RnoINT0071102 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:68139266-68141593:-
Coord C1 exon
chr13:68141466-68141593
Coord A exon
chr13:68139380-68141465
Coord C2 exon
chr13:68139266-68139379
Length
2086 bp
Sequences
Splice sites
5' ss Seq
TAGGCGAGT
5' ss Score
1.08
3' ss Seq
TGGATATTTGTGTTTTTCAGAAG
3' ss Score
7.88
Exon sequences
Seq C1 exon
ATACAGGATGACCGCAGAAGGCACTTTATTCATCAAGAACGCAGTTCCCAAAGATGCAGGGACCTACAGTTGCCTGGCAAGCAATGAGGCCGGGACAGACGAGCAAACTTCCACTCTCAGATACATAG
Seq A exon
GCGAGTACACCCAGGTCACGAGGCAATGGGAATGCGGTGAACATTATTGTAAGCAGCGGGAAAGCCCTTCCAGATCAGTAATGTTAGAGACGAGTTGTACCCAGTATTGTAATTTATAGTTAATTCCACTTGTTCATTAGAGCAAAGATTGTTCATGAGTGAGAAAATATTTGCCAGCAGAAATCAAGGCTGTTTCCAGTTTGTGAAAGAGTTCTAGCCCACCCATAGAATTATACCCACTGTCGTTCATTTTCGGTAGTGTTTCAACTTCAAAATAAAATCTCCTCTATCCCTTCTCACCTCATCTTCTATTTTATACCTACCAACTTATGATCAAATTGTGTATCATATTGTTTTCATATTTTATCTGCCATTTCCTCTTCCAAACTTAGAGCCAAGTTATCAAAATGTGTGTAACGTTATTATTCAAGGGATATCTGTGTTTAATTTGAACTTCCTAATAGTGATTGAAATTACCATGATGAGCCCAGTGTTCGGTTGCAAATTGTGAGTAATTTATTTGGAAAAAATATACCTTTTCCCCCATTTCCACTTGACTCCCAGCATGGTAACACATTAAGACTATCAGCGCCGAGGAGGGAAGTGTAGAAAAGCCACAAGAAGAATAGAGAATGAGTTGGAATAAAATAATACAGGAACGGAAAGTCATCATGTCCTAATAGCCTGAAAAAAGTGACCACAAGACAGGTACACAGGGAGTAATTAGTTAAGGGAATGTGGGCTCAGATTTTAAAAAATGACTGGATTAAAAGTGTCCACGGAAAACAGATAGAGAGGTAGCAGAGGAGGAAGATGTGGATGCAGTGATGGAAACAGGATTCTGTACAGCGGAAGTAAATTTCGTGTTACTCACAGAGAAGCCAAAATATCCAGCATGTTTCTTTGCTGTGCAACACCCCAGACCGTGCCAAACTCTCTGCTGGAGACTGAGCATAAAACAAAAACAATTAAAATCCATGCCACACTAGTCCTTCACTTTTTAAAGGCTCACAAAATGGGGGTGGATATACAAAGCTATAAAGCAAAGGACTAACAAGTACAGTGCGGCTTCGAGGTTGGGGGTGGGTGTCGGCAGAGGAATGATGAATCTGACTGAAGAATGTCAGAATTCCCAAAGGAGAGAGGATTTAAGTTAAGTCTGAAAGAATGAGCGGAATTTGACAAGCCACTGTGGCAAAGGAAAATTTGGGGAAGATGGTCAAAAGCCAAGTCAGGACAATGAATGAAAGAGAGCTGTGTTTTGCGCTCCCAAGTGGAGCTCTGTACGGGGTGATAAGCCTGCACGTGTACTTTAGGTGAAGTTGAAAAGGGCAACAGTTCACTGGCTTGGAAAACCAAACTCTTCAAAGGGAAGGCAGCAGGGCTTTAAAAGCAGGGAAGCCTTTCGAGGTTGCTTAAAACCACCTCGGATGAAGTTAGGAAGGTCTTGAACCATTTAGGGAAGAGAACGTGTGTGAGCAAGCTAAAGCCCAGGGTAAAGCAAAAAGCAGTAAGAAAAACACAGACCACAAACGAAAGGAAATAACTTCATTATCGGAACGGGCACCCATACTTAGCACAGCAGGAGAAAGCAGAAAAAATGGCGGAAGGCAATTACTTACAGGATACAGGATACAAAAGATGATTGTAATCTGTCTGTGATTGAATTAGCTGACAATCTTAACTCTAGCCCTCTTTCAATTCCAATTTTATTTTCATCACGCCTCTCTTCTCTTCGTTTAGTGTTTAGGCTGTAGGGTCTATTCGTCTGAGCCCGTTCTCCTAGCAGAACTGTGAGAGCTGGTAATTAGGCCCCTATACTTTGTACCTCTGTTTCCTTTGAGGTTGTTTAAAAGAACCTCATAATTATTTTCTGCTTTTGTCATTATTGTTGTCTAACATCCTTGTTTTGGCCTCAGCATTCATCTTTTCATCTTACGCATCTGTGCACACAGAGTATGAGAGTGTCTCTCTGCTTATAAATGTAAGCAGGGACCTAGTACTGGTCTGTAATGTTCATTGATTCATTCAGCAAACAAACAGAGTCCACATACACCTTGACTGCTTGGATATTTGTGTTTTTCAG
Seq C2 exon
AAGCCCCAAAGTTGGTGGTAGTTCAGAGCGAGCTCTTGGTGGCCCTTGGGGATACAACAGTTATGGAATGTAAAACCTCTGGGATTCCCCCACCTCAAGTAAAGTGGTTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.072 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(46.5=90.9)
A:
NA
C2:
PF0767911=I-set=PU(40.9=92.3)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]