATCTTGAAGGCCAGATTTAAAACTCGCGTTTCTCCCATATTTAAAATTTTATTTTAACGTCTTTTTATTTGTTTCTCGAAAAGTTTCTTTCTTTCCCCAAATATACAGTGCCATGGATAAGTAAAAAAGAATTCCATAACGTGTAGATGCTTCCCCTGTTTGCAAGTGTGTGAGCGAAAATTGTGCTTATGAATCACTAGTTTTGTTAAGCATGGGCTCCTAAGCCATGCCAGGAAAAAAAAAGGGCAACCGGAGCAGCCGTGAGGGCCCACTCTGTGAAGTGCAGGCAGTAGGACGGGCACCTTCTTGCACTCCCCATGAGCCTGAGCTGCTTCCAGTGTTAAGGCCAGAACCAGTTCCTTCCCTACAAAACTAATAGCACTGGTACTTCAAAATGTCTGACAAAAGGACGCAATACTTGCCCTGCTAAAGATCGAGGGCCAGCTCAATAGTAGGATTTAGAGGGAAAAATTTTTTTAAATATTTTAAGGACAGATTGAACCTGGTAAACAACAACAAAACAACAAAAAAATCAAACAAACAAAGAGAAAGAAAGAAAAGCCCGCACATTAAATATGGAATGTCAACATTCATAAAGAAAAGCAGAAAAGCAATTTTGCTCATGGAAAAAAATTCTAGTTATTCATAAATATATGAATGGGAGAATTTCTGAAACTGTGTTAATGCTGGACACATTGAAGCTGTGTTCACTTTCCTTCATGAAGCCTCAATCCAGCACTACAGCCCCCTAGATAGCTGAGAACCCCAAAAACATTGAGAATGACTTTTGGGTACAAACAGATTTGTTATTTCATTCTCAGGACCTGGATTTATTTATGTATTTATGTATTTTTTTTTATTTTTTGGTTGTTTTTTGTCTTGTTTTGTCCTGGTGAAAGTTATTTTCCTATTAAGAATGTATTTGGGAAGCTTGTAAGGGCCTACTCAGGAAGAGAATCTGTTACTAAGTAAAAAGCAGAATAATGGTTACACTTTCTTGATTCGTTTGCCTGGCATTTCTCTCGGTGGAGAGAATGTGTGTTATCACCAGGAAGAAAACCGACAATATTTACTCCCGAACAAACACAGACTCTGGCGGTGGCGGCATCGATGTGATTGCTGAACAGGCCTGGTTAAGGCCAGCAGGCACCAAGGGTTTTAGGTCAAAGGCATCCCAAGAAGGAAAGGGGAATTCAGCTGCTAAAGGGAAGGGCAAAGGAGAAAAGAAAGAAAGGGGGATGGCTAGACTTAATCTCCCAGGGATGGTGAATCTCCATAAAGGCAAGGAGCTCAATAAACAGAATATTTTTATTGAGGAGGCTAACACCTCATTGTTGTAGTCTAGGGAGACACTGGAGCCTTCAGGCTGCCTGAGGGATGCCTGGGGCTCCAGACTCAAAAAAGCCCAGCAGGCACTCAGCCCACCGCCACATTTAACTTGAGCTTCTGAGTCACTGTATTTACTTTAAGACAACCACTCCAGTCCAGTCTGCCAGATACTGGGCGGTGGTCCATGGTAGGTTCTGTTGTTCCCTTGCTCAGCCAGTCTCAATGAGAGTAGGACCGAGATCCCCAGTCAGAGAGGGGTTGCTATAAAGGCTCACACACTGAACAGGAAAAGAAAGGAAACCCTAAATTAAGCACCCTGTTTGGTTTCTTGCTAGGGGAATGTTGAGAACAACGTAACTGCTCCCAAAAAGGTTGGTGAACATTCAATTACCAATGCCATGGTCTGTGAGGCTGGTAGCAAGTGATCCAGTTTCCTCCTTCTTTAGTAGAGGCAGCCGTTGTAGTGTAATGCAGTACTGGAGCCGAGCCTTTAAACCTTGCCCAGCAAGTGCGGGCTTCTGAATCCCATACAACCTAGAAACCCATTTGGCTATCCTACAAGGCCTTGGCTAGGACTAACCTAAGTAGCTTGCAGTTGGGCACCTGGCTTGTCTTACCAGACAAATAGGCAGGGGCCCGCTGAGTCCAAGGAGAGCCCTCTAGAGAATTTGAGGGAACGGCTTGCGGTGGGTGATATGAACTCTTGGAAAATGATGGGTCAAATCATGGGAATGCACAGATGTAGGGGGTTTTGTTTTGTTTTGTTTTGTTTTACAAGATAAGTCAGAACTACCCTTGGACTACTCAGAAGGTTCCCTGTAACCCTGGAAGGTTAAGAAAGATGCTGTCTCTATCACTGTCTTTTACCTTATCCTTGTAGCCTCTGTTATCTCCAACACACTCTTCAATGGCCACTGGTTCTTTAAAAACCTCAGCCAGGGAAACTCCTTTTTGTGTGAGATCCAGACAGGGACGGCTCAGGAGCCTGGCTCACAGGCCTGCTGACCTACTAGAGCTCCTTTTCCTCAAGGAATAGTCAGCGCTCTTGGGACCCACTTTCCCACATAACAGCTTTCCAGAGAGGTATCAGAAGTGCTGGAGAGTCAAGTGCCTTTTCAAGCAGTCCCAGATTCAGGACATTTCCAGGTGGCACTGTTGAACACAGGAGTTCCACCTATCTAGTGAACAGAGCAAGGACCACGCACATCTGGAAGCTTAAGGTAGGGTAACAAGGCCTATCTGTGTGAAAATTTGCCTTGGCCTTGGGTACAGAAGCAAATCAGATAGTTAATGGTGTCTCACATAGACCCAGCTTTTATTTTCCAGAGAGGCTGTCTGCAGAGAGCTGCTGCTCATCTGAATTTCTTTCTCTCTTTCCTTTCCTCCCTTGTCTCCTTGCCTCCTTCTTCCCCTTCTGTCCCTCTTTCTTTCTTTATCCCTTTCTTTTACATTTAGATGCTCAGATACCCAGGCCTCCCACCCATCACCTCTCGAGAGACAGAGGTAGAACTGGCAGAGATTCCTCTTGAGTATTAGCAGAGGCATAGCCTCCTGGGTGTGGGCTTGCCAAGCAGCTGCAACCAACTGCAGTGTCTTGCATCTCAGAAGCCAGAGCCTAGCCTCTACCTGGTCAGCTTCCCTGTGTCCTCTCCCTCTCAGAGTGCTATCAGGGTTGTTTTTGTCCTGGATTCCTTTTGGGAGGAACCAGAATATAGCCAACTAAAAGCAAGACTCTCTCCCTGCCATTTGCAGAGGTCTGAACAATGTGGTTCAAGGGTCCTGGGCAGTCAGTAGCTCTCTAGTTCCAACTGGAGCTGGCAGGACTGGGGCATCCTGGAGACCCTGTAACCCACAGGTCAGAAGTAAAGCATCCACTATGCAAGCTCCATGGATCCTGCCGAAAAAGGTCACCTTTCCTAAGTTTGATATAAGGTCCACATTTGGGGGCTAGCATGCCGTAGGCTGACCATTTTCAATTGCCCAAAGGTAGCACCCTGGGCTCTAGAGTCTCTTATAATAGGGCCCAAACCCAGCTCAGCCTCCTAGGGAATGGACTTCCTCATCACCACCTTGTTAAAATGTGCACAGTATACGACAAAAATGGCTGGGAAAAGGACTGCCCTCGCCATGTCTTTGGGGGTAGAGTGGGGTACAGACAGGTTTGGTCAGAACCTCCTGGAGCCAAGGAATGTTTAGGCTCAAAGGAGAGCGAGAGAGAAAGCAGTGTGGCGGAGGTATTTGCTAGACACATTCTCCCAAGGTTTTCCTTCCAGTTCTGCCAGCACAGAAAGGCCAGAGACCCAAAGCCAGCATTCTAGTCCTCTAAAGGTAGAGGATGGGGAGTATGCGTTTGCCTCTGAACTGTGGTTTGGGAGGTCGGGAGTGGTGGTGGTGGTGGTGGTGGGCTCTTGCCAGTCTATTGATTTTTCACCTCACTAAGGCAGCTGTGCAAGGTTGGATGACAGGAGTAGAGAGCATGAACCGATTGATCACAGTGAAGGAGAAAAACCTTCACTGACCAGAGGATGGTGTAAGACAGTGAGGACAGAGGATCCAGGCATTGATCATCGGCCGATGGATTTCGGACAATATTCATTCTTTGTGAGATGTTTGAGGCCGTACTGGTTTACTGTAGGTTCTGGACCGTCCAAAGATCTTGACAGCCTTAGTATGACTTTTTTACCAGCCACTTTGGGAAGCCAAACTTAAGAATTGAGGCCAGCTCCAGGCCCAGAAATGTATAGGATAGCTAGCCTGCTACAGGGCCCGTTTAAATGATCAAGGCGACGGGGACTCATGGCCACTCCATAGCAGACATGGGAGCACCCAAGGTTGGCTGGGGTGCACATCATAAACACTCCACTTGTTAACAGCGCAGAGCCCAAGGGTGCTTCCAAATAGTCCCTTGCATGGGGGGGGGGGGGGTACAGGTTCAAGAGCCAGGTCCCCCAACCTCCACTTTGAGGCAGCCCCCACAGTTCCGGCCTTTGAGCCATAGGTGTCAGGCGTGCGTCTTCTGGCCCATCAATACAGATTACATATTTATATCAATCGCGGGCTCCGAGGGCGCCCTCAGAGAGCGGCCCCGCGCCTACGAAACCAAACTGGGAGTGGTCGCGTGGAAACTCTGGCTCGGGATTGGCTGCAAGCGCCCGCCGCGGTGCGGGGGGGATTGCTAATCGTATTCAGCATGTTTTGCACAAGAAATGTCAGCCAGAAAGGGCTATCTGCTCCCTTCGCCAAATTATCCCACAACAATGTCATGCTCGGAGAGCCCTGCCGCGAACTCCTTTTTGGTCGACTCGCTCATCAGCTCAGGCAGAGGCGAGGCTGGTGTTGGTGGCGGTAGCGCGGGGGGCGGTGGAGGTGGCTACTACGCCCACGGTGGGGTCTACCTGCCGCCTGCCAGCGACCTGCCCTACGGGCTGCAAAGCTGCGGGCTCTTCCCCGCGCTGGGCAGCAAGCGTAATGAAGCGCCGTCGCCCGGAGGCGGTGGCGGTGGTGGCAGCGGGGGCCTGGGTCCTGGGACGCATGGCTACGCGCCCGCGCCCCTAGACCTGTGGCTGGACGCGCCCCGCTCCTGCCGGATGGAGCCGCCCGACGGGCCGCCGCCACCGCAGCCACAACCCCAGCAGCAGCAGCAGCAGCCGCCGCCGCCCCCGCCGCAGCCACCTCAACCCCAGCCACAGGCCACTTCGTGTTCTTTTGCGCAGAACATCAAAGAAGAGAGCTCCTACTGCCTCTACGATGCTGCGGACAAATGCCCCAAGGGCTCGGCCGCCGCTGATCTGGCCCCTTTCCCGCGGGGCCCGCCGCCCGACGGCTGCGCCCTGGGCGCCTCCAGCGGAGTGCCAGTACCCGGCTACTTCCGCCTGTCGCAGGCCTACGGCACGGCCAAGGGCTTCGGCAGTGGCGGCGGCGGCACGCAGCAGCTCGCTAGTCCCTTTCCTGCGCAGCCCCCGGGGCGCGGTTTCGACCCGCCGCCCGCACTGGCCTCTGGCTCGACCGAGGCAGCCGGGAAGGAGCGAGTCCTAGACTCCACGCCACCACCCACTCTGGTTTGCACCGGTGGCGGCGGCTCGCAGGGCGACGAGGAGGCACACGCGTCATCCTCGGCGGCTGAGGAGCTGTCTCCAGCCCCTTCAGAAAACAGTAAAGCTTCGCCGGAGAAGGACTCCCTGGGTAAGCAGAGCTCAACCGAGGGCTCAAGTCAGACGGGCAGACAGACAGACAGACAGACCCACAAGGAAGGAGCAGAGGACCAGAAGCCCGCGCGGCAGCCGTAGGCCTTGGCCCAAACTGACGGCAGGCTGACCTTCTGAACTTGTTTTTAATATTTGGGCGTGGGGATGCTGTAAAAATCCACGTCCGGCTTAGGGCCCCACACCAAGACGTCCTCAGCTCTGGCCCCTGCTCACCCAGACTTGGGGGATGAGAACACCAGCGAGCAGCCCTCCTCCCGTGCTTGCACTTTCTCGTGGCCCTGAGTACCCCCAAGCCCTGGTCCTTAGCCCAGCCTGCTCAGCGCGGCCCACGCGGGGGGGAGGGGCAGGGAGGAAAAGTGGCTCGCTTGCAGATAGCACGGATGTTTGTAAGGCATCCAAAATAAGCAGCCGCCAGAGCCAATAAATAAGCCCATTAACCGGCGAAGTTCGAGTTTACGATCCCCCATGCGTTTTTCAAAGTTTCTGGAGGGGCGGGAGTCCTGGTTGTAAGAAAAAAGAAAAGACAAATTCGGCCGGAACGCTTGGGCCCAGAGCTGAAAACCTAGGAATGGCCATTCCCCTTCTCCTGGAATCTGGTGCTGCCCAGCTTCACACTCCGGTTACTTGGAGGGACAGGAGCCAAACCCAAGCCCTTGACCCCAGAATCGGGTTTTTGGAACTTCCCCATTGGCCCAACTATGCCCTTCTCCTCTAGCCTGGGGCGATCTAGGAGGCTAGGGTAAGCCAGTGGAGCTGCCAGCCTCTCGTCCAAAGAAGCATTCCCTTACCCCAGCTTGGGGGCCGGCAGGAAATGCTTCCCTGCCCCTGGGTGAGAGGCAGAGAAAGGCGTTAAGTTCAAGATGTACGGCCTCGCCTCCTCCGGCCTTTCATTCTCTCAGCGCCCCGCGGCGTGGTGCTAAAACAGGTGCCTGGAAAAAAGTAGAGGAAAATGTAAATTGGGAGGACCGGGTGTGGATTTGAGGCCGATTTTGTCATGCCTTTTTGGAGGGATTTCTTGCAAAAGGAGGGAGGGCATAACCCTCTCTCTATGACTTCGGGCATCCCACTAAATGGGAAAGACCCGGAATTCACCCCCCTCATACAGCCCGAGTGGCCTCGACTTAACCTTCCCCTCTGTATTCTCTTAAACTCCAG
