Rh1AG000400

Clp protease-related protein At4g12060

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0012795
Physical Location & Seq
Reverse (-)
121761 .. 126839
5079 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG000400.1

Sequence Viewer

Length: 618 bp
ATGACGTACCCGAGCCTCGTATCAGTCTTTAGACTTCCTTATAAGGATCTTCGACGTTCATGGCATGGGCTTACCCTTGGGCCTAAGCCCTTTGCATCTGTCGCCACCGTTCTCTTCAGCCTCCCAACAGGGAAACCAGAGAGGATTTCTTCTGGGAAAAGCTCACAATGGTCGGCTAGAGCGATTAAGTCGTTTGCTATGGGTGAATTGGAAGCAAGGAAGCTCAAGTATCCCAATACTGGCACGGAAGCCCTTCTGATGGGAATTTTAGTCGAGGGAACAAGTATAGCTGCGAAGTTTCTCAGAGCTAATGGAATCACGCTTTTCAAGGTTCGAGAAGAAACTGTAAAGTTACTTGGAAAGTCAGACATGTACTTTTTCAGCCCCGAGCATCCTCCATTGACTGAGCCAGCTCAGAGGGCCCTTGACTGGGCTGTAGATCAAAAACTGAAGTCAGGAGACGGTGGGGAAATAACAGTAACTCATCTGCTTCTCGGGATTTGGTCTGAAAAAGAGTCAGCAGGTCACAAGATCTTGGTGTCCCTGGGTTTTGATGATGAGAAAGCAAAAGAGCTTTCTGTATCTATGGACAAGGATTATGTTCCTAGCTATAAATAA

Protein Analysis

205

Amino Acids

22.68

Weight (kDa)

9.28

Isoelectric Point (pI)

