RnoINT0101069 @ rn6
Intron Retention
Gene
ENSRNOG00000000341 | Nid2
Description
nidogen 2 [Source:RGD Symbol;Acc:1311685]
Coordinates
chr15:4901954-4905548:-
Coord C1 exon
chr15:4905300-4905548
Coord A exon
chr15:4902176-4905299
Coord C2 exon
chr15:4901954-4902175
Length
3124 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTTTTGTTTCCCCGTCTTAGAGC
3' ss Score
8.38
Exon sequences
Seq C1 exon
ACACAGTTCCAGAAGATTCCATCTCAGGACTGAAACCCTGTGAATACCAGCAGCGCTATGCCCAGGCACAGCATGCCCACGCTGGGTCACGGATCCACATCCCCCAGTGCGACGACCAGGGAAACTTTGTGCCGCTGCAGTGCCATGGCAGCACTGGCTTCTGCTGGTGTGTGGACCAAAATGGCCATGAAGTCCCTGGCACCCAGACTCCACCTGGCTCCACTCCGCCCCACTGTGGACCACCTCCAG
Seq A exon
GTGAGCCCCCTGCCCCCAAGAAATAACTTATGCCTGCTTGGGCCTAGAGTCAAGGAACAGAATGGCTTTGGCAGTAGGCAGCTCTGCAGAGTGGGTCTGACTGGCTACTGTTTTTTTCATAGCTTTCTTTTCCTCCAAAGAACACTCAGATGACATAGACACACCCATGTGCATGTTAATGTCATAGGACATATAGATACATAGGTGACATGTGGGGTCCTTTATGCATCGGACTCCGGCTGCATAGATCCTTGCCAAGTTGTGACTGGAAGCTAAGTGTCTGAGTCAGGCTGTGGCCCACTGGGAGAGGCTCGAGAGAGCTAACGAGTTTTCCCTGCATGGCGTTTTATCCAAAAGCGAGACTTCTTTCAAGAAAACCGTGTAGAAAGCAGTCTGAAGGCTGTGCTAGTGTTAGCTGGTAAATTAGGTATGAAACTCGGAGCGGATCCATCTTCCTTCTAATCCAATGACCCATCCCTTCCCAGCCAATCCCGTGTGGTCTTGGGAAGGCCTCCTTTCCACAGCTGCTTTCAGAGGAAGTGTAGGAATCCATCCATCTGATCTGAGGTGCTCATGGCAGACATGGCCGCCTTCTTCAGACATGGCCGCCTTCTTCCTGCCATGGAGCTAGGGCATGATGGGCAGAGCCTCGCCAGCAGTGTGAGCCGCTTATACACTGAGCAGCTTTCCCGCCTCTTACTGACTTATTCCGGATCGGGCAACACATGCTGCTGCTTCAGCCCAAACACTTCCTGATCTGGGAGCTAGATTATAAAATAGAAAAATAATCATAAAAAAATCTACAAGCCACTGATCTCAGCTTTTAATATGTGAGGGAAACTGAGCCGGACAGTTTCCAGCAGTTAGTTTTAATTCTTTAGCTTTCGTAACTTTAGTGTTTCTAAGATTCGTGTGGATAAAAGTTAGGGACCTGGATCTGGGAAGAGTTGTGGGAGGGAGAGTGAACGTGATCAAAATAGATTGTACAAAACTCTTCAAAACAAAAAATCCTGAAGATTCACATAAGTAAACTGGGGTGGTCCCCAGAAACGAGTGACTCTTGGGGGTGTTCCATTGGAATGGGCTGTTGGTGGACTTCTCAGTGCACCCCACTGTGAGGTATCTGGTGGGTATTTGAGGGGGAAGCCTGTCCTGGAACCCGGAACCCTTTGGGCTGAACAGGGCGGAGTCCTGCCTTTGTCTCCTTTGTTTCCTATTGGCTCATGAGCTGAGGCAGCCCGAGGGTCAGACACTTCCCAAAGCTGAGTCTTGATTGAACTTGCTGAGTTCGAGATCGGGGACTTTATTGGTATCTCCCCTCCAGCCTAGTTGTGATGCCCCCAGCTTTGTTCTTTGAAGTGATGGAAGGTTTTCAGCAGAAGAATGAACTAATAAGTAAGATCCTGGGTTTTGAACGCACCACTGTGCCTGTTGGCTGAGCGCACTGGATTGGTGGAGTGAAGGCATGGGAAGGTGGGAACAGCAAAGCCAGCCAAAAGGCTGTTGCCATGGTCTCCGGGTAAGATGATGCCTTGGGTTTAAATGCCCCACGGTAGCTGCTGGATGAGTATACACTGGTTTGGTGATAAACAGTGGAAGCAAAAAAGCCAGCCAGACTGTTGTCATGATTCTAGTGTGAGAGAATTCATGTAATCAGGGTGACATACGGGAGAAGTAGCAAGAAGTCAAGACAGTTTATGGCTTTTGTTTGCTTGTTTGTTATTGTTGTTTTGTTTTGGTTTGTTTTGGTATGTTTTTGAGACAAGGTCTCACTATGTAGCCCTAGCTGGAACTCACTATGTAGACTAGGCTGGCCTCGAACTCACAGAGATAGACCTGCCTCTTGCTTCTTGAGTGCTGTATTAAGGTCATGCACTATTAATCACGTCCACCTCTAGTCAGAATGCTTTTGGAGGTAAATTTGATGAGATTTTTTTGACCTGAGATGTGGGGAGTGAGAGAAAGGGGCCCTCAGGTGATTTCCTCTGAGCAGTGGGAAACGCAGGTGCTGGAAATGCATTTAGTGGAGGAAAGGGCACGAGGAGCCAGTTTGGGAGAAAGCAGGAGGCTGACTTGTGCTTCTGTGCCAGAGTTCCTATATGCGTAGCAAGGAGATAATTGGCTGTGTGATTCTGCAGAGCACAGGCTTTGCGGTGCAGCAGTGAAAACAGAACCAGAGACGCCTTTAGCTGTGCTCTGCGGGCTATCAGTGAAGACGTGATTTCAAGAGCCTGTGTAGATCTGATCCCATGTGTAGGGCAGAGCCTCCATGGCCCTCAAGCTGCAGCTATGGCAGATGGGGGTCGGCGGAGGGACTGGCAGACGTCAGAAGCCAGCAGGTCCTTCTTTAATCATGGCATGAACCAGAAGCCCGAGGGTCTGAGGAGGGTTGGGCCTGTGGCGTACTAGAGCAAAAACAGGACGGTGTTGTGGCAGAAAACTAGAGCTCGGAGGAAAGGTTCAGCTTTGAGGTAGTTCCAGCAATATGGCGGCAGTGAATTCTCGAAATCGGATAGTCCAAGAAGCAGTTCCCTGATGCTCAGTGCCACCTCTGCTGGGCCGCATACAGTACCCCGTCACTCTTGCTCCTTGTGACTGGCCAGTAAAACCGAGGGCTGCCTACAGCTCAGCGTGGTCTTCAGCCTCTTTTTCTAGGACACTTAGGTCAGCTTCTGATGACTCTCTTAGCAAGAGCTTGAGAGAAGTGGGAAGGCGTTGCTTTAAGGTGTCATATGAGTCAGTGGGTCTTCAGAGAGTCTGAACCATGCTGTGTCATCAGAGGAGCCCTGGGCACATGACCAAATGTCCACATGCATCTCCACTGGCCTGAGTGAGGTGTATGGGTGAGCTGTCCCCTTGTTCTTGTCTGATGTGGCTGGGCCTCCGTGCGGCAGGTCCTCCTGGCCGTGGGAGATAGGAACTTCAAGGAACATCAGGGCGATTTCTTTCCTGGGTTTCCACAGAGAATTTCTGAGAACACATGTGCTTCCTTGCCTTGTGTCCACGGGCATGGCTAAAACTTCGTGACTGGACAGAGGAAAAGGAAGGCCGGGAAAGCACGAGTTGGGACCTGGAACTGTACAGATCTTGGTGGGTCATCCAGAGTTTTGTTTCCCCGTCTTAG
Seq C2 exon
AGCCCACCCAGAGGCCTCGGACAGTCTGTGAGCGCTGGAGGGAAAGCCTGCTGGAACACTACGGGGGCACACCCAGGGACGACCAGTATGTGCCCCAGTGTGACGACCTGGGCCACTTCATCCCCCTGCAGTGTCACGGGAAGAGTGATTTCTGTTGGTGTGTGGACAAGGATGGCAGAGAACTTCCAGGCACCCGCTCCCAGCCAGGCACCATGCCTGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000341:ENSRNOT00000000383:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.238 A=NA C2=0.413
Domain overlap (PFAM):
C1:
PF0008613=Thyroglobulin_1=WD(100=78.6)
A:
NA
C2:
PF0008613=Thyroglobulin_1=WD(100=88.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]