Rh6CG172000

HVA22-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0000440
Physical Location & Seq
Reverse (-)
23896577 .. 23897644
1068 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG172000.1

Sequence Viewer

Length: 594 bp
ATGAATGAAAAAGCCATTGAGGGTGCAGCCTATAGAGAAATTCTGAAGACACCACCTCCAAAGAAAGTCCAGAAGGAGTGGACCACAGTCAGTCCGCTACAAACTCAAACTGATGCAACTTTGAGTTCCCCTCCTGGTGATAATAAAGACAAGGCTACATACAAGGCACTGAAGATAAAGAATGAGGCAGAGGCTAAGCTCACTTGGAGTGAAAACCGTGCTGTTGCAGCCATGGAAATATATGAAAAGCCGGTTGAGGTTGGAACAGGTATAGAAGGTGTAGAGACTCCTAAAGAAGTCCAGAAAGAGTGGACTTGTACTCTGTGTCAAGTAACCACTACATGTGAAAGCAATTTGAATTCCCACCTGCAAGGGCGAAAACACAAGGCAGCATATGAGGTAGTGAAAGCAAGGAACCAGGAATTTTTGCCCGAGATTGCCCCAGCTTCAACTGCAAAAACATCCAATCAACCAAATGAGGTGCCAGGAAAGAGTTCCCCGAGCAGTGGATCAAAACAAAAGGTTACTATAATTGAAAATTCGAAATCCATAGAGGCAAATGGTGGACGGAATGATATCAAAGCTGTGCAGTAA

Protein Analysis

197

Amino Acids

21.52

Weight (kDa)

8.64

Isoelectric Point (pI)

40.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-met PF12874 104 - 128 9.8e-10 Zinc-finger of C2H2 type
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: OG0000440)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20313 FvH4_2g11420 FvH4_2g11420 FvH4_2g11420 FvH4_2g11420 FvH4_2g11420 FvH4_2g11420 FvH4_2g11420 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_2g11450 FvH4_5g25851
prunus_persica Prupe.8G072900_v2.0.a1 Prupe.8G072900_v2.0.a1 Prupe.8G072900_v2.0.a1 Prupe.8G073000_v2.0.a1 Prupe.8G073000_v2.0.a1 Prupe.8G073000_v2.0.a1 Prupe.8G229300_v2.0.a1 Prupe.8G229300_v2.0.a1 Prupe.8G229300_v2.0.a1 Prupe.8G229300_v2.0.a1 Prupe.8G229300_v2.0.a1 Prupe.8G229300_v2.0.a1 Prupe.8G229300_v2.0.a1
pyrus_communis pycom01g01210 pycom02g12000 pycom10g21410 pycom11g11060 pycom13g24280
rosa_chinensis RchiOBHm_Chr3g0461871 RchiOBHm_Chr4g0427221 RchiOBHm_Chr4g0427231 RchiOBHm_Chr6g0270081 RchiOBHm_Chr6g0270121 RchiOBHm_Chr6g0270151 RchiOBHm_Chr6g0270161 RchiOBHm_Chr6g0270171 RchiOBHm_Chr6g0270181 RchiOBHm_Chr6g0270191 RchiOBHm_Chr7g0229301
rosa_laevigata RLG00000013809 RLG00000013810 RLG00000013812 RLG00000013814 RLG00000013817 RLG00000013818
rosa_multiflora Rmu_sc0000918.1_g000004 Rmu_sc0000918.1_g000019 Rmu_sc0000918.1_g000027 Rmu_sc0002817.1_g000013 Rmu_sc0004366.1_g000009 Rmu_sc0004376.1_g000011 Rmu_sc0004376.1_g000014 Rmu_sc0004376.1_g000021 Rmu_sc0006909.1_g000002 Rmu_sc0011356.1_g000003 Rmu_sc0011369.1_g000005 Rmu_sc0017552.1_g000001
rosa_roxburghii Rroxscaffold_5G00354200 Rroxscaffold_7G00198080 Rroxscaffold_7G00198090 Rroxscaffold_7G00198100 Rroxscaffold_7G00198130 Rroxscaffold_7G00198170
rosa_rugosa Rorug06G0052400 Rorug06G0052500 Rorug06G0053000
rosa_samantha Rh6AG171300 Rh6AG171400 Rh6AG171800 Rh6AG171900 Rh6AG172000 Rh6AG172100 Rh6AG369700 Rh6BG175800 Rh6BG175900 Rh6BG176200 Rh6BG176300 Rh6CG170900 Rh6CG171100 Rh6CG171400 Rh6CG171500 Rh6CG171700 Rh6CG171900 Rh6CG172000 Rh6CG172100
rosa_wichuraiana Rw6G014730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 375
Acc36I ACCTGC 1 cut(s) 375
AccB1I GGYRCC 1 cut(s) 481
AciI CCGC 1 cut(s) 95
AclWI GGATC 1 cut(s) 517
AcsI RAATTY 4 cut(s) 39, 358, 422, 538
AcuI CTGAAG 2 cut(s) 65, 191
AfaI GTAC 1 cut(s) 319
AfiI CCNNNNNNNGG 1 cut(s) 506
AflIII ACRYGT 1 cut(s) 341
AgsI TTSAA 3 cut(s) 358, 450, 536
AjnI CCWGG 3 cut(s) 133, 417, 484
AluBI AGCT 3 cut(s) 199, 446, 584
AluI AGCT 3 cut(s) 199, 446, 584
Alw26I GTCTC 1 cut(s) 278
AlwI GGATC 1 cut(s) 517
Ama87I CYCGRG 2 cut(s) 431, 499
ApeKI GCWGC 3 cut(s) 26, 227, 389
ApoI RAATTY 4 cut(s) 39, 358, 422, 538
Asp700I GAANNNNTTC 1 cut(s) 493
AspS9I GGNCC 1 cut(s) 81
AsuHPI GGTGA 1 cut(s) 149
AsuII TTCGAA 1 cut(s) 542
AvaI CYCGRG 2 cut(s) 431, 499
AvaII GGWCC 1 cut(s) 81
BanI GGYRCC 1 cut(s) 481
BbsI GAAGAC 1 cut(s) 53
BbvI GCAGC 3 cut(s) 38, 239, 401
BciT130I CCWGG 3 cut(s) 135, 419, 486
BcoDI GTCTC 1 cut(s) 278
BfmI CTRYAG 1 cut(s) 31
BfuAI ACCTGC 1 cut(s) 375
BisI GCNGC 3 cut(s) 27, 228, 390
BlpI GCTNAGC 1 cut(s) 195
BlsI GCNGC 3 cut(s) 28, 229, 391
Bme1390I CCNGG 3 cut(s) 135, 419, 486
Bme18I GGWCC 1 cut(s) 81
BmeT110I CYCGRG 2 cut(s) 431, 499
BmgT120I GGNCC 1 cut(s) 81
BmiI GGNNCC 2 cut(s) 416, 483
BmrFI CCNGG 3 cut(s) 135, 419, 486
BmsI GCATC 1 cut(s) 103
BoxI GACNNNNGTC 1 cut(s) 86
BpiI GAAGAC 1 cut(s) 53
BplI GAGNNNNNCTC 2 cut(s) 115, 147
Bpu1102I GCTNAGC 1 cut(s) 195
Bpu14I TTCGAA 1 cut(s) 542
BsaJI CCNNGG 1 cut(s) 231
BsaXI ACNNNNNCTCC 2 cut(s) 40, 70
Bsc4I CCNNNNNNNGG 1 cut(s) 506
Bse118I RCCGGY 1 cut(s) 250
BseBI CCWGG 3 cut(s) 135, 419, 486
BseDI CCNNGG 1 cut(s) 231
BseGI GGATG 1 cut(s) 461
BseLI CCNNNNNNNGG 1 cut(s) 506
BseXI GCAGC 3 cut(s) 38, 239, 401
BseYI CCCAGC 1 cut(s) 442
BsgI GTGCAG 1 cut(s) 45
BshNI GGYRCC 1 cut(s) 481
BsiHKCI CYCGRG 2 cut(s) 431, 499
BsiSI CCGG 1 cut(s) 251
BslI CCNNNNNNNGG 1 cut(s) 506
BsmAI GTCTC 1 cut(s) 278
BsoBI CYCGRG 2 cut(s) 431, 499
Bsp119I TTCGAA 1 cut(s) 542
Bsp143I GATC 1 cut(s) 509
Bsp1720I GCTNAGC 1 cut(s) 195
Bsp19I CCATGG 1 cut(s) 231
BspACI CCGC 1 cut(s) 95
BspLI GGNNCC 2 cut(s) 416, 483
BspMI ACCTGC 1 cut(s) 375
BspPI GGATC 1 cut(s) 517
BspT104I TTCGAA 1 cut(s) 542
BspT107I GGYRCC 1 cut(s) 481
BsrFI RCCGGY 1 cut(s) 250
BssAI RCCGGY 1 cut(s) 250
BssECI CCNNGG 1 cut(s) 231
BssMI GATC 1 cut(s) 509
BssT1I CCWWGG 1 cut(s) 231
Bst2UI CCWGG 3 cut(s) 135, 419, 486
Bst4CI ACNGT 2 cut(s) 88, 218
BstBI TTCGAA 1 cut(s) 542
BstDEI CTNAG 1 cut(s) 195
BstDSI CCRYGG 1 cut(s) 231
BstF5I GGATG 1 cut(s) 461
BstKTI GATC 1 cut(s) 512
BstMAI GTCTC 1 cut(s) 278
BstMBI GATC 1 cut(s) 509
BstMWI GCNNNNNNNGC 2 cut(s) 227, 452
BstNI CCWGG 3 cut(s) 135, 419, 486
BstNSI RCATGY 1 cut(s) 345
BstPAI GACNNNNGTC 1 cut(s) 86
BstSCI CCNGG 3 cut(s) 133, 417, 484
BstSFI CTRYAG 1 cut(s) 31
BstV1I GCAGC 3 cut(s) 38, 239, 401
BstV2I GAAGAC 1 cut(s) 53
BtgI CCRYGG 1 cut(s) 231
BtsCI GGATG 1 cut(s) 461
BtsI GCAGTG 1 cut(s) 511
BtsIMutI CAGTG 2 cut(s) 167, 511
BveI ACCTGC 1 cut(s) 375
Cfr10I RCCGGY 1 cut(s) 250
Cfr13I GGNCC 1 cut(s) 81
Csp6I GTAC 1 cut(s) 318
CviAII CATG 2 cut(s) 232, 342
CviJI RGCY 9 cut(s) 14, 29, 155, 194, 199, 230, 250, 446, 584
CviKI_1 RGCY 9 cut(s) 14, 29, 155, 194, 199, 230, 250, 446, 584
CviQI GTAC 1 cut(s) 318
DdeI CTNAG 1 cut(s) 195
DpnI GATC 1 cut(s) 511
DpnII GATC 1 cut(s) 509
Eco130I CCWWGG 1 cut(s) 231
Eco32I GATATC 1 cut(s) 577
Eco47I GGWCC 1 cut(s) 81
Eco57I CTGAAG 2 cut(s) 65, 191
Eco88I CYCGRG 2 cut(s) 431, 499
EcoRI GAATTC 1 cut(s) 358
EcoRII CCWGG 3 cut(s) 133, 417, 484
