RchiOBHm_Chr4g0416571

Photosystem I reaction center subunit II

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0014442
Physical Location & Seq
Reverse (-)
41538181 .. 41539309
1129 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ38671

Sequence Viewer

Length: 840 bp
ATGAGAAACAGAGCACCAACATGGGGCAGACATTGTGTTACGTATCAGAATGCCCTGTCCTCATTGGCCAAGCCATATCTCCTTATCCAATACCAAATCCTCACCACCCGCATCAAATCCTTCAAACTCCCCACAATAACCTTCCCCATATCCATAACCCAAAAAACATTCAGTAGTACCACACCACAACTCTCCGTCTCTTCTCTCTCCCTGCCCAAAGTCATGGCCATGGCAACTCAAGCGACCCTCTTCACCCCAACCGCCTCAGCACCATGGAAACAGTCAGTCACCTCCACCTTCATGGCCCCAAAGTCACTGACCCTCTCCACCGCAGCGCCAAGACCCATGAGGATCGCAGCTGCTGAAGAGAAAACCGTGGCACCCACAAAGGAGGCCGAAGCTCCGGTTGGCTTCACCCCGCCGGAACTGGACCCAACAACCCCATCCCCAATCTTCGGCGGCAGCACCGGTGGGCTTCTCCGCAAGGCCCAAGAGGAAGAGTTCTACGTGATCACCTGGGAATCACCCAAGGAGCAAATCTTTGAGATGCCAACTGGTGGTGCAGCCATCATGAGGGAAGGACCTAACTTGTTGAAGCTGGCCAGGAAAGAGCAGTGTTTGGCTCTTGGGACAAGACTGAGGTCCAAGTACAAGATCAAGTACCAGTTTTACAGGGTGTTCCCTAATGGTGAGGTTCAGTATTTGCACCCAAAAGATGGAGTGTACCCTGAGAAGGTGAACCCAGGGCGCCAAGGAGTGGGGCTTAACTTCAGGTCCATTGGGAAGAATGTGAACCCAATTGAGGTCAAGTTCACCGGGAAGCAAGTGTATGACATATGA
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

279

Amino Acids

30.93

Weight (kDa)

9.87

Isoelectric Point (pI)

40.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PsaD PF02531 147 - 277 4.5e-68 PsaD
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)
AccB1I GGYRCC 2 cut(s) 379, 747
AccB7I CCANNNNNTGG 3 cut(s) 557, 716, 757
AciI CCGC 6 cut(s) 109, 261, 330, 419, 459, 481
AclWI GGATC 1 cut(s) 359
AcoI YGGCCR 3 cut(s) 66, 225, 600
AcuI CTGAAG 2 cut(s) 384, 754
AcyI GRCGYC 1 cut(s) 748
AfaI GTAC 4 cut(s) 178, 650, 662, 725
AfiI CCNNNNNNNGG 8 cut(s) 23, 455, 557, 573, 716, 733, 757, 802
AgeI ACCGGT 1 cut(s) 467
AgsI TTSAA 2 cut(s) 124, 595
AjnI CCWGG 3 cut(s) 515, 602, 742
AjuI GAANNNNNNNTTGG 2 cut(s) 390, 422
AluBI AGCT 3 cut(s) 359, 401, 598
AluI AGCT 3 cut(s) 359, 401, 598
Alw21I GWGCWC 1 cut(s) 16
Alw26I GTCTC 1 cut(s) 202
AlwI GGATC 1 cut(s) 359
AlwNI CAGNNNCTG 1 cut(s) 362
AoxI GGCC 6 cut(s) 66, 225, 303, 393, 486, 600
ApeKI GCWGC 5 cut(s) 332, 356, 359, 462, 563
AsiGI ACCGGT 1 cut(s) 467
AspLEI GCGC 2 cut(s) 337, 750
AspS9I GGNCC 6 cut(s) 304, 430, 487, 581, 642, 774
AsuC2I CCSGG 1 cut(s) 817
AsuHPI GGTGA 9 cut(s) 94, 244, 280, 406, 505, 516, 701, 748, 805
AvaII GGWCC 4 cut(s) 430, 581, 642, 774
BalI TGGCCA 3 cut(s) 68, 227, 602
BanI GGYRCC 2 cut(s) 379, 747
Bbv12I GWGCWC 1 cut(s) 16
BbvCI CCTCAGC 1 cut(s) 265
BbvI GCAGC 5 cut(s) 344, 346, 368, 474, 575
BccI CCATC 3 cut(s) 451, 575, 710
BciT130I CCWGG 3 cut(s) 517, 604, 744
BclI TGATCA 1 cut(s) 510
BcnI CCSGG 1 cut(s) 817
BcoDI GTCTC 1 cut(s) 202
BfoI RGCGCY 2 cut(s) 338, 751
BisI GCNGC 6 cut(s) 333, 357, 360, 460, 463, 564
BlsI GCNGC 6 cut(s) 334, 358, 361, 461, 464, 565
Bme1390I CCNGG 4 cut(s) 517, 604, 744, 817
Bme18I GGWCC 4 cut(s) 430, 581, 642, 774
BmgT120I GGNCC 6 cut(s) 304, 430, 487, 581, 642, 774
BmiI GGNNCC 4 cut(s) 306, 381, 432, 749
BmrFI CCNGG 4 cut(s) 517, 604, 744, 817
BmsI GCATC 2 cut(s) 120, 537
BoxI GACNNNNGTC 1 cut(s) 640
Bpu10I CCTNAGC 1 cut(s) 265
BpuEI CTTGAG 1 cut(s) 222
BpuMI CCSGG 1 cut(s) 817
BsaAI YACGTR 2 cut(s) 42, 508
BsaHI GRCGYC 1 cut(s) 748
BsaJI CCNNGG 8 cut(s) 228, 272, 375, 516, 528, 742, 743, 751
BsaWI WCCGGW 2 cut(s) 403, 467
Bsc4I CCNNNNNNNGG 8 cut(s) 23, 455, 557, 573, 716, 733, 757, 802
Bse118I RCCGGY 1 cut(s) 467
Bse1I ACTGG 3 cut(s) 432, 559, 664
BseBI CCWGG 3 cut(s) 517, 604, 744
BseDI CCNNGG 8 cut(s) 228, 272, 375, 516, 528, 742, 743, 751
BseGI GGATG 1 cut(s) 443
BseLI CCNNNNNNNGG 8 cut(s) 23, 455, 557, 573, 716, 733, 757, 802
BseMII CTCAG 3 cut(s) 279, 629, 720
BseNI ACTGG 3 cut(s) 432, 559, 664