31.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Clp_N PF02861 60 - 180 1.9e-14 Clp repeat (R) N-terminal 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: OG0012795)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25370
fragaria_vesca FvH4_7g00050
malus_domestica MD00G1055600.v1.1 MD02G1320000.v1.1
prunus_persica Prupe.2G002100_v2.0.a1
pyrus_communis pycom07g00100
rosa_chinensis RchiOBHm_Chr1g0313031 RchiOBHm_Chr1g0313191
rosa_laevigata RLG00000030817
rosa_multiflora Rmu_co8509777.1_g000001
rosa_roxburghii Rroxscaffold_4G00332400
rosa_rugosa RorugPtG0001300.1
rosa_samantha Rh1AG000400 Rh1AG001500 Rh1CG003500 Rh1CG006100 Rh1DG001400
rosa_wichuraiana Rw1G000050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 42
Acc36I ACCTGC 1 cut(s) 512
AclWI GGATC 1 cut(s) 54
AcsI RAATTY 1 cut(s) 264
AcuI CTGAAG 2 cut(s) 100, 470
AfaI GTAC 2 cut(s) 8, 374
AfiI CCNNNNNNNGG 4 cut(s) 239, 259, 429, 430
AflIII ACRYGT 1 cut(s) 369
AgsI TTSAA 1 cut(s) 328
AjnI CCWGG 1 cut(s) 543
AluBI AGCT 7 cut(s) 162, 223, 290, 308, 413, 574, 609
AluI AGCT 7 cut(s) 162, 223, 290, 308, 413, 574, 609
Alw26I GTCTC 1 cut(s) 453
AlwI GGATC 1 cut(s) 54
Ama87I CYCGRG 3 cut(s) 10, 386, 494
AoxI GGCC 2 cut(s) 80, 420
ApaI GGGCCC 1 cut(s) 424
ApeKI GCWGC 1 cut(s) 290
ApoI RAATTY 1 cut(s) 264
Asp700I GAANNNNTTC 1 cut(s) 252
AspS9I GGNCC 3 cut(s) 80, 420, 421
AsuHPI GGTGA 1 cut(s) 215
AvaI CYCGRG 3 cut(s) 10, 386, 494
BaeGI GKGCMC 1 cut(s) 424
BanII GRGCYC 1 cut(s) 424
BbvI GCAGC 1 cut(s) 277
BccI CCATC 1 cut(s) 253
BciT130I CCWGG 1 cut(s) 545
BciVI GTATCC 1 cut(s) 240
BcoDI GTCTC 1 cut(s) 453
BfaI CTAG 2 cut(s) 177, 606
BfmI CTRYAG 1 cut(s) 435
BfuAI ACCTGC 1 cut(s) 512
BfuI GTATCC 1 cut(s) 240
BglII AGATCT 1 cut(s) 531
BisI GCNGC 1 cut(s) 291
BlsI GCNGC 1 cut(s) 292
Bme1390I CCNGG 1 cut(s) 545
BmeT110I CYCGRG 3 cut(s) 10, 386, 494
BmgT120I GGNCC 3 cut(s) 80, 420, 421
BmiI GGNNCC 1 cut(s) 422
BmrFI CCNGG 1 cut(s) 545
BmrI ACTGGG 1 cut(s) 439
BmsI GCATC 2 cut(s) 104, 400
BmuI ACTGGG 1 cut(s) 439
Bpu10I CCTNAGC 1 cut(s) 84
BpuEI CTTGAG 1 cut(s) 209
BsaJI CCNNGG 3 cut(s) 76, 543, 544
Bsc4I CCNNNNNNNGG 4 cut(s) 239, 259, 429, 430
Bse1I ACTGG 2 cut(s) 244, 434
BseBI CCWGG 1 cut(s) 545
BseDI CCNNGG 3 cut(s) 76, 543, 544
BseGI GGATG 1 cut(s) 391
BseLI CCNNNNNNNGG 4 cut(s) 239, 259, 429, 430
BseMII CTCAG 3 cut(s) 316, 396, 428
BseNI ACTGG 2 cut(s) 244, 434
BseSI GKGCMC 1 cut(s) 424
BseXI GCAGC 1 cut(s) 277
BshFI GGCC 2 cut(s) 82, 422
BsiHKCI CYCGRG 3 cut(s) 10, 386, 494
BslFI GGGAC 1 cut(s) 526
BslI CCNNNNNNNGG 4 cut(s) 239, 259, 429, 430
BsmAI GTCTC 1 cut(s) 453
BsmBI CGTCTC 1 cut(s) 453
BsmFI GGGAC 1 cut(s) 526
BsnI GGCC 2 cut(s) 82, 422
BsoBI CYCGRG 3 cut(s) 10, 386, 494
Bsp120I GGGCCC 1 cut(s) 420
Bsp1286I GDGCHC 1 cut(s) 424
Bsp143I GATC 3 cut(s) 46, 439, 531
BspANI GGCC 2 cut(s) 82, 422
BspCNI CTCAG 3 cut(s) 315, 397, 427
BspLI GGNNCC 1 cut(s) 422
BspMI ACCTGC 1 cut(s) 512
BspPI GGATC 1 cut(s) 54
BsrI ACTGG 2 cut(s) 244, 434
BssECI CCNNGG 3 cut(s) 76, 543, 544
BssMI GATC 3 cut(s) 46, 439, 531
BssT1I CCWWGG 1 cut(s) 76
Bst2UI CCWGG 1 cut(s) 545
Bst4CI ACNGT 4 cut(s) 109, 346, 464, 478
Bst6I CTCTTC 1 cut(s) 119
BstC8I GCNNGC 1 cut(s) 411
BstDEI CTNAG 4 cut(s) 84, 302, 405, 414
BstF5I GGATG 1 cut(s) 391
BstKTI GATC 3 cut(s) 49, 442, 534
BstMAI GTCTC 1 cut(s) 453
BstMBI GATC 3 cut(s) 46, 439, 531
BstMWI GCNNNNNNNGC 2 cut(s) 101, 419
BstNI CCWGG 1 cut(s) 545
BstNSI RCATGY 1 cut(s) 373
BstSCI CCNGG 1 cut(s) 543
BstSFI CTRYAG 1 cut(s) 435
BstSLI GKGCMC 1 cut(s) 424
BstV1I GCAGC 1 cut(s) 277
BstX2I RGATCY 2 cut(s) 46, 531
BstYI RGATCY 2 cut(s) 46, 531