EcoRV GATATC 1 cut(s) 577
EcoT14I CCWWGG 1 cut(s) 231
ErhI CCWWGG 1 cut(s) 231
FaeI CATG 2 cut(s) 235, 345
FatI CATG 2 cut(s) 231, 341
FauNDI CATATG 1 cut(s) 394
Fnu4HI GCNGC 3 cut(s) 27, 228, 390
FokI GGATG 1 cut(s) 448
Fsp4HI GCNGC 3 cut(s) 27, 228, 390
GluI GCNGC 3 cut(s) 27, 228, 390
GsaI CCCAGC 1 cut(s) 446
HapII CCGG 1 cut(s) 251
Hin1II CATG 2 cut(s) 235, 345
HinfI GANTC 1 cut(s) 286
HpaII CCGG 1 cut(s) 251
HphI GGTGA 1 cut(s) 149
Hpy166II GTNNAC 3 cut(s) 81, 312, 566
Hpy188I TCNGA 1 cut(s) 45
Hpy188III TCNNGA 2 cut(s) 70, 301
Hpy8I GTNNAC 3 cut(s) 81, 312, 566
HpyAV CCTTC 2 cut(s) 67, 269
HpyCH4III ACNGT 2 cut(s) 88, 218
HpyCH4V TGCA 6 cut(s) 26, 116, 227, 370, 455, 589
HpyF10VI GCNNNNNNNGC 2 cut(s) 227, 452
HpyF3I CTNAG 1 cut(s) 195
Hsp92II CATG 2 cut(s) 235, 345
Kzo9I GATC 1 cut(s) 509
Lsp1109I GCAGC 3 cut(s) 38, 239, 401
LweI GCATC 1 cut(s) 103
MaeIII GTNAC 2 cut(s) 331, 523
MalI GATC 1 cut(s) 511
MboI GATC 1 cut(s) 509
MboII GAAGA 2 cut(s) 58, 184
MluCI AATT 6 cut(s) 39, 352, 358, 422, 531, 538
MlyI GAGTC 1 cut(s) 280
MmeI TCCRAC 1 cut(s) 241
MnlI CCTC 9 cut(s) 13, 66, 141, 178, 184, 250, 391, 472, 547
MroXI GAANNNNTTC 1 cut(s) 493
MspI CCGG 1 cut(s) 251
MspR9I CCNGG 3 cut(s) 135, 419, 486
MvaI CCWGG 3 cut(s) 135, 419, 486
MwoI GCNNNNNNNGC 2 cut(s) 227, 452
NcoI CCATGG 1 cut(s) 231
NdeI CATATG 1 cut(s) 394
NdeII GATC 1 cut(s) 509
NlaIII CATG 2 cut(s) 235, 345
NlaIV GGNNCC 2 cut(s) 416, 483
NspI RCATGY 1 cut(s) 345
NspV TTCGAA 1 cut(s) 542
PaqCI CACCTGC 1 cut(s) 375
PciI ACATGT 1 cut(s) 341
PdmI GAANNNNTTC 1 cut(s) 493
PkrI GCNGC 3 cut(s) 28, 229, 391
PleI GAGTC 1 cut(s) 280
PpsI GAGTC 1 cut(s) 280
PscI ACATGT 1 cut(s) 341
PshAI GACNNNNGTC 1 cut(s) 86
Psp6I CCWGG 3 cut(s) 133, 417, 484
PspFI CCCAGC 1 cut(s) 442
PspGI CCWGG 3 cut(s) 133, 417, 484
PspN4I GGNNCC 2 cut(s) 416, 483
PspPI GGNCC 1 cut(s) 81
RsaI GTAC 1 cut(s) 319
RsaNI GTAC 1 cut(s) 318
SatI GCNGC 3 cut(s) 27, 228, 390
Sau3AI GATC 1 cut(s) 509
Sau96I GGNCC 1 cut(s) 81
SchI GAGTC 1 cut(s) 280
ScrFI CCNGG 3 cut(s) 135, 419, 486
SfaNI GCATC 1 cut(s) 103
SfcI CTRYAG 1 cut(s) 31
SfuI TTCGAA 1 cut(s) 542
SinI GGWCC 1 cut(s) 81
Sse9I AATT 6 cut(s) 39, 352, 358, 422, 531, 538
SsiI CCGC 1 cut(s) 95
StyD4I CCNGG 3 cut(s) 133, 417, 484
StyI CCWWGG 1 cut(s) 231
TaaI ACNGT 2 cut(s) 88, 218
TaqI TCGA 1 cut(s) 542
TasI AATT 6 cut(s) 39, 352, 358, 422, 531, 538
TatI WGTACW 1 cut(s) 317
TscAI CASTG 2 cut(s) 174, 511
TseI GCWGC 3 cut(s) 26, 227, 389
TspDTI ATGAA 3 cut(s) 17, 21, 258
TspGWI ACGGA 1 cut(s) 583
TspRI CASTG 2 cut(s) 174, 511
VpaK11BI GGWCC 1 cut(s) 81
XapI RAATTY 4 cut(s) 39, 358, 422, 538
XceI RCATGY 1 cut(s) 345
XmnI GAANNNNTTC 1 cut(s) 493
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.