Special

MmuINT1035739 @ mm10

Intron Retention

Gene
Description
zinc finger protein 790 [Source:MGI Symbol;Acc:MGI:1923431]
Coordinates
chr7:29823070-29824953:+
Coord C1 exon
chr7:29823070-29823144
Coord A exon
chr7:29823145-29824829
Coord C2 exon
chr7:29824830-29824953
Length
1685 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CTGGGTTTGTCTCATGGCAGGTA
3' ss Score
8.14
Exon sequences
Seq C1 exon
AAGCTGGCCTCATCGACATAGGAATCAAGACGAGGACTGACTGGCCACTTTTAGGAGTTTCCAATCATGGCCCAC
Seq A exon
GTGAGTTCATATTGTCTCAACAATCACTATTTCTCCTCACAGGAATGTCCTTGTCTCTCATTCTGCAAGGTCAGTGGTGCCGTGGGGCAGTCTGGGCCCTTTTGTGCTTGGCGCTCTTTCTTCTGTTAGTAGACCCTTATGTCTCCCACACGGCAAAAAGCCCGGGGATTTGGGGTTTTTTGTTTGTTTATATTTATTTATTTTACTTTCTCGCTTTACATCCCTCTTAGTGCCTCACCTCCTGGCCACCTCCTCCCACAACTTTTCCCCCACCCCCTTCTCCTCTGAGCAGGTAGGGATCCCTGGGGATCCCCCTCACCCCCAGCACATCAAGTCTCTATGAGGCTAGGCGCTTCCTCTCCTACTGAGGCCAGACAAGGCAGCCCAGCTAGAAGAACATAGCCCACAGACAGGCAGCAGCCTTTGGGATAGCCCCTGCACTGGTTGTTCATGACCCACATGAAGGTCAAGCTGCACATCTGCTTCATATGAGGTCCAGCCCATGTGTGTTCTTTGGTTGGTAGTTCAGATTCTGAGAGCCCCAAGGGTCCAGGTTCGTTGACGGTGTTGGTCTTCCTGTGGAGTTCCTATCTAATCAGGAAGAAAACGTGACTGTGGAGGGCGTCCTAGACTGTCACGTCAGATCCACGGATGGGATGATGGGGACAGATCACAGGAAGGTTTTCACGTACTGTCTGTGCAGACTGGAGCATTTCAGTCAGCCAGGAGGAGACTTGGTGCAGTTCGGGGCCTGTTTCCGTGTGTGGCTCTTTCTGGCGCACTTAGAGGTCATGACGGAAACCCTGAGGGTACCAAGACCTGGGGATTAGGGAGAAGTCAGTTGACTGACAGTTGCTTACAGGAAGCAACGTGTTCCGCTCAGACACAAGCAAAACAAAACAAAAAAATCTAGTATTTATTTTGGGAATACATCTCTAAAGAATTCTTTGAATTTGAACTGATGGAAAAATTGGACAGAAAATACCCACCTCTAAAAGAACAAACACCCACAGAGTGACCAGATTTACTCGTGGTTTATGTACATCTGGAGCCAGCGACTTCAAATAGGTGTCGTCTCTCCAGGATGTCTTTTCTGCATCCTCGTGTCTTTTGTCTGTGACGCTGATAAGGATGTTGTGATCAAGCAATAGTTTGTTTTTATACTATATGTATATATATATACATATATATATATATACACACATATATATACACACATACATACATATATATGTATATACATACATATATATACACACATACATACATATATATATATACACACACACACACACACACACACACATATATATATATATATACTAGTGAGTATATGTATCTGCTTCTGTAAATAACATAATGGGGGGTGGGGAGCCGGCAGAGGCTCCCCTGGAGCCATGGGCAGTATGGCCACCCAGGATGGATACTTGGAACTCAGTTCAGAACCTCTATAAGAGCAGCAAGCAAGCACAAAACCACTGAGCCATCCCCCCAGCGTAGTCGTTTTTAAGAGCCTATGGGCACTCAACTCCATGTGCCACGCATGGTCCCGTGACCCTTTCTCCCGAACCACAAACTGCCAACTCTGTGGACCATTCCCCACCCTGCCCTTCCCATCCGTCTACCTCCCAGCTGAGTCATTTCTTTAACTTTCACCATTTAACACTGGGTTTGTCTCATGGCAG
Seq C2 exon
GTAATGACATTCAGAGATGTGGCCGTAGACTTCTCTCCAGAGGAGTGGGAGTGTCTGAGCCTGGACCAGAAGAGTTTATACCGAGATGTCATGCTGGAGAACTACAGCCACCTTGTCTCAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000011427:ENSMUST00000178162:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion (1st CDS intron)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=97.6)


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGCCTCATCGACATAGG
R:
CCACTGAGACAAGGTGGCTGT
Band lengths:
198-1883
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types