RnoINT0068920 @ rn6
Intron Retention
Gene
ENSRNOG00000016659 | Habp2
Description
hyaluronan binding protein 2 [Source:RGD Symbol;Acc:1302979]
Coordinates
chr1:277096800-277098160:+
Coord C1 exon
chr1:277096800-277096897
Coord A exon
chr1:277096898-277097904
Coord C2 exon
chr1:277097905-277098160
Length
1007 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TATCTTCTTGTGTCCTACAGATG
3' ss Score
11.36
Exon sequences
Seq C1 exon
AAACCCAGATGGAGACCACAAGCCGTGGTGTTTCGTTAAGGTGAACAGTGAGAAGGTGAAATGGGAGTATTGTAATGTCGAGGTCTGCCCAGAGTCCG
Seq A exon
GTGAGTCTGTGCTACCCGAAGGGCCTGGGGAAGAGATGGGCGGTCCTGGTGCTTCACCACTCCCACCCTCCATGTCCCTTGACCCAAACTTCACCAACATCCATATCACTCCTCTCAGTCTTCTGTAGCCCTCAGGATAATGAGCTAGCCTCGACACTTCTATCATCTCAGGTTAGACCTAAAACTTTCTGTCCTAACCCCAGGTCAGTACCCTCAGAATCAGACACTGCATGGGTCAGTATGTGATGGCTGTCATACGCTGCTGACCACTGGCTGTGTCAGGTAGACAGTGACCAGCACTGGCTGGGCCCTTGTGGCCTCTCGGGATGAGCTATAGTCTGAAGTCCAGCTTCTCGTTCTTTCCGACAATCCTCACTGGCCCACCTCTCCACCCACATCTGAAAGAGCGTGCTGCCCTATCTGACCAAAGGGATTCCTGTTTCTCACGCGCGGCACTGTTCTATGGGTACCTCTCTGTGATGTTTCATCTCACAGCTGCTTTTGCCCGTTTTTAAGCGTTCTTTTGAGAACTGACCCAGGTATCCCTTTCTCTGACAAGCACCTCCCCACGGCTCATGAACTGGGCATTATATCTCCCTCTGTGCAATCTCAAGGAACAGAACAAGGTCATAGCCATATCACCCTTACACTCTCTGCTCACCACAGATTTCTGGGTGAACCTCCCACCTCCCCCAAATCTACTAAAAATCAAAGCTCAAAAACATGCACTAATGATGACATAGTGTGTGTGTCCATGAGGGGTTTGTGTATTTTGCGTACATGCTTGTACGTCCTAGGAGTAATGCACTTCAGACTATGAAGGTAAAAGCAATGTCTTTCACATCCGTTCTATGAGCTCGCTTTATATTACCTAAGTCATCCAACAAATTGCTCACAAAACAACATGTTGAAGGTGTGCAGGCTCTCAGCTCGGGGTCAGAGCTGTGACTCCAGCTATGTCCTTCGAAGGAACGGCTTGGTGTGACTTATCTTCTTGTGTCCTACAG
Seq C2 exon
ATGCTGCTAACCCATTGGGCAGCCTTCAGGAACCTGTGATGGAGCTGCCAGGATTCGACTCCTGCGGGAAGACAGAGATGACTGAACACGCGGTCAAGCGCATCTACGGGGGCTTTAAGAGCACAGCGGGCAAGCACCCGTGGCAGGTGTCCCTGCAGACCTCATTGCCGCTGACCACCTCCATGCCCCAAGGCCACTTCTGTGGGGGTTCCCTGATTCACCCTTGCTGGGTGCTCACTGCAGCCCACTGTACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016659:ENSRNOT00000022382:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(34.9=85.3)
A:
NA
C2:
PF0008921=Trypsin=PU(21.5=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGAGACCACAAGCCGTG
R:
GTACAGTGGGCTGCAGTGAG
Band lengths:
344-1351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]