RnoINT0040317 @ rn6
Intron Retention
Gene
ENSRNOG00000020579 | Col7a1
Description
collagen type VII alpha 1 chain [Source:RGD Symbol;Acc:1311417]
Coordinates
chr8:117725889-117726844:+
Coord C1 exon
chr8:117725889-117726083
Coord A exon
chr8:117726084-117726489
Coord C2 exon
chr8:117726490-117726844
Length
406 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TTCTAATGTGTTCCACATAGGTG
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATCTCTGCTCCCTGCCACTGGATGAGGGTTCCTGTACTGCCTATACCCTGCGCTGGTACCATCGAGCTGTACCTGGTGGCACAGCGTGTCATCCCTTTGTCTACGGTGGCTGCAAGGGGAATGCTAATCGTTTTGGAACCCGTGAGGCGTGCGAGCGCCGCTGCCCACCCCAAGGGGTCCACCGTCAGAACACAG
Seq A exon
GTATGGTCCCACACGCCCTCACTGAAAGCTGCACCTACATGTCTTAGTGCTTGGCCTAGACGTTCCCTGAGACTAGGGGACCTGGAGCAGATCCCAGATCCCAGAACTGGCTACCTGTTCCCAGCTGAGGAGCCTGCACGGTCCCCTCTCCGTATTCCTTTATGTTTAGGGTCCCTCTCTAGTCAGAGCACATACTCCATCCTTCCTGAATGCTCGGACATGTTTCTTAGTACTCTTTTCTTTTTTCTTTTGTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCATTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCTCTGACATGTTTCTGTGCAAACTTCACACTGGGAAAAAAGCTCAGAGGGCTGAATGTTTTCTAATGTGTTCCACATAG
Seq C2 exon
GTGCTGCCTAGGGCTGAGGCCCAGATGATGCACTTGGTGGCCAGCAATCCCTGGAGGTGGCAGGTCTCAGCCGGGTCCTGCTATCCTCCATTTGGTGCTAGAGTTGTGTGTGCGCATGGGCGTGTGCACGTGTCCACTATTTCAGTGACTTGGTCCTGTGGGTCTAGCCTTCCCCCCTGTGGACAAATCCCCATTGTGGCGCCCGCTTTCCTGGCAGATGACTCACTGTTGGGGGTGGTTGTGGGCAGTGAATGGATGTGACTGGTGTCCAACCTGCCCCTTGACCCAAGGCTGTGATACCATGGTGCTGATGGGAGGGGAGGGGGGCATTAAAGCTGCTGTTTTAAAAGGCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020579:ENSRNOT00000027994:117
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGCAAGGGGAATGCTAAT
R:
ATCCATTCACTGCCCACAACC
Band lengths:
345-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]