Rorug04G0143000

Photosystem I reaction center subunit II

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0014442
Physical Location & Seq
Forward (+)
23854021 .. 23854446
426 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0143000.1

Sequence Viewer

Length: 426 bp
ATGGACAGCGACACGGACCAACATGGTTTGCGCTTTAGTGAGGAACAATACCATAAATCCGGCCGCATTTCTAATGATGAGGATGGTTTATCGAGTGATGAGCCAAAAGGGGAGACATTCACATTTGGGTTGGATGAATCCACAGATTGTCTACGTTACAAGGGAAAGAAGTACGAAGACCTACAATTTTCAGATTTCAACGGAATTTTGTTTCGTTTAGTAGATGACGTTGAGAGATTTTATGCATACCACTCAATTGCGAAGGGGTTTTCCGTAAGGAAAATCAAATCCGACAAGGACCGTGATGGTGACATTTTCAGAAGATCACTCTGTTGTTCTAAGGAGGGGTGGCGTACAGTTAAAAATCCAAAGAAGTGTACAAAAGTGTATGGTAGTGCCCCCTCTCAAGTCACCAATAAAGAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00195 ko01100 map00195 map01100
Pfam Domains
Protein Families
PsaD

Protein Analysis

141

Amino Acids

16.26

Weight (kDa)

6.32

Isoelectric Point (pI)