BseXI GCAGC 5 cut(s) 344, 346, 368, 474, 575
BsgI GTGCAG 1 cut(s) 582
BshFI GGCC 6 cut(s) 68, 227, 305, 395, 488, 602
BshNI GGYRCC 2 cut(s) 379, 747
BshTI ACCGGT 1 cut(s) 467
BsiHKAI GWGCWC 1 cut(s) 16
BsiSI CCGG 4 cut(s) 404, 422, 468, 816
BslFI GGGAC 1 cut(s) 643
BslI CCNNNNNNNGG 8 cut(s) 23, 455, 557, 573, 716, 733, 757, 802
BsmAI GTCTC 1 cut(s) 202
BsmBI CGTCTC 1 cut(s) 202
BsmFI GGGAC 1 cut(s) 643
BsmI GAATGC 1 cut(s) 55
BsnI GGCC 6 cut(s) 68, 227, 305, 395, 488, 602
Bsp1286I GDGCHC 1 cut(s) 16
Bsp143I GATC 3 cut(s) 351, 510, 654
Bsp19I CCATGG 2 cut(s) 228, 272
BspACI CCGC 6 cut(s) 109, 261, 330, 419, 459, 481
BspANI GGCC 6 cut(s) 68, 227, 305, 395, 488, 602
BspCNI CTCAG 3 cut(s) 278, 630, 721
BspHI TCATGA 1 cut(s) 570
BspLI GGNNCC 4 cut(s) 306, 381, 432, 749
BspPI GGATC 1 cut(s) 359
BspT107I GGYRCC 2 cut(s) 379, 747
BsrFI RCCGGY 1 cut(s) 467
BsrI ACTGG 3 cut(s) 432, 559, 664
BssAI RCCGGY 1 cut(s) 467
BssECI CCNNGG 8 cut(s) 228, 272, 375, 516, 528, 742, 743, 751
BssMI GATC 3 cut(s) 351, 510, 654
BssNI GRCGYC 1 cut(s) 748
BssT1I CCWWGG 4 cut(s) 228, 272, 528, 751
Bst2UI CCWGG 3 cut(s) 517, 604, 744
Bst4CI ACNGT 2 cut(s) 282, 376
Bst6I CTCTTC 4 cut(s) 205, 254, 360, 492
BstACI GRCGYC 1 cut(s) 748
BstBAI YACGTR 2 cut(s) 42, 508
BstC8I GCNNGC 1 cut(s) 600
BstDEI CTNAG 3 cut(s) 265, 638, 729
BstDSI CCRYGG 3 cut(s) 228, 272, 375
BstF5I GGATG 1 cut(s) 443
BstH2I RGCGCY 2 cut(s) 338, 751
BstHHI GCGC 2 cut(s) 337, 750
BstKTI GATC 3 cut(s) 354, 513, 657
BstMAI GTCTC 1 cut(s) 202
BstMBI GATC 3 cut(s) 351, 510, 654
BstMWI GCNNNNNNNGC 1 cut(s) 239
BstNI CCWGG 3 cut(s) 517, 604, 744
BstPAI GACNNNNGTC 1 cut(s) 640
BstSCI CCNGG 4 cut(s) 515, 602, 742, 815
BstSNI TACGTA 1 cut(s) 42
BstV1I GCAGC 5 cut(s) 344, 346, 368, 474, 575
BstXI CCANNNNNNTGG 2 cut(s) 223, 301
BsuRI GGCC 6 cut(s) 68, 227, 305, 395, 488, 602
BtgI CCRYGG 3 cut(s) 228, 272, 375
BtsCI GGATG 1 cut(s) 443
BtsI GCAGTG 1 cut(s) 620
BtsIMutI CAGTG 2 cut(s) 314, 620
Cac8I GCNNGC 1 cut(s) 600
CaiI CAGNNNCTG 1 cut(s) 362
CciI TCATGA 1 cut(s) 570
CfoI GCGC 2 cut(s) 337, 750
Cfr10I RCCGGY 1 cut(s) 467
Cfr13I GGNCC 6 cut(s) 304, 430, 487, 581, 642, 774
Csp6I GTAC 4 cut(s) 177, 649, 661, 724
CspAI ACCGGT 1 cut(s) 467
CviAII CATG 7 cut(s) 21, 223, 229, 273, 301, 346, 571
CviQI GTAC 4 cut(s) 177, 649, 661, 724
DdeI CTNAG 3 cut(s) 265, 638, 729
DinI GGCGCC 1 cut(s) 749
DpnI GATC 3 cut(s) 353, 512, 656
DpnII GATC 3 cut(s) 351, 510, 654
EaeI YGGCCR 3 cut(s) 66, 225, 600
