RnoINT0042226 @ rn6
Intron Retention
Gene
ENSRNOG00000015220 | Crtac1
Description
cartilage acidic protein 1 [Source:RGD Symbol;Acc:621085]
Coordinates
chr1:261526955-261528236:-
Coord C1 exon
chr1:261528093-261528236
Coord A exon
chr1:261527643-261528092
Coord C2 exon
chr1:261526955-261527642
Length
450 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TGCCCTTTCGTTTTTTACAGCTC
3' ss Score
12.71
Exon sequences
Seq C1 exon
ACACCAATGAATGCATCCAGTTCCCATTTGTATGTCCTCGAGATAAACCCGTGTGCGTCAACACCTACGGAAGCTACAGGTGCCGGACCAATAAAAGATGCAGTCGGGGCTATGAGCCCAACGAAGATGGCACAGCTTGCGTGG
Seq A exon
GTGAGTGGAACCCTGGCCACGTTCAGTAGCAAAGGACACATGCCTTGTGCTGGAGAGTGGCAGGGAGGGATGGGTGGCTCTGAGTGGGCTCTGGGCCACAGTCATTAGCCCCTGCATCCCCCCTGGATTGGTAGATGCTCCTAGACTCAAACACAAGTTCTCCAGGGGAGACCCTGCGAGGCTTGGAGAGGACCCATCACTACCGTCCCACCGGAAGGGCCCTGGGGTAGTGCATCCTGGTCTTCTGGTTATCACTCTATTCACGGCTCCTGAAGCACGTGTTCTGACCTGGCAGTCAGCCCGCTTTTCCATAGCCGGGGTAGAAAGTAGTCACCTTTGGATAATTTCTGAACCAGTGTTTGTCTTCTCCTTCCTCCCACAATCCTCCCTCCCAACCAACCCTTTTTCTCTTCCCCGTCTTTTACCTCCCTGCCCTTTCGTTTTTTACAG
Seq C2 exon
CTCAAGTGGCCTTTCTAGGTGGGTATTCCTCGGCTGCCTTTAGACTCTCTGAGCCTCTCTCTCAGGCTTCATATCTTTCTCTAGGCCTAGGACTCTGCCTTCAATTCTATGCACTTTAAATTCCATCAATAAAGGAAAAAAATCTAACAACCTTTGTGGAAAAACTATATCTCTCCTGCTGCCTACCTCTCTCCACACCCAATAGATTCTGCCACGTGCTCCTTTGAATGGACAGCAGGGGTGGCCATCTTTGAAAAGGGAAGTTTGGGAGACACTAATGGGACCTTAGTTGTTGGTGAAGCCTTTCTTTGCATGTTTTCTGAGAAAACAGAAAAGGAAAGTATCTCCTCTACACCCACCCCTCATTCCATCAGAAGAACCAAGAGAGCCCATGAGCGTCATCTCCACGAGCGTCTTATTTTGCCCTTAACAAAGATGGCTCCCAGGTGGTTGCTTGCTCATTGATTCAGTAATGTATCATGTGCCTGCTGATTTTGGCCTGTGCTGTTGCTGCTTTGTACAACTTGATTTCCTATGATTACAAAAGCCTTATTGGGTTGGTGGTGGCGACGGGAAGGGAAAGGGTGGCCCTTTGGGACTGTTGATAAAAAAAAATGCTTAAGTTTGAACCCGCTAAGTCTTCCAGCCTTTTTTCTGGAGAAATTATGCCAATAAACTATCTGCTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015220:ENSRNOT00000020568:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.137 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.9)
A:
NA
C2:
NO
Main Inclusion 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:
CCTCGAGATAAACCCGTGTGC
R:
CACCCCTGCTGTCCATTCAAA
Band lengths:
352-802
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]