MD04G1105000.v1.1

nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0028693
Physical Location & Seq
Forward (+)
19260626 .. 19264215
3590 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1105000.v1.1.491

Sequence Viewer

Length: 300 bp
ATGAGTGAAATCGAAGAGAAAACGTGTCTGATATGTGCCGAGGAAATGGATTTGACGGATCAGCAACTAAAGCCGTGGAAATGCAGTTATGAGGTATGTGTTTGGTGCTGGCATCACATTATGGAAATGGGAGAGAAGGATGGAAAGGAGGGCCACAGTCCAGTATGTCGTACACCTTATGACAAGAAATTGTTGGAGTGGCAGCACATGGTATCGTTTCAGGTTAATGTATGTTGTTATGTGACAACTGACAAGTTGAGGATAGAAACTGTTTCCCTCCTTGAACGGATTGGTGACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03018 map03018
Pfam Domains
Protein Families
RRM_1 zf-RING_4

Protein Analysis

100

Amino Acids

11.69

Weight (kDa)

5.02

Isoelectric Point (pI)

45.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RING_4 PF14570 9 - 61 1.2e-14 RING/Ubox like zinc-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0028693)

Species Orthologous Gene IDs
malus_domestica MD04G1105000.v1.1
pyrus_communis pycom04g10040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 66
AfaI GTAC 1 cut(s) 172
AflIII ACRYGT 1 cut(s) 23
AgsI TTSAA 1 cut(s) 284
AlwI GGATC 1 cut(s) 66
AoxI GGCC 1 cut(s) 151
ApeKI GCWGC 1 cut(s) 202
AspS9I GGNCC 1 cut(s) 151
BbvI GCAGC 1 cut(s) 214
BccI CCATC 1 cut(s) 134
BceAI ACGGC 1 cut(s) 58
BisI GCNGC 1 cut(s) 203
BlsI GCNGC 1 cut(s) 204
BmgT120I GGNCC 1 cut(s) 151
BmsI GCATC 1 cut(s) 121
BsaJI CCNNGG 2 cut(s) 39, 74
Bse1I ACTGG 1 cut(s) 161
BseDI CCNNGG 2 cut(s) 39, 74
BseGI GGATG 1 cut(s) 145
BseNI ACTGG 1 cut(s) 161
BseXI GCAGC 1 cut(s) 214
BshFI GGCC 1 cut(s) 153
BsnI GGCC 1 cut(s) 153
Bsp143I GATC 1 cut(s) 58
BspANI GGCC 1 cut(s) 153
BspPI GGATC 1 cut(s) 66
BsrI ACTGG 1 cut(s) 161
BssECI CCNNGG 2 cut(s) 39, 74
BssMI GATC 1 cut(s) 58
Bst4CI ACNGT 2 cut(s) 158, 271
Bst6I CTCTTC 1 cut(s) 9
BstC8I GCNNGC 1 cut(s) 110
BstDSI CCRYGG 1 cut(s) 74
BstF5I GGATG 1 cut(s) 145
BstKTI GATC 1 cut(s) 61
BstMBI GATC 1 cut(s) 58
BstMWI GCNNNNNNNGC 1 cut(s) 70
BstV1I GCAGC 1 cut(s) 214
BsuRI GGCC 1 cut(s) 153
BtgI CCRYGG 1 cut(s) 74
BtsCI GGATG 1 cut(s) 145
Cac8I GCNNGC 1 cut(s) 110
Cfr13I GGNCC 1 cut(s) 151
Csp6I GTAC 1 cut(s) 171
CviAII CATG 1 cut(s) 208
CviJI RGCY 2 cut(s) 73, 153
CviKI_1 RGCY 2 cut(s) 73, 153
CviQI GTAC 1 cut(s) 171
DpnI GATC 1 cut(s) 60
DpnII GATC 1 cut(s) 58
Eam1104I CTCTTC 1 cut(s) 9
EarI CTCTTC 1 cut(s) 9
FaeI CATG 1 cut(s) 211
FaiI YATR 9 cut(s) 34, 90, 97, 122, 166, 180, 209, 232, 240
FatI CATG 1 cut(s) 207
Fnu4HI GCNGC 1 cut(s) 203
FokI GGATG 1 cut(s) 152
Fsp4HI GCNGC 1 cut(s) 203
GluI GCNGC 1 cut(s) 203
HaeIII GGCC 1 cut(s) 153
Hin1II CATG 1 cut(s) 211
Hpy166II GTNNAC 1 cut(s) 173
Hpy188I TCNGA 1 cut(s) 30
Hpy8I GTNNAC 1 cut(s) 173
HpyAV CCTTC 1 cut(s) 130
HpyCH4III ACNGT 2 cut(s) 158, 271
HpyCH4IV ACGT 1 cut(s) 23
HpyCH4V TGCA 1 cut(s) 84
HpyF10VI GCNNNNNNNGC 1 cut(s) 70
HpySE526I ACGT 1 cut(s) 23
Hsp92II CATG 1 cut(s) 211
Kzo9I GATC 1 cut(s) 58
LpnPI CCDG 3 cut(s) 94, 174, 206
Lsp1109I GCAGC 1 cut(s) 214
LweI GCATC 1 cut(s) 121
MaeII ACGT 1 cut(s) 23
MaeIII GTNAC 2 cut(s) 241, 293
MalI GATC 1 cut(s) 60
MboI GATC 1 cut(s) 58
MboII GAAGA 1 cut(s) 26
MluCI AATT 1 cut(s) 188
MmeI TCCRAC 1 cut(s) 174
MnlI CCTC 5 cut(s) 34, 85, 142, 252, 287
MseI TTAA 1 cut(s) 225
MwoI GCNNNNNNNGC 1 cut(s) 70
NdeII GATC 1 cut(s) 58
NlaIII CATG 1 cut(s) 211
NmeAIII GCCGAG 1 cut(s) 64
NmuCI GTSAC 2 cut(s) 241, 293
PkrI GCNGC 1 cut(s) 204
PspPI GGNCC 1 cut(s) 151
RsaI GTAC 1 cut(s) 172
RsaNI GTAC 1 cut(s) 171
SaqAI TTAA 1 cut(s) 225
SatI GCNGC 1 cut(s) 203
Sau3AI GATC 1 cut(s) 58
Sau96I GGNCC 1 cut(s) 151
SetI ASST 4 cut(s) 26, 96, 178, 225
SfaNI GCATC 1 cut(s) 121
Sse9I AATT 1 cut(s) 188
TaaI ACNGT 2 cut(s) 158, 271
TaiI ACGT 1 cut(s) 26
TaqI TCGA 1 cut(s) 12
TasI AATT 1 cut(s) 188
Tru1I TTAA 1 cut(s) 225
Tru9I TTAA 1 cut(s) 225
TseFI GTSAC 2 cut(s) 241, 293
TseI GCWGC 1 cut(s) 202
Tsp45I GTSAC 2 cut(s) 241, 293
TspGWI ACGGA 1 cut(s) 71
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.