Eam1104I CTCTTC 4 cut(s) 205, 254, 360, 492
EarI CTCTTC 4 cut(s) 205, 254, 360, 492
Eco105I TACGTA 1 cut(s) 42
Eco130I CCWWGG 4 cut(s) 228, 272, 528, 751
Eco47I GGWCC 4 cut(s) 430, 581, 642, 774
Eco57I CTGAAG 2 cut(s) 384, 754
EcoO109I RGGNCCY 1 cut(s) 581
EcoRII CCWGG 3 cut(s) 515, 602, 742
EcoT14I CCWWGG 4 cut(s) 228, 272, 528, 751
EgeI GGCGCC 1 cut(s) 749
EheI GGCGCC 1 cut(s) 749
ErhI CCWWGG 4 cut(s) 228, 272, 528, 751
Esp3I CGTCTC 1 cut(s) 202
FaeI CATG 7 cut(s) 24, 226, 232, 276, 304, 349, 574
FaqI GGGAC 1 cut(s) 643
FatI CATG 7 cut(s) 20, 222, 228, 272, 300, 345, 570
FauI CCCGC 2 cut(s) 116, 426
FauNDI CATATG 1 cut(s) 836
FbaI TGATCA 1 cut(s) 510
Fnu4HI GCNGC 6 cut(s) 333, 357, 360, 460, 463, 564
FokI GGATG 1 cut(s) 430
Fsp4HI GCNGC 6 cut(s) 333, 357, 360, 460, 463, 564
GlaI GCGC 2 cut(s) 336, 749
GluI GCNGC 6 cut(s) 333, 357, 360, 460, 463, 564
HaeII RGCGCY 2 cut(s) 338, 751
HaeIII GGCC 6 cut(s) 68, 227, 305, 395, 488, 602
HapII CCGG 4 cut(s) 404, 422, 468, 816
HhaI GCGC 2 cut(s) 337, 750
Hin1I GRCGYC 1 cut(s) 748
Hin1II CATG 7 cut(s) 24, 226, 232, 276, 304, 349, 574
Hin6I GCGC 2 cut(s) 335, 748
HinP1I GCGC 2 cut(s) 335, 748
HinfI GANTC 1 cut(s) 521
HpaII CCGG 4 cut(s) 404, 422, 468, 816
HphI GGTGA 9 cut(s) 94, 244, 280, 406, 505, 516, 701, 748, 805
Hpy166II GTNNAC 4 cut(s) 724, 739, 793, 813
Hpy188I TCNGA 1 cut(s) 48
Hpy188III TCNNGA 1 cut(s) 571
Hpy8I GTNNAC 4 cut(s) 724, 739, 793, 813
HpyAV CCTTC 5 cut(s) 130, 151, 307, 572, 727
HpyCH4III ACNGT 2 cut(s) 282, 376
HpyCH4IV ACGT 2 cut(s) 41, 507
HpyCH4V TGCA 2 cut(s) 563, 706
HpyF10VI GCNNNNNNNGC 1 cut(s) 239
HpyF3I CTNAG 3 cut(s) 265, 638, 729
HpySE526I ACGT 2 cut(s) 41, 507
Hsp92I GRCGYC 1 cut(s) 748
Hsp92II CATG 7 cut(s) 24, 226, 232, 276, 304, 349, 574
HspAI GCGC 2 cut(s) 335, 748
KasI GGCGCC 1 cut(s) 747
Ksp22I TGATCA 1 cut(s) 510
Kzo9I GATC 3 cut(s) 351, 510, 654
LmnI GCTCC 2 cut(s) 406, 532
Lsp1109I GCAGC 5 cut(s) 344, 346, 368, 474, 575
LweI GCATC 2 cut(s) 120, 537
MaeII ACGT 2 cut(s) 41, 507
MaeIII GTNAC 3 cut(s) 37, 286, 312
MalI GATC 3 cut(s) 353, 512, 656
MboI GATC 3 cut(s) 351, 510, 654
MboII GAAGA 6 cut(s) 192, 241, 377, 445, 509, 796
MfeI CAATTG 1 cut(s) 798
MhlI GDGCHC 1 cut(s) 16
MlsI TGGCCA 3 cut(s) 68, 227, 602
MluCI AATT 1 cut(s) 798
MluNI TGGCCA 3 cut(s) 68, 227, 602
Mly113I GGCGCC 1 cut(s) 748
Mox20I TGGCCA 3 cut(s) 68, 227, 602
MscI TGGCCA 3 cut(s) 68, 227, 602
MseI TTAA 1 cut(s) 765
MslI CAYNNNNRTG 3 cut(s) 19, 227, 299
