HsaINT0076884 @ hg19
Intron Retention
Gene
ENSG00000215612 | HMX1
Description
H6 family homeobox 1 [Source:HGNC Symbol;Acc:5017]
Coordinates
chr4:8868773-8873543:-
Coord C1 exon
chr4:8872947-8873543
Coord A exon
chr4:8870072-8872946
Coord C2 exon
chr4:8868773-8870071
Length
2875 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GTGCCCTCTCTCCCCTGCAGCCA
3' ss Score
11.16
Exon sequences
Seq C1 exon
CCGATCAGCTGTCGGCGCGCACTCGCTCCCGGCCCGGCCCAGCCCAGCCCGGCGCGGAGGCCGCCGCCTGCCCTGCGGGGCCCGACGCCAGCGGTCCGGGTAGCAGCTCCAGGGCCGGCCCGCGCGTGCGCCCGGGAGCCGCGCGCCACCATCCCCAGCGGGGACCGAGGAGCCCGGCCGAGCCCGAGAAGCCCGCGGCCGCGATGCCTGACGAGCTGACGGAGCCCGGGCGCGCCACGCCGGCCCGCGCCTCCTCCTTCCTCATCGAGAACCTGCTGGCGGCCGAGGCCAAGGGCGCAGGGCGCGCGACCCAGGGCGACGGCAGCCGGGAGGACGAGGAGGAGGACGACGACGACCCCGAAGACGAGGACGCCGAGCAGGCGCGGCGGCGACGGCTACAGCGGCGGCGACAGTTGCTCGCGGGCACCGGGCCCGGCGGGGAGGCGCGGGCCCGTGCGCTGCTCGGGCCGGGCGCGCTGGGCCTCGGTCCTCGGCCGCCCCCCGGTCCCGGGCCGCCCTTCGCTCTGGGCTGCGGAGGCGCAGCGCGCTGGTACCCACGGGCGCACGGTGGCTATGGAGGCGGCCTCAGTCCTGACA
Seq A exon
GTGAGTGAGGGCGCGGGGAGGGTGGGTCAGGCGGTGGGGCCCGACTTCCTCCCTGCGCATTTGCTGGGGGACTTCGGGCTCGTCGCCGCCCGTTCTGGGCCATCCTCTCCCTTCTGTGGAACGGCGTCTGGGCCTTGTGGGGCCCCCAGGAGCCCCTGGTTGGGCTGGTTTGGAGGCCCACCCTCTGGGGCAGGAGCTCCGCTAACGAGGAGGTTTTGCAGGCCATAGCTTCACCCATTGCCGGGCTCCTCCGGTCCCAGGGAGGCTGGGGACAGGGGACAACAGGAGGCCAAAGAAAAAAGAAAGGAGAGTGAAAGAGGATAGGGAAAGATACAGGAGAAGGCGAAAGAGGCTGAGAAAGAAAATGGGAGGATGGAGGAAGAAAGGAATGTGCTGCGGGAGAGAGAATGGGGTGGGGGGAGGGGAAGATGCAGGAAAAAGAAACCCAAGAGTGATCCGAGAGAGAAAAGAGGAGGAAGAGATGGAGGGAAAGGGAGACAAAGTAGCATCAGACGTGGAAAAATAAAAGGGGGCATTGAGCAGAGGGTGCAGTGTTGTGGGGGTGGGGCCGGGGAGGGGAGCCATCTAACATGGCAGCTGTGCCCCCCCAGAGTCCTGTTTCCTCTGTGCCCGCTGCAGACAGCCTGGGGCAGGGGCCTGGGTCTCCCTCTTGGTCCTTGAGGGGCATGGGCTGTGCCAGGCAAGAAGGGAGCCTGTTCTGAGGCCCCCAGTCCAACCCCTCTCTCTTCTTTTTCTGCCCCTCCCCCTCCTTGCCTTTGTTCCCTGCTGAGGGCTTGAGACTGGGGCTGGGGGTTCTCAACCCCAGAACCCCTTTGCCCCCTTGCTTGGGTATCTGACCCCTTAGTTCTGCTTCCCCTCCCCAGGGTTCCAGGGTCGCTGCCTCCCTTTTGTACCTGCCCTTTAGGAAGACCCCTGGGAGGAAGGCCAGGAAAGCCAGTCCAACCCCCCAAGCCCTGGCTTAGCCAGCCCCCCACCCCCAACACAGCCTTTGGACCTTGAGGCCAGCTGAGGACGTGGGCCCTCTGCAGGCTCCGGCTCTGGGATCCATGCTGTCCTCTGTATGAATATTAGTGTGTGCTGGGGAGTAAGTGGCCTACGACCCTCACTCACTTGTTAGATAACCCTTTCCATGTCGTGGAGTGATCCTTTGCAAAAGCCCCCACATCTCGGCACCCACACTCAGGAAGTCTAGGCCCCCACCCCCTTCACGTAGACTTGAGCAGGGCTTCCGTGGTTTCCCAGAAATCGAGCGACTCTGTCTAGTGCCCTTCTGGGGGAGACTATGGAAAGGGTTTCTCAGGGTGAAATTTGTTCTCCACTCATCCCTGGGGTGCATCCCCTCCTGCAGCCCAGGTGGCACCCCTGCAGAGGCGGCTCCCCCTTATTTCGTGCCATGCGGGTTAGGGTCCCACTTCCTCACTGGAGCTGGCAAGTCAGCCTAGTGCCTTGTGGCAGCACATGGGCCTCTGTGAGTTTGGGGTATTGGGGGGAGGCAGGGACTCCCCAGATCTAGTAGCATGCACCACAACCTGCTGCCTGACTCCCCTGTGGGTGCTGTGAGGGCACACACCATGGGGATTGGCCACGGGCGTGAGTGGGATGTGCACACTCCTTGGGCATGAGGCACAGAGCTGGAACCACGCACAGAAGCCCACCAGTGTGCGCACCCCTTGCATGAGCGTGCAAATGCTGCAAATACACTGCAGGCACACACCCGGCCGAGTGCACAGCCTTCCAGGGGCCCAGGGCCAGGCCAAACTCTGCCTCCACCTCTAACCTGTCAACCTGGGCCTGCCCTTTGCACGGGAGGCTCCAGACCAAGGCAGAAAAGCAGCGGGTCCGAGTCAGCCTCCAGAGCCCTGCAGTGGGAGGCTGCTGCCCTCTTCAATCTGGGCAAGTGCTTCTGGGTCCCGGCTGGCCTCTTTAACCTGACATCATCCCTTGCCAGCCTGTGGGCCTCTTCTTGTTCCTAGGAGATGAGTAGGGGAGCTTGGTACTTGGAACATGAACTCAGACACCGCCTGTGAGCTTCTGGTTTCAGCCCAAACCCATGAGGCTGAACCTCCAGTCTTGAAAGTGTTTGGGGCAGGACTCAGCTGCTGCATGTTGCTTAGAGTGGCATGTGCCCGTGTTCCCTTTGAGCATGATTGTGGCTGGTGTGGACTTGCCTTGTGGACACTGGGTCAGGGCTACAGGAGTATGTGGTGTGGGGGTGACAGCCTCACCTGATGGGAGTTCTCTTTTGGGGATCCTTTGCATTGGTTTGTCCTCCTACTATGGAATGTTTCTGTGCAAGCGGGCAGAGGGCGCGGGAAGAGGCCTGTGAACTCTTCATTCCTCCTTCTGGGGAGCTTGGCGTGGGGCTGGATGCCAGGTGGCAGGGGGTGTCCTGTGCTTGTTTTTCGGTGTGAACATTTCTCGGAAGGACATCTTTCCTCTTGTCCCGGGACTTCTGCGGGAGGTTTGTGTGTTTTTCCGGGCCGCCCGTGGTGCAGCTGGGAGTGGGGAGTGCTCACTGGGGTCAGCCTGCTTTTCTTGTGTAGTATTTTTGTTTCTTTTCTTTGCTCTGCATCCCTTTGTTGTCCTCTGGCATGGGTGTGCGTTTGTGTTTGTGTGTTGCGGGGTGTTGGTGTGTTGCGGGGTGTTGGTTTGGAGCTGCTGCCTGGTCTCTGGGCCGCCTCCCACGGTTCTGACAATGTGTGCATCCCCAGAGCTGCTGGGTGCCCAGCCCTGTGCTGGAAGGTCTTCCTGCTTGTGGCTGTGAGCGACCTCAAGGTGGGGACGGCTGGCCTCAGTGATTGAGTCTGGTAATCAGTGCCCTAGAACCAACGGTGGTGCCCTCTCTCCCCTGCAG
