RnoINT0071138 @ rn6
Intron Retention
Gene
ENSRNOG00000028627 | Hmcn1
Description
hemicentin 1 [Source:RGD Symbol;Acc:1564772]
Coordinates
chr13:68035127-68038740:-
Coord C1 exon
chr13:68038459-68038740
Coord A exon
chr13:68035295-68038458
Coord C2 exon
chr13:68035127-68035294
Length
3164 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CTTTTGCTTTTGTCTTACAGTCC
3' ss Score
10.31
Exon sequences
Seq C1 exon
TCCGACCATCAATAGCCAACAGTGGCAGTCACCGCCCTGAGATTACTGTCATCCGTGGGAGAAGTATTTCCTTGGAATGTGAGGTGCAGGGTATTCCTCAGCCAACAGTGACCTGGATGAAAGATGGCCGCCCCTTGTCCAAGGGAAAAGGAGTGGAAATCCTGGATGAAGGCCGCGTTCTTCAGCTGAAGAATGTTCACGTTTCTGACACAGGCCGTTATGTGTGCGTTGCTGTGAATGTAGCAGGAATGACTGACAAAAGATATGACTTAAGTGTCCACG
Seq A exon
GTGAGTAGAAAGGAAAGAATCAGATTGTTCACAGGATGAGACAATCAAGTATTCTGGGAACATAGACCTCCGAGCTGAAAGTCTTATATTAATATTCCACTGTTTTTTTAAGTTCTTTGAGAACTTCATGCCCATATACAGTGAAATGTGATCATTTAAACATCCCGTCCTCCATTTACCCTCCTCCATATCTACCCATATCTCCCACAATACCTTTCATCCTAAGTTATCATCATCATCATCATCATCATCATCATCATCATCATCCTTCTTTTTCTTTTTTCTTCTCTTTCCTTCTCCTCCTCTTCCTACTTCTTTATCTTCTTTTTTAAATGTTTTTTAAATTTTATTTTATTTTTTTTACTTATTCACTTTATATCCCACTCACTGCCCCTCCTAGTCACTGCTCCCACAATCCTTCCCCCATCTGCAGTCCCCTTCTCCTCTGAGCAGATGCGTCCACCCACTCCCCAGTATTCCCCACCCTGGCACTTCAAGGCTTTCTGAGGCTAGGTGCTTCCTCTCCCACTGAGGCCAGACATGGCAGCCCAGCTACAAGATCATATCCCACATGCAGCCAACAGCTTTCAGGACAGCCCTGGCTCTAGTTGTTCGGGACACACATGAAAACCAAGCTGCACATGTGGTACAAATATGCAGGAAGGTCTAGGTGTATGTTCTTTTGTTGGTAATTCAGACTCAGAGTTAGGTTAGTTGACTTTATCGGTCTTCCTGAGGAGTTCCTATCCCCTTCTGGGCCTGGAGCCCTTCCTCCTATTCTTCCATAAGAGTCCCCAAGCTCCATGCACTGTTTAGCTGTGGGTGTCTGTGACTGTCTGAGCCAGCTTCTGGATGGAGACTCTCAGAGGACAGCACGCTCCTGCTTGCAAGACCTCCTTCTCCTCTTCTTCTTCCTCCTTCTCTTCCTCTTCTTCCACCTCCTCCTTTCTCTTCTTCTTAAACCACTAAGTCCAAATAGTGCTGCCTATATGTGTATGGTGTGATACTACAAAGCACTAGAAAACTTCTAGTGACCACTCCTCCAAGAAGAATGATTCTCTCTTCCACAGCAGCTCTTAACTACCAATAGTTCCTCAATGAGGCATAGGGCCTAGAGTTATCTCCCCCATCTTTGTGTGAACTTTGGCTAGTTCGATCTTGTATGGATAGCTGTTGTGCAAGTAAGTACAGTATGGGACCTTGAGTGCAAGAAGACAGTGTTCCACCTCCTTTCTAAGTATCTCTAGTCTCATCATTTATCTTTCGATGTCTGACTTCATGTTACCTGTTGAGACAAGCACATATTGGCTTTCTTTTGAGGATGTATATAATAAAGTAGACAAAAAACTAAGAAAGCAAACAATCACTGTGTAATTGGCTGACCTGAAACACACTATGTAGACACACCAGGCTGACATTAATCAACATTCCTCTGCCTCACTAGTTCTGGGGTTAAAGGCATGCACTTCAAGCATCACATCTGGCTGAATCTTTTAATTATATGATTTTCAAATTCAAGTCTTAAATAAAGACTATTTAACGTACATTGGCTCGGTCCTGTGGGTCTGAGTTATGTGTATTAAAGTCAGATTTAAGATTCTAATGTGTAAATTACAAATTTGGGTCAGGAAGAAGCTAAATATATACATATTCAAGGTCAACTATTTGAGTGCATGCAATTTGAGGTATAAATTTAAAATCTATAGAAGCAACAGGGAATTTTAACAGAAACAAATCATAGCTCAAATCCCATAAATAAATGAATAAGGCTAGGTCTTCTGGTGCATATTTATAATTCCAGAACTTTTGAGGCTGTTTGGAGAATTATTAATTCAACATTATTTACAAAACCAAATTGTCTCATAACACACCAAAAGGAGATGAATGAAGCTTAGTGTTAGTCTCTTACATTTGTGGCTCACATATATATCAAAGATAAAGGGAACATAATAAAAAGAAAGAGAATTAATATTTTATTTTTGTTAAATTATTTTAATTTTAAAATTATTACTATTTTTCATTAATTTATTTATTCACCTCTTTACATAGCAGCCTGCTCCTTCCTCTCCTCCCAGTCCCACCCTGACAAACCCCTACCTCCATTATTTCCTCTTCTTTCCTCTCAGAGAAAAGGAAGCTCGCTATGGGTGCTAACCCACCCTGGAACATCTTGTTTCAGCAGAACTAAGCTCATCCTCTCCCACTGAGGCCAGACAAGGAAGCCCAGCTAGGGGAAGGGAATCCAAAGGCAGGCAATGGAGTCAAAGACCAAGCTGCACATCTACTACAAATGCATAGGGTGCGGCCCGTGCATGTTCTTTGGTTGATGATTTAGACTCTGTGAGCCCCCATGGGCCCAGGTCAGTTGACTCTGTAGGTCTTCTTGTGGTCTCCTTGACTCCTCTAGGCCCTCAGTCTATCCTCCTCACCCCACTCTCCTATGTGACTCTCGAGCTCTGCCTAATGTTTGGGTGTGGGTCTCTGCATCTGTTTTCATCAGCGGCTGGATGAAGCCTCTCAGAAGGCCCTGATGATAGTCTCCTGTCTGCAAGCAAAGCATAATGTCAGGGGTTGGCTCTCTCCCATGGGATGGGTCTCAAGTTGGGCCAGTCATTGGTTGACTGTTCCTTCAATCTCGGCTCCATCTTTATCCCTACACAACTTGTAGGCAGGATGAATCTTGGATTGAAGTTTTTGTGGGTGGATTGGTGTCCCCCTCCCTCCATTTGAAGTCCCACATGGCTACAGGAGGTGGCTACTTCAGGCTCTGTATCCCCCACTGCTAGAAGTCTCAGCGGGCCCACTCCCAGCCTCTCCACTCCCAAATCTCTAGTTCATCCCAGACATGCCCCGACCCACTGATTTCCATTCATAATCTGTATATAAGAAAGTTGTGAGTCTAGGGTATAAATCTGTCAGAAAATACGACAATCTCAGAAACTAGCTCGCCATTGCTGAAATACCAGTTCTGAATTGGTTAAAATCGGAAAGCAGTGATACATTTTTTTAAATCTTCAGATTTGACATTGTTATGATTCTTCATCTGATTACCATTAATCAGGAAGTAGAGGGTTCGTGGTAGAGAGCAGCTGCTGAGGATTCGTGTCTCCTATGTGTCAGCTCCCTTACTTCCTCTCTCTGTCACTTTTGCTTTTGTCTTACAG
Seq C2 exon
TCCCTCCGAGCATCATCGGGAACCACGGAGTCCCTGAGAACATCAGTGTGGTGGAAAAGAGTTCTGTATCCCTGACCTGTGAAGCCTCCGGCATCCCCCTGCCTTCCATAACCTGGCTGAAGGATGGTTGGCCTGTCAGCCTTGGCAGCTCTGTGAAGATTCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028627:ENSRNOT00000030971:46
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=WD(100=88.4)
A:
NA
C2:
PF0767911=I-set=PU(56.5=84.2)
Main Inclusion Isoform:
NA
Other Inclusion 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]