Msp20I TGGCCA 3 cut(s) 68, 227, 602
MspA1I CMGCKG 1 cut(s) 359
MspI CCGG 4 cut(s) 404, 422, 468, 816
MspR9I CCNGG 4 cut(s) 517, 604, 744, 817
MunI CAATTG 1 cut(s) 798
Mva1269I GAATGC 1 cut(s) 55
MvaI CCWGG 3 cut(s) 517, 604, 744
MwoI GCNNNNNNNGC 1 cut(s) 239
NarI GGCGCC 1 cut(s) 748
NciI CCSGG 1 cut(s) 817
NcoI CCATGG 2 cut(s) 228, 272
NdeI CATATG 1 cut(s) 836
NdeII GATC 3 cut(s) 351, 510, 654
NlaIII CATG 7 cut(s) 24, 226, 232, 276, 304, 349, 574
NlaIV GGNNCC 4 cut(s) 306, 381, 432, 749
NmuCI GTSAC 2 cut(s) 286, 312
PagI TCATGA 1 cut(s) 570
PasI CCCWGGG 1 cut(s) 743
PctI GAATGC 1 cut(s) 55
PfeI GAWTC 1 cut(s) 521
PflMI CCANNNNNTGG 3 cut(s) 557, 716, 757
PinAI ACCGGT 1 cut(s) 467
PkrI GCNGC 6 cut(s) 334, 358, 361, 461, 464, 565
PluTI GGCGCC 1 cut(s) 751
Ppu21I YACGTR 2 cut(s) 42, 508
PpuMI RGGWCCY 1 cut(s) 581
PshAI GACNNNNGTC 1 cut(s) 640
Psp5II RGGWCCY 1 cut(s) 581
Psp6I CCWGG 3 cut(s) 515, 602, 742
PspGI CCWGG 3 cut(s) 515, 602, 742
PspN4I GGNNCC 4 cut(s) 306, 381, 432, 749
PspPI GGNCC 6 cut(s) 304, 430, 487, 581, 642, 774
PspPPI RGGWCCY 1 cut(s) 581
PstNI CAGNNNCTG 1 cut(s) 362
PvuII CAGCTG 1 cut(s) 359
RsaI GTAC 4 cut(s) 178, 650, 662, 725
RsaNI GTAC 4 cut(s) 177, 649, 661, 724
RseI CAYNNNNRTG 3 cut(s) 19, 227, 299
SaqAI TTAA 1 cut(s) 765
SatI GCNGC 6 cut(s) 333, 357, 360, 460, 463, 564
Sau3AI GATC 3 cut(s) 351, 510, 654
Sau96I GGNCC 6 cut(s) 304, 430, 487, 581, 642, 774
ScrFI CCNGG 4 cut(s) 517, 604, 744, 817
SduI GDGCHC 1 cut(s) 16
SfaNI GCATC 2 cut(s) 120, 537
SfoI GGCGCC 1 cut(s) 749
SgrAI CRCCGGYG 1 cut(s) 467
SinI GGWCC 4 cut(s) 430, 581, 642, 774
SmiMI CAYNNNNRTG 3 cut(s) 19, 227, 299
SmlI CTYRAG 1 cut(s) 237
SmoI CTYRAG 1 cut(s) 237
SnaBI TACGTA 1 cut(s) 42
Sse9I AATT 1 cut(s) 798
SsiI CCGC 6 cut(s) 109, 261, 330, 419, 459, 481
SspDI GGCGCC 1 cut(s) 747
StyD4I CCNGG 4 cut(s) 515, 602, 742, 815
StyI CCWWGG 4 cut(s) 228, 272, 528, 751
TaaI ACNGT 2 cut(s) 282, 376
TaiI ACGT 2 cut(s) 44, 510
TasI AATT 1 cut(s) 798
TatI WGTACW 1 cut(s) 648
TauI GCSGC 1 cut(s) 462
TfiI GAWTC 1 cut(s) 521
Tru1I TTAA 1 cut(s) 765
Tru9I TTAA 1 cut(s) 765
TscAI CASTG 2 cut(s) 321, 620
TseFI GTSAC 2 cut(s) 286, 312
TseI GCWGC 5 cut(s) 332, 356, 359, 462, 563
Tsp45I GTSAC 2 cut(s) 286, 312
TspDTI ATGAA 1 cut(s) 289
TspGWI ACGGA 1 cut(s) 184
TspRI CASTG 2 cut(s) 321, 620
Van91I CCANNNNNTGG 3 cut(s) 557, 716, 757
VpaK11BI GGWCC 4 cut(s) 430, 581, 642, 774
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.