Rorug04G0022300

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000671
Physical Location & Seq
Reverse (-)
3182457 .. 3182836
380 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0022300.1

Sequence Viewer

Length: 360 bp
ATGTGCAAAAGTTACTACAACGCCACTGGAGTTGTTAAGGATATGGATGAGAATGAAAAAAGGAACTTTGAGCATATTATTCAAGGTATGGCAGCTAGCAGTCTCAGATGCATAGCATTTGCACATAAACAAGTTCCAGCAGAGGAGCAACTAAATGCAGACCAGAAAGTTTTGCTAAAGGAAGATGGATTGACCCTATTGGGACTTGTGGACCTTAAAGATCCATGTCGTCCAGGTGTGAGAAAAGCAGTTGAAGATTGCCAATATGCAGGGGTGAACGTCAAAATCGAAAACCCAAAACCACAAAAACCATGCAACCAAGCAATAAACCACAAAACCCAGAAGAAAAACACGAATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
DEAD HA2 Helicase_C OB_NTP_bind S1

Protein Analysis

119

Amino Acids

13.32

Weight (kDa)

8.59

Isoelectric Point (pI)

31.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cation_ATPase PF13246 2 - 78 1e-11 P-type ATPase, cytoplasmic domain N
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000671)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26560
fragaria_vesca FvH4_3g44820 FvH4_4g07500 FvH4_4g07500 FvH4_4g07500 FvH4_4g07850 FvH4_4g07850 FvH4_7g12750
malus_domestica MD09G1231900.v1.1 MD15G1068900.v1.1 MD15G1069000.v1.1 MD16G1254900.v1.1 MD17G1229800.v1.1
prunus_persica Prupe.1G082300_v2.0.a1 Prupe.1G368500_v2.0.a1 Prupe.1G422500_v2.0.a1 Prupe.2G077500_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G078200_v2.0.a1
pyrus_communis pycom08g06730 pycom09g15120 pycom15g06530 pycom16g21640 pycom17g23220 pycom17g23230 pycom17g23240
rosa_chinensis RchiOBHm_Chr1g0351781 RchiOBHm_Chr4g0400041 RchiOBHm_Chr4g0401121 RchiOBHm_Chr5g0079971 RchiOBHm_Chr5g0081521 RchiOBHm_Chr7g0219091
rosa_laevigata RLG00000009162 RLG00000009217 RLG00000028384 RLG00000036944
rosa_multiflora Rmu_co8434143.1_g000001 Rmu_sc0001909.1_g000017 Rmu_sc0001909.1_g000025 Rmu_sc0001933.1_g000012 Rmu_sc0004005.1_g000001 Rmu_sc0007702.1_g000002 Rmu_sc0010608.1_g000004
rosa_roxburghii Rroxscaffold_1G00002030 Rroxscaffold_4G00303550 Rroxscaffold_5G00345000 Rroxscaffold_5G00345950 Rroxscaffold_5G00345970
rosa_rugosa Rorug01G0221400 Rorug01G0221500 Rorug04G0022300 Rorug04G0022400 Rorug04G0028000 Rorug05G0476900
rosa_samantha Rh1AG235400 Rh1BG205800 Rh1CG220000 Rh1DG232900 Rh2AG475800 Rh2BG083000 Rh2CG085000 Rh4AG097800 Rh4AG105600 Rh4AG109800 Rh4BG095800 Rh4CG107200 Rh4CG114200 Rh4DG092600 Rh4DG097800 Rh5BG553100 Rh5DG563200
rosa_wichuraiana Rw1G020490 Rw4G008160 Rw4G008530 Rw5G049150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 215
AgsI TTSAA 2 cut(s) 83, 254
AjnI CCWGG 1 cut(s) 232
AluBI AGCT 1 cut(s) 95
AluI AGCT 1 cut(s) 95
Alw26I GTCTC 1 cut(s) 107
AlwI GGATC 1 cut(s) 215
ApeKI GCWGC 1 cut(s) 92
AspS9I GGNCC 1 cut(s) 211
AsuHPI GGTGA 1 cut(s) 286
AsuNHI GCTAGC 1 cut(s) 95
AvaII GGWCC 1 cut(s) 211
BbvI GCAGC 1 cut(s) 104
BccI CCATC 1 cut(s) 179
BciT130I CCWGG 1 cut(s) 234
BcoDI GTCTC 1 cut(s) 107
BfaI CTAG 1 cut(s) 96
BisI GCNGC 1 cut(s) 93
BlsI GCNGC 1 cut(s) 94
Bme1390I CCNGG 1 cut(s) 234
Bme18I GGWCC 1 cut(s) 211
BmgT120I GGNCC 1 cut(s) 211
BmrFI CCNGG 1 cut(s) 234
BmsI GCATC 1 cut(s) 98
BmtI GCTAGC 1 cut(s) 99
