DreINT0106117 @ danRer10
Intron Retention
Gene
ENSDARG00000052695 | nr2f1a
Description
nuclear receptor subfamily 2, group F, member 1a [Source:ZFIN;Acc:ZDB-GENE-980526-115]
Coordinates
chr5:49095702-49100038:+
Coord C1 exon
chr5:49095702-49096229
Coord A exon
chr5:49096230-49098776
Coord C2 exon
chr5:49098777-49100038
Length
2547 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GCTGTGTTTTGTCTACTCAGACG
3' ss Score
7.13
Exon sequences
Seq C1 exon
CGGTTCAGCGAGGAAGAATGCCTCCAACCCAACCGAACCCGGGCCAGTATGCGCTAACGAATGGGGATCCTCTGAACGGTCATTGCTATCTCTCCGGATACATCTCGTTACTACTTCGGGCCGAGCCTTATCCTACGTCTCGCTATGGCAGCCAGTGCATGCAGCCCAATAATATTATGGGGATCGAGAACATCTGTGAGCTTGCAGCTCGTCTGCTCTTCAGTGCAGTGGAATGGGCAAGGAACATCCCTTTCTTTCCCGATCTGCAGATCACCGACCAGGTGTCATTGCTCAGACTGACATGGAGCGAGTTATTTGTGCTAAACGCGGCTCAGTGTTCCATGCCCCTACATGTGGCCCCACTGCTCGCCGCTGCCGGCCTGCACGCCTCGCCCATGTCGGCGGATCGCGTCGTGGCCTTCATGGATCACATTCGTATCTTCCAGGAGCAGGTCGAGAAGCTCAAAGCACTGCACGTCGATTCTGCTGAATACAGCTGCATTAAGGCAATAGTGCTCTTCACGTCAG
Seq A exon
GTGAGTGTGTGAGACGAGGCCTACTCGCAGACATAAGGGGCATTGCAATATGGTACGAATAAGCTTCGGCATCGAAGCTATATCTCACTAGTGGGTCTTAAGCTAGCTTTTTATTTTGGTATCTCTTAGCGCACAATTAATGACGTGTGATTGATTAAAAGCCATTTGCCAATATTTAATGTTTAATGTTATGCAAAATGTCACGTTACTGTTATTAACGCAGTTACATTTTGCATTACTGGTGCTTGCCATATATATATATATATATATATATATATATATATAATTCAATATATAATTCTATATGTTTAGAAAGTATTTAGATATTTTTAGACAATTAAATGTAGATATTGTTAAGAATATTTTTTTCTAAATCAGCTCAAACAGTTAAGTTGACAGCTGCACAGGGCACCACAGTGTGCATACACAAATATAGATCTGGGGCCCTGTCTATTGCGACAAGTTGACTACAGAGGCCTCTGATATTAATAATTGATTTTGAGCTCATGTTATATTGCAAAATCAGTTTAATCAAATTCGCAAAACTATTCATTAGACTATTGCCAGTCTATTTAATGACAGGGTAATTTATAAAATAGTCTTGGAAAAAAAGCTAAACTCCTACTATTTTATACCATCACATTGATCGACACTAAATTACCCTCACACTCCAAGCATTGCAATTTATATTTACAATATACTCTCTTGTTCCGGCAACGGCAGAATATAATTTATATATTATTATATCATTTCAAGCAATGTCTAAACACACTGTTACAATATTAATGTTACTTTGCATGTTATTCGTAGGTATCTATTTAATTGCATTGTAATTTTATGTATAATGTAGCACAAATTTATTAGTTTACTACTTGACAAACAAAATAAATCATTTAGTACCTGCATTTCTTCAAATATTCAATAGAGGCATATATATATATATATATATATATATATCCCTTGGGAGAAAATAAGATGAAGCGTTCAAATTAGTTTTAGTAGGCCATGGCCAGATGGATACTTATTGCATTGATTTTCAAAACTTTGCGTTATTGTTGACTAGCATATGTAAGATATACATTTTTTTACGTAAAAAACAATTGTTTATGTTTCAATCATCTAATCTTTTCCACCGAAATGAAAAGTTGTATTTGTTTCTTAATGACGTCAGTCTCATACTAAACTGTGCTTACCCATCCTAGCAATGTGTTGCTTACAAAGCCTTCACATTTTAAAAGGTTTGAACTTGGTAACGAACCAGTACACTTGATAAGAAAACGTCTAGTCACTTTGCGATAAATCAGGTTTTTCTAATCTGTAAGAAGTGAAATCTGGTTTGTTGGCAGGCCGAAATGTTGCATACAGTTTTGAACTTCGTGTATATTTAATATTTAATAATATGCACAGTTGTTTCTAAAGTGTAAATCGTTAAGTAAACTATTAATAAAAAATATCCACTTACGAAACAAATAACTTTATATTTTGCTATTTTCTCTTCTTTTATAGCAGTGCGTTATGCACATTCTAGCCGCAGCTGAAAGTGGCCCATGAGGTCACATTACTAAGAGATTTTAGCAAGGACTTAGCTCAGTTCAGAAGTTCAGAAGGTTATTGTATTTGACCGCAGTGTGTTCTTGTCCAGTGCAATTAAGTTCATTCTCCGATGCATGTTGCACTCCATGGCTTTAATTTTTCACTTAAAATGAAGAAAACTTAAACTCTTATTTTGAATATCTTCAACAGCCGCCATATTAGAATACTGACACAATACGTATTGGCCGAGCGATAGTCTTGCTGAGGGGACATTTGGCAGCAGAATGAACTCCAATGGTTTGGTTGAGCGATATGCTTTGAAGTGTTGCATCTGTAAACATTTTAACAAAACGCCATTAATCGACATACACTACTCAACCTAATCATTTTACTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTATTTTCTGAAATTCTGGCTGTTGTGTGTGCCACAAGTAAGTCCACTATAATAGATGTGATTGTTTCCAGCGGCCTTGCCTCCTCATTCAAACTCACAGCAGAGGCAACTGCTGGTACAGGGAGAAATAACTCGGTAGCATCTGGAGAGCAATTAGGTCATAATTTGGTTATTACCATGCCCAATTCTCTGTCAGATATGCGGCTGGATATTTCCATATTTGACACAAGACATGAAGGCCTTCTCCATCCTCTTCAGTCGAGCTTACTGTGCACCCTCGTCTCAGCGTACTCTTTGTTTTGTCTGATTTGTGAGCGTGCATGTGGTATGTCCCCTACGACGCAGGGAATACGTCCTGTTACTCTTGAGGGATTGCTCAGTCGTATTGTTTATTTATATTACAGGCAGCCTCATACGCTGCGTGATGCATGATGTTGGGCTCGTGTTTGTTCATCTCACTTTGTCAACAACACGTAATGCTGATGCTGAATGATAACCTGGGCCTCTTTTCTGTGCTGTGTTTTGTCTACTCAG
Seq C2 exon
ACGCTTGCGGCCTGTCAGATGCTGCACACATCGAGAGTCTGCAGGAGAAGTCTCAGTGCGCCCTGGAGGAGTACGTGAGGAGCCAGTACCCGAACCAGCCCAGTCGCTTTGGCAAGCTTTTACTGCGACTGCCTTCTCTCCGCACTGTCTCTTCGTCAGTAATTGAACAGCTGTTCTTCGTTCGCTTGGTAGGTAAAACTCCCATTGAAACCCTCATCAGGGATATGTTATTATCCGGGAGCAGCTTCAACTGGCCCTACATGTCCATTCAATGATCCGAATGAGCGAGTGAAACAAAAAGACTAAAGGACCAAAATTCTGCAAGCCCTTTCAAGAAGACTATATATATAGGACCTAATTTCTGACCACTTAGGAAGACACTTTTTTGTCTTCTGGGACCGAATGGAATATGAAATGTACAAAGATTAAAGAACTGGACGTACCCCCTGTAAATCCATCGTCGTCATCAAGAACACTCTCCATTTTGTAAAATACTAGTCTTTATTTTATTTTCTTTTTTCTCTCATTTTTTTCTTTTTTCTTTTTATTTTTTTGTAAAGAACAAAATACGTACAAATAAAACGAAGAACATCATATGCGCAGTAAATGAGCAAGACTTAGCGGGAAAGAAATTTCCAAGCAATTATAAGAAATGTCCTGTGTCTATGTATCTCTGTTTTGTATTTTTTCTGGTTCTAAACCAGTTTTTTTCTGTGATTCTATACTAATGATTTTGATATAACCTTTTGCTTCTTATAATGAGTGCGATATATGTTGTTGAAGATGTTCTCCAAGAATTAAAATTGAAGTGAGAATTTAAAAATAAAGAAAAACATTAGACAAATAAGACACAGTCTAATCGCAATGACAATTTTACTGATGGTTGAACCTTCCCCCACTTTGATGCTATGGACATGCAACTTCGGCAAATCTGACCTCATGGACATTTTAAGGAGAGGACACCGGTGAAACTTTTTCTTGGTCGTATGTGTGTGCGAGTGTGTGTGTGTGTGTGTGTGTGTTGAGTCAATCATCAGTCAGAGAGAAAAGACATGATAAATCAAAAGCACTTTTAATATATCATTTTCAAATACATTTTGTTTGTTTCGTCTTGATATTTCCGCTATTTCTTTTTTATTGAATGTTGCCTTTCATTTCTGCTCAATCCATGATATGCCTGTGCAGAAGGGTCGCGTGAAGTTGTGTGATGGTGACTATACTATTAAAAAGGAAATAGGCAACAATGTCTCGCTCTCAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052695:ENSDART00000133384:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.096 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(67.3=74.6)
A:
NA
C2:
PF0010425=Hormone_recep=PD(32.1=68.5)
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:
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]