HsaINT1024909 @ hg38
Intron Retention
Gene
ENSG00000235608 | NKX1-1
Description
NK1 homeobox 1 [Source:HGNC Symbol;Acc:HGNC:24975]
Coordinates
chr4:1402932-1406331:-
Coord C1 exon
chr4:1405980-1406331
Coord A exon
chr4:1403816-1405979
Coord C2 exon
chr4:1402932-1403815
Length
2164 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
CTTGTCCCTCCCTCCCGCAGACG
3' ss Score
13.44
Exon sequences
Seq C1 exon
ATGGACGGGCGCGCCGAGCTGCCGGCCTTTCCCCGCGCTGGAGCCCCGCCGCTCGCGGCCAGCGACACTGTGCCTGCGGCGCCCGAGGGGGCTGGAGCGGCCCGGCCCGCAGCGCCCCTGCGCCCCACCTCCTTCTCGGTACTGGACATCCTGGACCCCAACAAGTTCAACAGCAGGAGGCGTCGTTGCGTGCTGCTGGGCCCAGTGGCTCCCGCTGCGTGCGCCCCTTGCGCTTCGGCCCCATGCGCCCCTGCACCCGCCGCCTCGGGACGCCCGCCACGCGCGGAGGAGCTGGAGCGCCGCGCCCTCGCCGGCGCCGGGGGAGTCGGAGCCGCCGGAGCTGAGCCGCCGA
Seq A exon
GTGAGTAGGATGCGCCCGGCACCAGGTCGCAGGGACGGGGGACCGGAGGCTTCTATGCGTTTACGACCCTGGGACACCGTGGCGAGTTGGGTCTGGCCCACGCCGAGGCTCCGTGGAAAGTTCGCTGAGCGCCGGGTCCGCACCAGCCCACCCGTGGCCTCCATCCGACCCGGACTGCAGGGCCTGCATCGCCAGGCTCCTCTGGAGAAGCTTAGCCGGGTCAGGCCCAGGGGCTGCAGGGCTGTGAGGCCGGTCCAGGGTTCGCCTCCGCGCGTCTCCGGCCTAGAAGGGTAGTTGGTGCAGGAGGCGAGGGGCCGCTCGCGGTGGCTGGCCCGTGACCTCCCCGCCCCCACTGTGCCCGCCCGAGGCCTCCCTCCCTCCCTCCTTTCTCCCTCTCTCTCTTTTTTTTTGGACAAATCAGACTAATTGTGACAAAACGCTGGTTATCGCTGGAAAAACAATTAAATCCCTTCGATTACAGTTAAGGGGAAATGTGCTTAGCGGCGGAAAGCGGCCGGTAATGGGGCGGCCCGCGCCCCCGGTCGGGTCGATATCCCATTACGGCGCGTGCATATCTCTTTCAAGCACCTTGCAAACTCCCCCCGAACATCTAAATTATAGGGTCAAAATTCGGATAATTACTCGATTAAAACCTATTACACTTATTAGGGGCCGCTATTGATCGCGAATTGCATTCGACCTGCTCCTGATTGCTTTTTGTGTCCCCTCCTCCTCCCTCCAACTTTCCGGCCCTACTGAAGCACAGGGAGGACAGCGCGGGGCGGACCGGGCTGGGCCGCGGCCACCGGCTCTGCGCCTGGAGGCTGCGGGCCGCACCTGCGCGGGGCCTCTTCCGGGTCGGCCGAGATGGAGGGCGAACAAATCCGGCTGAGTGGAGGGGACCCTACGGACTCTGCGGCGGCTGCGCTCAGAGCCTCCACCTGCGGGGAGTCTATGGGGCGGAAGGCCGGGATCCCGCTGAAGCCGGGAAGGCGCGCGCATACTACAGCCGGGGAGTCATCTGGGCCAGGCACCCGGGGCAGGGCTGGGACGGCGCTCGCGGTCGTCTAGGGGCGGATCCTACTCCTGCTGAGGGTCGCGGGGACCCAGACCACCTGCTGGCCTCCATGCCAGGTGGCCAGTCGCCCTGGAGGAATCTGACAGGAGCGATTGGTCATTTCTTACCGGAGATTTCGGTTCCGACCTGGCCGGAGAGCAGGCCGCGGCTGCCGCTGGGCAGCTCTGTGGAGGGCACCTGCCCCGACTCCTCCTGACTTAGGCCCCCAGTGCCGGGGCATAGGCGACCCTGCCTGGGAGAGATGCTTTCTTCCAAATTTCAGAGACTCAAAATGCAGTCACTTCAGGGCCTCTGCTTGGAGGATGCGGAGCTGCTGTTCAGACTCGGCCGACCGGGCCTTTAGGCCGCGGGGAGCCACTCCGACCTGCACGCCCGCCCAGCCCTCCTGGTGAGGCCGAGCAGGGCCCTACCCGCGGCAACTCTGCGCAGGGGCCGAGGCGCGGGCAGGGGAGCCGGGGCTGACCCTCGCGACCGAAGCTCAGGGCCTGGAGGCTTGAGGTAGGGTCGGGGCCAGGGCATAGGATTTGGGTCCCCCAAGCCCCATTCTCTCGGCCGGCTCCGGCCCCACCGCCGGGCCTGTTATTAAATGCCCGGCAATTGGCTGGCCCTGCGCCGGCGGTAATTGGGGGGTAATATACGCCGAAATAAATTAAATGGCCTTAACTAGTTTGTACACTACACAAAATGAGTTTAATTAAGTGTGTATCAGCCCTGCGGATCGATCAGAGCTTCCACTCCGCTGTGATCTCCGCAGCCGGGCCCGGCCCGCAGCACCCGTCCAGCCCCGCTCAGGCAAAAACGCCCGGCGCCGCGAGAACGGGCAGCGCGGGGCGAGGGGGACCCTCTCCATAGAAAGAAACAAGCAAGGGACCGAGAGGAGACGCGGGCGGCGGGAGGGAAGGACAGGCCGAGGGGAGGGAAACGACAGAGCGAAGGAGAGAGAGAGGAGGCGGGTGACGAAGCAGGAGGCGCTGAGCAGGGGGCGGGAGGGAACCCTGGGGGAGGAAGCGGGGCGCGCGGAGGGCGGGATCTGGGAACCGGCCGGTCCTAACTGCCCTGCCCTGTCCTTGTCCCTCCCTCCCGCAG
Seq C2 exon
ACGCCGGCGACCCCTTCAAGGCAGGGGAGGCCGAGACCAACGACACCAACGGCTACAGCAGCGGCGGCGGCGGCCACAGCCCGAGCGCGGACAGCGGGGACGAGGTTCCCGACGACGAGGACGACGACGAGGACGAAGCGCCCGAGACGGAGGCGGCGCGAGGCGCGGAGGAGGCGCGGGGAGGCGGCGGCGGCCTCGGGGCCCGCGGGTCGGGTTGCCAGGGCGCGGCTGAGACCGACGCGTCCCCCGGAGCCACCGTCGACGAGGCAGCGGCCCCCGGACCCCGCGAGAACTCGCCCGTTGCCCAGGGCCCACCGGGAGGTGCAGCGGCGCCGGGGGGCGCGGGGACCACCCCGCAGGGCACGGCGACGGCGGCGAAGCCCAAGCGGAAGCGCACGGGGTCCGACTCCAAGTCCGGGAAGCCGCGGCGAGCGCGCACCGCCTTCACCTACGAGCAGCTCGTGGCGCTGGAGAACAAGTTCAAGGCCACGCGCTACCTGTCGGTGTGCGAGCGCCTCAACCTGGCGCTGTCGCTCAGCCTCACCGAGACGCAGGTGAAGATCTGGTTCCAGAACCGCCGAACCAAGTGGAAGAAGCAGAACCCGGGCGCCGACACCAGCGCTCCGACCGGCGGCGGGGGCGGACCGGGACCGGGGGCCGGGCCTGGCACGGGGCTGCCCGGCGGCCTCAGCCCGCTCAGCCCCTCGCCGCCCATGGGCGCCCCGCTCGGCATGCACGGCCCGGCCGGGTACCCGGCGCACGGCCCCGGAGGCCTGGTGTGCGCCGCGCAGCTGCCGTTCCTGTCGAGCCCGGCGGTGCTCTCGCCCTTCGTGCTGGGCTCGCAGACCTACGGGGCGCCCGCCTTCTACGCGCCGCACCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000235608:ENST00000422806:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.805 A=NA C2=0.724
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=19.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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]
SPECIAL DATASETS
- Autistic and control brains