Seq C2 exon
CCAGCGACCGGGACTCACCGGAGACGGGCGAGGAGATGGGCCGTGCGGAGGGCGCCTGGCCGCGAGGCCCCGGGCCGGGAGCGGTGCAGCGGGAGGCAGCGGAGCTGGCGGCGCGTGGCCCGGCGGCCGGCACGGAGGAGGCGTCGGAGCTGGCCGAGGTCCCTGCGGCGGCTGGGGAGACACGCGGCGGCGTTGGCGTGGGCGGCGGCCGAAAGAAGAAGACGCGCACAGTCTTCTCCCGCAGCCAGGTCTTCCAGCTGGAATCCACCTTCGACCTGAAGCGCTACCTGAGCAGCGCCGAGCGCGCCGGCCTGGCCGCCTCCCTGCAGCTCACCGAGACGCAGGTTAAGATCTGGTTCCAGAACCGCCGCAACAAGTGGAAGCGGCAGCTGGCAGCCGAGCTGGAGGCGGCCAGCCTGTCCCCGCCGGGAGCGCAGCGCCTGGTCCGCGTGCCGGTGCTCTACCACGAAAGCCCCCCGGCCGCAGCCGCCGCTGGGCCCCCGGCCACCCTGCCCTTCCCGCTGGCGCCCGCCGCGCCCGCGCCGCCCCCACCGCTGCTCGGCTTCTCCGGGGCCCTCGCCTACCCGCTGGCCGCCTTCCCGGCCGCCGCCTCCGTGCCCTTTCTGCGGGCGCAGATGCCTGGCCTGGTGTGAGCCCCGCCTGCCGGGCCCTCTCCCCACGACCCTGTGGACCTGTGTGGACGCGCGATTCAGCGGCAGGCGCAGGGCTCAGGGGGCGTTAGGGAAGGGATGGTCGCTCCTGCGGCCTCCTAGATACCTCGGGAGCGCAGGCCGCGGCCGGGCGGGCCTCAGCTTCTGTGGGGAGCGCCTCTAGAATGTAATGGGACGCCCCACCCATTTGCCAGGCTGGATCCCCACTCGAACAGGGGGCCATGCAGAGACTCTGGGCTGCGCAGCCCCCGGCGCCACGGCCACCCCCCGGCCTCAGCGAGGAGCGGTCGGCCATGGCCACCCGGGGCAGCTGCCCTCAGGCCAAGCCCAGCGCAACAAAGGAAAACTACGAACCGGCTGTCCAAGGCTGAGCGGTGACTGTCCCCACAGACTGCCCCCAACACTAAACGTCCCTTTCCTGGGACCCAGACAGCAGGCCGGCCCGGAGGGCTGTGCTACCCCTCTCGCGGGTGCTGGTGGAGAAAGGACCCTGGACCTGTGGGTCCCATCGTCCGTTCCAGGAGCAGGCAGGCTGGGGCTCTCTGCAGACGTCGCAGCCTCCGGGTTGTTGTTTTTTTAAATGAATCTACTTATTTGCGTATGGAATAAAAAGGGACATTTTCTGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215612-HMX1:NM_018942:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.961 A=NA C2=0.446
Domain overlap (PFAM):
C1:
PF148121=PBP1_TM=WD(100=38.6),PF086195=Nha1_C=PU(76.8=80.3)
A:
NA
C2:
PF086195=Nha1_C=PD(34.0=25.2),PF0004624=Homeobox=WD(100=26.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)