BpmI CTGGAG 1 cut(s) 48
Bse1I ACTGG 1 cut(s) 31
BseBI CCWGG 1 cut(s) 234
BseGI GGATG 1 cut(s) 52
BseMII CTCAG 1 cut(s) 118
BseNI ACTGG 1 cut(s) 31
BseRI GAGGAG 1 cut(s) 158
BseXI GCAGC 1 cut(s) 104
BslFI GGGAC 1 cut(s) 216
BsmAI GTCTC 1 cut(s) 107
BsmFI GGGAC 1 cut(s) 216
Bsp143I GATC 1 cut(s) 220
BspCNI CTCAG 1 cut(s) 117
BspOI GCTAGC 1 cut(s) 99
BspPI GGATC 1 cut(s) 215
BsrI ACTGG 1 cut(s) 31
BssMI GATC 1 cut(s) 220
Bst2UI CCWGG 1 cut(s) 234
BstC8I GCNNGC 1 cut(s) 97
BstDEI CTNAG 1 cut(s) 104
BstF5I GGATG 1 cut(s) 52
BstKTI GATC 1 cut(s) 223
BstMAI GTCTC 1 cut(s) 107
BstMBI GATC 1 cut(s) 220
BstNI CCWGG 1 cut(s) 234
BstSCI CCNGG 1 cut(s) 232
BstV1I GCAGC 1 cut(s) 104
BstX2I RGATCY 1 cut(s) 220
BstYI RGATCY 1 cut(s) 220
BtsCI GGATG 1 cut(s) 52
BtsIMutI CAGTG 1 cut(s) 24
Cac8I GCNNGC 1 cut(s) 97
Cfr13I GGNCC 1 cut(s) 211
CspCI CAANNNNNGTGG 2 cut(s) 13, 48
CviAII CATG 2 cut(s) 225, 312
CviJI RGCY 1 cut(s) 95
CviKI_1 RGCY 1 cut(s) 95
DdeI CTNAG 1 cut(s) 104
DpnI GATC 1 cut(s) 222
DpnII GATC 1 cut(s) 220
Eco47I GGWCC 1 cut(s) 211
EcoRII CCWGG 1 cut(s) 232
EcoT22I ATGCAT 1 cut(s) 113
FaeI CATG 2 cut(s) 228, 315
FaiI YATR 8 cut(s) 44, 75, 89, 113, 126, 226, 267, 313
FaqI GGGAC 1 cut(s) 216
FatI CATG 2 cut(s) 224, 311
Fnu4HI GCNGC 1 cut(s) 93
FokI GGATG 1 cut(s) 59
Fsp4HI GCNGC 1 cut(s) 93
FspBI CTAG 1 cut(s) 96
GluI GCNGC 1 cut(s) 93
GsuI CTGGAG 1 cut(s) 48
Hin1II CATG 2 cut(s) 228, 315
HphI GGTGA 1 cut(s) 286
Hpy166II GTNNAC 2 cut(s) 211, 277
Hpy188I TCNGA 1 cut(s) 107
Hpy8I GTNNAC 2 cut(s) 211, 277
HpyCH4IV ACGT 1 cut(s) 279
HpyCH4V TGCA 6 cut(s) 6, 111, 122, 158, 269, 315
HpyF3I CTNAG 1 cut(s) 104
HpySE526I ACGT 1 cut(s) 279
Hsp92II CATG 2 cut(s) 228, 315
Kzo9I GATC 1 cut(s) 220
LmnI GCTCC 1 cut(s) 145
LpnPI CCDG 7 cut(s) 12, 150, 176, 219, 246, 255, 353
Lsp1109I GCAGC 1 cut(s) 104
LweI GCATC 1 cut(s) 98
MaeI CTAG 1 cut(s) 96
MaeII ACGT 1 cut(s) 279
MaeIII GTNAC 1 cut(s) 11
MalI GATC 1 cut(s) 222
MboI GATC 1 cut(s) 220
MboII GAAGA 3 cut(s) 194, 266, 355
MflI RGATCY 1 cut(s) 220
MluCI AATT 1 cut(s) 355
MnlI CCTC 1 cut(s) 136
Mph1103I ATGCAT 1 cut(s) 113
MseI TTAA 3 cut(s) 36, 216, 358
MspR9I CCNGG 1 cut(s) 234
MvaI CCWGG 1 cut(s) 234
NdeII GATC 1 cut(s) 220
NheI GCTAGC 1 cut(s) 95
NlaIII CATG 2 cut(s) 228, 315
NsiI ATGCAT 1 cut(s) 113
PcsI WCGNNNNNNNCGW 1 cut(s) 285
PkrI GCNGC 1 cut(s) 94
Psp6I CCWGG 1 cut(s) 232
PspGI CCWGG 1 cut(s) 232
PspPI GGNCC 1 cut(s) 211
PsuI RGATCY 1 cut(s) 220
SaqAI TTAA 3 cut(s) 36, 216, 358
SatI GCNGC 1 cut(s) 93
Sau3AI GATC 1 cut(s) 220
Sau96I GGNCC 1 cut(s) 211
ScrFI CCNGG 1 cut(s) 234
SetI ASST 5 cut(s) 88, 97, 216, 238, 282
SfaNI GCATC 1 cut(s) 98
SinI GGWCC 1 cut(s) 211
Sse9I AATT 1 cut(s) 355
SspMI CTAG 1 cut(s) 96
StyD4I CCNGG 1 cut(s) 232
TaiI ACGT 1 cut(s) 282
TaqI TCGA 1 cut(s) 288
TasI AATT 1 cut(s) 355
Tru1I TTAA 3 cut(s) 36, 216, 358
Tru9I TTAA 3 cut(s) 36, 216, 358
TscAI CASTG 1 cut(s) 31
TseI GCWGC 1 cut(s) 92
TspDTI ATGAA 1 cut(s) 69
TspRI CASTG 1 cut(s) 31
VpaK11BI GGWCC 1 cut(s) 211
XspI CTAG 1 cut(s) 96
Zsp2I ATGCAT 1 cut(s) 113
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.