BsuI GTATCC 1 cut(s) 240
BsuRI GGCC 2 cut(s) 82, 422
BtsCI GGATG 1 cut(s) 391
BveI ACCTGC 1 cut(s) 512
Cac8I GCNNGC 1 cut(s) 411
Cfr13I GGNCC 3 cut(s) 80, 420, 421
Csp6I GTAC 2 cut(s) 7, 373
CviAII CATG 3 cut(s) 60, 65, 370
CviQI GTAC 2 cut(s) 7, 373
DdeI CTNAG 4 cut(s) 84, 302, 405, 414
DpnI GATC 3 cut(s) 48, 441, 533
DpnII GATC 3 cut(s) 46, 439, 531
Eam1104I CTCTTC 1 cut(s) 119
EarI CTCTTC 1 cut(s) 119
Eco130I CCWWGG 1 cut(s) 76
Eco24I GRGCYC 1 cut(s) 424
Eco57I CTGAAG 2 cut(s) 100, 470
Eco88I CYCGRG 3 cut(s) 10, 386, 494
EcoO109I RGGNCCY 2 cut(s) 420, 421
EcoRII CCWGG 1 cut(s) 543
EcoT14I CCWWGG 1 cut(s) 76
EcoT38I GRGCYC 1 cut(s) 424
ErhI CCWWGG 1 cut(s) 76
Esp3I CGTCTC 1 cut(s) 453
FaeI CATG 3 cut(s) 63, 68, 373
FaiI YATR 9 cut(s) 42, 61, 66, 200, 287, 371, 587, 600, 612
FaqI GGGAC 1 cut(s) 526
FatI CATG 3 cut(s) 59, 64, 369
Fnu4HI GCNGC 1 cut(s) 291
FokI GGATG 1 cut(s) 378
FriOI GRGCYC 1 cut(s) 424
Fsp4HI GCNGC 1 cut(s) 291
FspBI CTAG 2 cut(s) 177, 606
GluI GCNGC 1 cut(s) 291
HaeIII GGCC 2 cut(s) 82, 422
Hin1II CATG 3 cut(s) 63, 68, 373
HinfI GANTC 2 cut(s) 315, 515
HphI GGTGA 1 cut(s) 215
Hpy188I TCNGA 5 cut(s) 258, 305, 367, 417, 508
Hpy188III TCNNGA 3 cut(s) 335, 456, 496
Hpy99I CGWCG 1 cut(s) 57
HpyAV CCTTC 1 cut(s) 263
HpyCH4III ACNGT 4 cut(s) 109, 346, 464, 478
HpyCH4IV ACGT 2 cut(s) 5, 55
HpyCH4V TGCA 1 cut(s) 95
HpyF10VI GCNNNNNNNGC 2 cut(s) 101, 419
HpyF3I CTNAG 4 cut(s) 84, 302, 405, 414
HpySE526I ACGT 2 cut(s) 5, 55
Hsp92II CATG 3 cut(s) 63, 68, 373
Kzo9I GATC 3 cut(s) 46, 439, 531
Lsp1109I GCAGC 1 cut(s) 277
LweI GCATC 2 cut(s) 104, 400
MaeI CTAG 2 cut(s) 177, 606
MaeII ACGT 2 cut(s) 5, 55
MaeIII GTNAC 3 cut(s) 351, 478, 524
MalI GATC 3 cut(s) 48, 441, 533
MboI GATC 3 cut(s) 46, 439, 531
MboII GAAGA 4 cut(s) 41, 106, 141, 350
MflI RGATCY 2 cut(s) 46, 531
MhlI GDGCHC 1 cut(s) 424
MluCI AATT 2 cut(s) 206, 264
MlyI GAGTC 1 cut(s) 524
MnlI CCTC 6 cut(s) 26, 131, 135, 268, 405, 411
MroXI GAANNNNTTC 1 cut(s) 252
MseI TTAA 1 cut(s) 186
MspR9I CCNGG 1 cut(s) 545
MvaI CCWGG 1 cut(s) 545
MwoI GCNNNNNNNGC 2 cut(s) 101, 419
NdeII GATC 3 cut(s) 46, 439, 531
NlaIII CATG 3 cut(s) 63, 68, 373
NlaIV GGNNCC 1 cut(s) 422
NmuCI GTSAC 1 cut(s) 524
NspI RCATGY 1 cut(s) 373
PasI CCCWGGG 1 cut(s) 544
PciI ACATGT 1 cut(s) 369
PcsI WCGNNNNNNNCGW 1 cut(s) 179
PdmI GAANNNNTTC 1 cut(s) 252
PfeI GAWTC 1 cut(s) 315
PkrI GCNGC 1 cut(s) 292
PleI GAGTC 1 cut(s) 523
PpsI GAGTC 1 cut(s) 523
PscI ACATGT 1 cut(s) 369
PsiI TTATAA 1 cut(s) 42
Psp6I CCWGG 1 cut(s) 543
PspGI CCWGG 1 cut(s) 543
PspN4I GGNNCC 1 cut(s) 422
PspOMI GGGCCC 1 cut(s) 420
PspPI GGNCC 3 cut(s) 80, 420, 421
PsuI RGATCY 2 cut(s) 46, 531
RsaI GTAC 2 cut(s) 8, 374
RsaNI GTAC 2 cut(s) 7, 373
SaqAI TTAA 1 cut(s) 186
SatI GCNGC 1 cut(s) 291
Sau3AI GATC 3 cut(s) 46, 439, 531
Sau96I GGNCC 3 cut(s) 80, 420, 421
SchI GAGTC 1 cut(s) 524
ScrFI CCNGG 1 cut(s) 545
SduI GDGCHC 1 cut(s) 424
SfaNI GCATC 2 cut(s) 104, 400
SfcI CTRYAG 1 cut(s) 435
SmlI CTYRAG 1 cut(s) 224
SmoI CTYRAG 1 cut(s) 224
Sse9I AATT 2 cut(s) 206, 264
SspMI CTAG 2 cut(s) 177, 606
StyD4I CCNGG 1 cut(s) 543
StyI CCWWGG 1 cut(s) 76
TaaI ACNGT 4 cut(s) 109, 346, 464, 478
TaiI ACGT 2 cut(s) 8, 58
TaqI TCGA 3 cut(s) 52, 273, 334
TasI AATT 2 cut(s) 206, 264
TatI WGTACW 1 cut(s) 372
TfiI GAWTC 1 cut(s) 315
Tru1I TTAA 1 cut(s) 186
Tru9I TTAA 1 cut(s) 186
TseFI GTSAC 1 cut(s) 524
TseI GCWGC 1 cut(s) 290
Tsp45I GTSAC 1 cut(s) 524
TspDTI ATGAA 1 cut(s) 48
TspGWI ACGGA 1 cut(s) 260
XapI RAATTY 1 cut(s) 264
XceI RCATGY 1 cut(s) 373
XmnI GAANNNNTTC 1 cut(s) 252
XspI CTAG 2 cut(s) 177, 606
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.