39.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
FAR1 PF03101 79 - 124 7.9e-06 FAR1 DNA-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
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Orthologous Genes (Group: OG0014442)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G03130 AT4G02770
fragaria_vesca FvH4_4g15260
malus_domestica MD13G1191300.v1.1 MD16G1191400.v1.1
prunus_persica Prupe.1G011500_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0416571
rosa_laevigata RLG00000007973
rosa_multiflora Rmu_sc0003722.1_g000040
rosa_roxburghii Rroxscaffold_5G00360450
rosa_rugosa Rorug04G0143000
rosa_samantha Rh4AG205400 Rh4BG203000 Rh4CG216300 Rh4DG202500
rosa_wichuraiana Rw0G013510 Rw4G017390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 151
AciI CCGC 1 cut(s) 64
AcoI YGGCCR 1 cut(s) 61
AcsI RAATTY 1 cut(s) 204
AfaI GTAC 3 cut(s) 173, 355, 379
AgsI TTSAA 1 cut(s) 199
Alw26I GTCTC 1 cut(s) 107
AoxI GGCC 1 cut(s) 61
ApoI RAATTY 1 cut(s) 204
AspLEI GCGC 1 cut(s) 33
AspS9I GGNCC 2 cut(s) 16, 298
AsuHPI GGTGA 2 cut(s) 320, 403
AvaII GGWCC 2 cut(s) 16, 298
BaeGI GKGCMC 1 cut(s) 400
BbsI GAAGAC 1 cut(s) 183
BccI CCATC 2 cut(s) 77, 299
BcoDI GTCTC 1 cut(s) 107
BisI GCNGC 1 cut(s) 64
BlsI GCNGC 1 cut(s) 65
Bme18I GGWCC 2 cut(s) 16, 298
BmgT120I GGNCC 2 cut(s) 16, 298
BpiI GAAGAC 1 cut(s) 183
BpuEI CTTGAG 1 cut(s) 390
BseGI GGATG 2 cut(s) 88, 139
BseSI GKGCMC 1 cut(s) 400
BseX3I CGGCCG 1 cut(s) 61
Bsh1285I CGRYCG 1 cut(s) 64
BshFI GGCC 1 cut(s) 63
BsiEI CGRYCG 1 cut(s) 64
BsiSI CCGG 1 cut(s) 60
BsmAI GTCTC 1 cut(s) 107
BsnI GGCC 1 cut(s) 63
Bsp1286I GDGCHC 1 cut(s) 400
Bsp1407I TGTACA 1 cut(s) 377
Bsp143I GATC 1 cut(s) 323
BspACI CCGC 1 cut(s) 64
BspANI GGCC 1 cut(s) 63
BsrGI TGTACA 1 cut(s) 377
BssMI GATC 1 cut(s) 323
Bst4CI ACNGT 2 cut(s) 302, 358
BstAUI TGTACA 1 cut(s) 377
BstDEI CTNAG 1 cut(s) 339
BstF5I GGATG 2 cut(s) 88, 139
BstHHI GCGC 1 cut(s) 33
BstKTI GATC 1 cut(s) 326
BstMAI GTCTC 1 cut(s) 107
BstMBI GATC 1 cut(s) 323
BstMCI CGRYCG 1 cut(s) 64
BstSLI GKGCMC 1 cut(s) 400
BstV2I GAAGAC 1 cut(s) 183
BstZI CGGCCG 1 cut(s) 61
BsuRI GGCC 1 cut(s) 63
BtsCI GGATG 2 cut(s) 88, 139
CfoI GCGC 1 cut(s) 33
Cfr13I GGNCC 2 cut(s) 16, 298
Csp6I GTAC 3 cut(s) 172, 354, 378
CviAII CATG 1 cut(s) 23
CviJI RGCY 2 cut(s) 63, 103
CviKI_1 RGCY 2 cut(s) 63, 103
CviQI GTAC 3 cut(s) 172, 354, 378
DdeI CTNAG 1 cut(s) 339
DpnI GATC 1 cut(s) 325
DpnII GATC 1 cut(s) 323
EaeI YGGCCR 1 cut(s) 61
EagI CGGCCG 1 cut(s) 61
EclXI CGGCCG 1 cut(s) 61
Eco47I GGWCC 2 cut(s) 16, 298
Eco52I CGGCCG 1 cut(s) 61
EcoT22I ATGCAT 1 cut(s) 247
FaeI CATG 1 cut(s) 26
FaiI YATR 5 cut(s) 24, 54, 243, 247, 390
FatI CATG 1 cut(s) 22
FblI GTMKAC 1 cut(s) 151
Fnu4HI GCNGC 1 cut(s) 64
FokI GGATG 2 cut(s) 95, 146
Fsp4HI GCNGC 1 cut(s) 64
GlaI GCGC 1 cut(s) 32
GluI GCNGC 1 cut(s) 64
HaeIII GGCC 1 cut(s) 63
HapII CCGG 1 cut(s) 60
HhaI GCGC 1 cut(s) 33
Hin1II CATG 1 cut(s) 26
Hin6I GCGC 1 cut(s) 31
HinP1I GCGC 1 cut(s) 31
HinfI GANTC 1 cut(s) 137
HpaII CCGG 1 cut(s) 60
HphI GGTGA 2 cut(s) 320, 403
Hpy166II GTNNAC 2 cut(s) 152, 378
Hpy188I TCNGA 3 cut(s) 193, 292, 320
Hpy8I GTNNAC 2 cut(s) 152, 378
HpyAV CCTTC 1 cut(s) 256
HpyCH4III ACNGT 2 cut(s) 302, 358
HpyCH4IV ACGT 2 cut(s) 154, 228
HpyCH4V TGCA 1 cut(s) 245
HpyF3I CTNAG 1 cut(s) 339
HpySE526I ACGT 2 cut(s) 154, 228
Hsp92II CATG 1 cut(s) 26
HspAI GCGC 1 cut(s) 31
Kzo9I GATC 1 cut(s) 323
LpnPI CCDG 1 cut(s) 73
MaeII ACGT 2 cut(s) 154, 228
MaeIII GTNAC 3 cut(s) 155, 308, 409
MalI GATC 1 cut(s) 325
MboI GATC 1 cut(s) 323
MboII GAAGA 2 cut(s) 188, 333
MfeI CAATTG 1 cut(s) 255
MhlI GDGCHC 1 cut(s) 400
MluCI AATT 3 cut(s) 185, 204, 255
MmeI TCCRAC 2 cut(s) 111, 315
MnlI CCTC 4 cut(s) 34, 73, 337, 412
Mph1103I ATGCAT 1 cut(s) 247
MseI TTAA 1 cut(s) 360
MspI CCGG 1 cut(s) 60
MunI CAATTG 1 cut(s) 255
NdeII GATC 1 cut(s) 323
NlaIII CATG 1 cut(s) 26
NmuCI GTSAC 2 cut(s) 308, 409
NsiI ATGCAT 1 cut(s) 247
PfeI GAWTC 1 cut(s) 137
PkrI GCNGC 1 cut(s) 65
PspPI GGNCC 2 cut(s) 16, 298
RsaI GTAC 3 cut(s) 173, 355, 379
RsaNI GTAC 3 cut(s) 172, 354, 378
SaqAI TTAA 1 cut(s) 360
SatI GCNGC 1 cut(s) 64
Sau3AI GATC 1 cut(s) 323
Sau96I GGNCC 2 cut(s) 16, 298
SduI GDGCHC 1 cut(s) 400
SetI ASST 3 cut(s) 157, 183, 231
SgeI CNNG 8 cut(s) 25, 35, 72, 105, 172, 307, 314, 419
SinI GGWCC 2 cut(s) 16, 298
SmlI CTYRAG 1 cut(s) 405
SmoI CTYRAG 1 cut(s) 405
Sse9I AATT 3 cut(s) 185, 204, 255
SsiI CCGC 1 cut(s) 64
TaaI ACNGT 2 cut(s) 302, 358
TaiI ACGT 2 cut(s) 157, 231
TaqI TCGA 1 cut(s) 92
TasI AATT 3 cut(s) 185, 204, 255
TatI WGTACW 1 cut(s) 377
TauI GCSGC 1 cut(s) 66
TfiI GAWTC 1 cut(s) 137
Tru1I TTAA 1 cut(s) 360
Tru9I TTAA 1 cut(s) 360
TseFI GTSAC 2 cut(s) 308, 409
Tsp45I GTSAC 2 cut(s) 308, 409
TspDTI ATGAA 1 cut(s) 150
TspGWI ACGGA 3 cut(s) 29, 216, 262
VpaK11BI GGWCC 2 cut(s) 16, 298
XapI RAATTY 1 cut(s) 204
XmiI GTMKAC 1 cut(s) 151
Zsp2I ATGCAT 1 cut(s) 247
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.