Seq C2 exon
GCAGTTCCAAAGGCGAAAATGCAGCCAACTGGCTCACAGCAAAGAGCGGCCGGAAGAAACGCTGCCCTTACACGAAGCACCAGACGCTGGAGCTGGAGAAGGAGTTTCTATTCAACATGTACCTTACTCGAGAGCGGCGCCTAGAGATCAGCCGTAGCGTCCACCTCACGGACAGACAAGTGAAAATCTGGTTTCAGAATCGCAGGATGAAACTGAAGAAAATGAACCGAGAAAACCGAATCCGGGAGCTCACAGCCAACTTTAATTTTTCCTGATGAAACTTCCAGACAACGTCTTTTCGCTTCCTGAGCGCCTGGACCCATCCTCTGCCTCCAGCCTCTGCCCCAGAACTCACACCTGTGCCGGAGCCCCTTTCTCCCTCCCACACTCGCCATCTCCCAGGCCGTTTCGTCTGTGCAGGGCTGGTTTGTTCTGGCTTTTTTTGTTTGTTTGTTTCTTTGTCTGTTTGCTTGGTGTTTGTTTGCTTGTTTTCTGGGGGAAAAAGCCATATCGCTAAAATTCTATAGAGGTTGAGATCTTTCTCAGTGTCAAGTCCTGAATGGGCTGGGTTTGCTGCCTCTGGGACCCACTGCTAGGAAAGGGCCCCAGTACTCCTCCACGGATCTGGTTTCCTGCCCAGCCCTGGGTAAACTTAGCCGGAAGCCTTAGGTCCCATTGTCGGCGCTGAGGTGTCTGGCCTGAGGTCAATGGTGCAAGGAGCCGCCACCGGGTTCGCCAGCCTGGAGTGCTGGGCTGTGTTTAATCAGGGAGTCCAGGCCTGGTTTCTCTTTTCTTTCTTCTTTTCTTCCTTGGCCAAGAGCAGAGTATGGAAGCATGGACATTCAGGTTAGCTAAAGGGCTTGACCTGGCTGGTTGAAAAAGTGAAAAAGAAATAATCAGTAAGATTAATTTTTCCTTCTTTTGTAAGATCTCCCAGCTTTAAATGAAAATTAAAATGGGCAAGAGAAGGAAACCTCTCTTCCCGTTTGCCTAAGGTCTTGCTTGCCTGGCTAAAATCCTTCATTCACCTTTGAGTTTCCATATCCCTGCTGTTAACAAATAATGCAGGTTTGTTTATACATGTGGAACTGGTGGATTTTCGTCATTAAAACTGTTACCAATTGGTAACACAAGAAAAGCACACCACAATTCTCCCTATTTAATGGAGGTTGTTTTTTTTTTTTTGCTTTAATTCACTTTTTGTTTTTGTTTTTGTTTTTTATTTTGTAGGCTTTCTGAAATTCATGGAAGCCTAGGTGGGCTGGGGCAAGCAGAAATAAAAATGAGAGAAGGGAGATATTGTTTGGATTTCCTTTATACTGTGAAGTTACATGCATAAAAGGGTCAAACCTGTAGGTGCAGAAAAGAAAAAAAAAACCTATAAATACAAATCTGTATAAATGTCTATTATTATGAAAAATTGCCAATCTTGTTTAAGCAAATGCATTCTATCGTTATTATAAATGTTAGTTCTAGCTTTATTTACTTCAAAATCTTAAATCAGAATAAATTAATATTGTATTGCTGCTGTGCGTGGAAAAAGATGATGTTTATGTTCTTATAGAATAAAAGCTGTGGAATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000938-Hoxa10:NM_001122950:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.325
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=62.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
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]
Other AS DBs: