Rh1AG001500

Clp protease-related protein At4g12060

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0012795
Physical Location & Seq
Forward (+)
309766 .. 312417
2652 bp
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UTR
Exon/CDS
Intron
Rh1AG001500.1

Sequence Viewer

Length: 567 bp
ATGACCTCCGTTTCCATAACACTGTCAGCTCTCTCAGTCTCACTCTCTACCACCGAACCACCTTCCCTTGGAAACCCTAGCAATTCAACACCCTGCAGCCTATCTACCTCATTCCTCGGCAGAAAGCTCTCCGTTGGAGTTCCACATTCAAACAAGTTGGCTTTAAAACATCCAACAGCTGTCGCCACCGTTCTCTTCAGCCTCCCAACAGGGAAACCAGAGAGGATTTCTTCTGGGAAAAGCTCACAATGGTCGGCCAGAGCGATTAAGTCGTTTGCTATGGGTGAATTGGAAGCAAGGAAGCTCAAGTATCCCAATACTGGCACGGAAGCCCTTCTAATGGGAATTTTAGTCGAGGGAACAAGTATAGCTGCGAAGTTTCTCAGAGCTAATGGAATCACGCTTTTCAAGGTTCGAGAAGAAACTGTAAAGTTACTTGGAAAGTCAGACATGTACTTTTTCAGCCCCGAGCATCCTCCATTGACCGAGCCAGCTCAGAGGGCCCTTGACTGGGCTGTGGATCAAAAACTGAAGTCAGGTTGTGCAAATTTATATCAGAAACTCTAG

Protein Analysis

188

Amino Acids

20.18

Weight (kDa)

9.73

Isoelectric Point (pI)

20.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Clp_N PF02861 87 - 180 9.3e-08 Clp repeat (R) N-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AclWI GGATC 1 cut(s) 528
AcoI YGGCCR 1 cut(s) 255
AcsI RAATTY 2 cut(s) 345, 547
AcuI CTGAAG 2 cut(s) 181, 551
AfaI GTAC 1 cut(s) 455
AfiI CCNNNNNNNGG 5 cut(s) 68, 320, 340, 510, 511
AflIII ACRYGT 1 cut(s) 450
AgsI TTSAA 3 cut(s) 87, 150, 409
AluBI AGCT 8 cut(s) 29, 127, 179, 243, 304, 371, 389, 494
AluI AGCT 8 cut(s) 29, 127, 179, 243, 304, 371, 389, 494
Alw26I GTCTC 1 cut(s) 43
AlwI GGATC 1 cut(s) 528
Ama87I CYCGRG 1 cut(s) 467
AoxI GGCC 2 cut(s) 255, 501
ApaI GGGCCC 1 cut(s) 505
ApeKI GCWGC 2 cut(s) 96, 371
ApoI RAATTY 2 cut(s) 345, 547
Asp700I GAANNNNTTC 1 cut(s) 333
AspS9I GGNCC 2 cut(s) 501, 502
AsuHPI GGTGA 1 cut(s) 296
AvaI CYCGRG 1 cut(s) 467
BaeGI GKGCMC 1 cut(s) 505
BanII GRGCYC 1 cut(s) 505
BbvI GCAGC 2 cut(s) 108, 358
BciVI GTATCC 1 cut(s) 321
BcoDI GTCTC 1 cut(s) 43
BfaI CTAG 2 cut(s) 78, 565
BfmI CTRYAG 1 cut(s) 94
BfuI GTATCC 1 cut(s) 321
BisI GCNGC 2 cut(s) 97, 372
BlsI GCNGC 2 cut(s) 98, 373
BmeT110I CYCGRG 1 cut(s) 467
BmgT120I GGNCC 2 cut(s) 501, 502
BmiI GGNNCC 1 cut(s) 503
BmrI ACTGGG 1 cut(s) 520
BmsI GCATC 1 cut(s) 481
BmuI ACTGGG 1 cut(s) 520
BpuEI CTTGAG 1 cut(s) 290
BsaJI CCNNGG 2 cut(s) 67, 115
Bsc4I CCNNNNNNNGG 5 cut(s) 68, 320, 340, 510, 511
Bse1I ACTGG 2 cut(s) 325, 515
BseDI CCNNGG 2 cut(s) 67, 115
BseGI GGATG 2 cut(s) 169, 472
BseLI CCNNNNNNNGG 5 cut(s) 68, 320, 340, 510, 511
BseMII CTCAG 3 cut(s) 48, 397, 509
BseNI ACTGG 2 cut(s) 325, 515
BseSI GKGCMC 1 cut(s) 505
BseXI GCAGC 2 cut(s) 108, 358
BshFI GGCC 2 cut(s) 257, 503
BsiHKCI CYCGRG 1 cut(s) 467
BslI CCNNNNNNNGG 5 cut(s) 68, 320, 340, 510, 511
BsmAI GTCTC 1 cut(s) 43
BsnI GGCC 2 cut(s) 257, 503
BsoBI CYCGRG 1 cut(s) 467
Bsp120I GGGCCC 1 cut(s) 501
Bsp1286I GDGCHC 1 cut(s) 505
Bsp143I GATC 1 cut(s) 520
BspANI GGCC 2 cut(s) 257, 503
BspCNI CTCAG 3 cut(s) 47, 396, 508
BspLI GGNNCC 1 cut(s) 503
BspMAI CTGCAG 1 cut(s) 98
BspPI GGATC 1 cut(s) 528
BsrI ACTGG 2 cut(s) 325, 515
BssECI CCNNGG 2 cut(s) 67, 115
BssMI GATC 1 cut(s) 520
BssT1I CCWWGG 1 cut(s) 67
Bst4CI ACNGT 3 cut(s) 24, 190, 427
Bst6I CTCTTC 1 cut(s) 200
BstC8I GCNNGC 1 cut(s) 492
BstDEI CTNAG 3 cut(s) 34, 383, 495
BstF5I GGATG 2 cut(s) 169, 472
BstKTI GATC 1 cut(s) 523
BstMAI GTCTC 1 cut(s) 43
BstMBI GATC 1 cut(s) 520
BstMWI GCNNNNNNNGC 1 cut(s) 500
BstNSI RCATGY 1 cut(s) 454
BstSFI CTRYAG 1 cut(s) 94
BstSLI GKGCMC 1 cut(s) 505
BstV1I GCAGC 2 cut(s) 108, 358
BsuI GTATCC 1 cut(s) 321
BsuRI GGCC 2 cut(s) 257, 503
BtsCI GGATG 2 cut(s) 169, 472
BtsIMutI CAGTG 1 cut(s) 20
Cac8I GCNNGC 1 cut(s) 492
Cfr13I GGNCC 2 cut(s) 501, 502
Csp6I GTAC 1 cut(s) 454
CviAII CATG 1 cut(s) 451
CviQI GTAC 1 cut(s) 454
DdeI CTNAG 3 cut(s) 34, 383, 495
DpnI GATC 1 cut(s) 522
DpnII GATC 1 cut(s) 520
DraI TTTAAA 1 cut(s) 165
EaeI YGGCCR 1 cut(s) 255
Eam1104I CTCTTC 1 cut(s) 200
EarI CTCTTC 1 cut(s) 200
Eco130I CCWWGG 1 cut(s) 67
Eco24I GRGCYC 1 cut(s) 505
Eco57I CTGAAG 2 cut(s) 181, 551
Eco88I CYCGRG 1 cut(s) 467
EcoO109I RGGNCCY 2 cut(s) 501, 502
EcoT14I CCWWGG 1 cut(s) 67
EcoT38I GRGCYC 1 cut(s) 505
ErhI CCWWGG 1 cut(s) 67
FaeI CATG 1 cut(s) 454
FaiI YATR 5 cut(s) 17, 281, 368, 452, 553
FatI CATG 1 cut(s) 450
Fnu4HI GCNGC 2 cut(s) 97, 372
FokI GGATG 2 cut(s) 156, 459
FriOI GRGCYC 1 cut(s) 505
Fsp4HI GCNGC 2 cut(s) 97, 372
FspBI CTAG 2 cut(s) 78, 565
GluI GCNGC 2 cut(s) 97, 372
HaeIII GGCC 2 cut(s) 257, 503
Hin1II CATG 1 cut(s) 454
HinfI GANTC 1 cut(s) 396
HphI GGTGA 1 cut(s) 296
Hpy188I TCNGA 4 cut(s) 386, 448, 498, 558
Hpy188III TCNNGA 1 cut(s) 416
HpyAV CCTTC 2 cut(s) 72, 344
HpyCH4III ACNGT 3 cut(s) 24, 190, 427
HpyCH4V TGCA 2 cut(s) 96, 545
HpyF10VI GCNNNNNNNGC 1 cut(s) 500
HpyF3I CTNAG 3 cut(s) 34, 383, 495
Hsp92II CATG 1 cut(s) 454
Kzo9I GATC 1 cut(s) 520
LpnPI CCDG 9 cut(s) 106, 195, 219, 231, 271, 306, 496, 504, 522
Lsp1109I GCAGC 2 cut(s) 108, 358
LweI GCATC 1 cut(s) 481
MaeI CTAG 2 cut(s) 78, 565
MaeIII GTNAC 1 cut(s) 432
MalI GATC 1 cut(s) 522
MboI GATC 1 cut(s) 520
MboII GAAGA 3 cut(s) 187, 222, 431
MhlI GDGCHC 1 cut(s) 505
MluCI AATT 4 cut(s) 82, 287, 345, 547
MmeI TCCRAC 2 cut(s) 115, 197
MnlI CCTC 8 cut(s) 16, 118, 125, 212, 216, 349, 486, 492
MroXI GAANNNNTTC 1 cut(s) 333
MseI TTAA 2 cut(s) 164, 267
MspA1I CMGCKG 1 cut(s) 179
MwoI GCNNNNNNNGC 1 cut(s) 500
NdeII GATC 1 cut(s) 520
NlaIII CATG 1 cut(s) 454
NlaIV GGNNCC 1 cut(s) 503
NmeAIII GCCGAG 1 cut(s) 96
NspI RCATGY 1 cut(s) 454
PciI ACATGT 1 cut(s) 450
PcsI WCGNNNNNNNCGW 1 cut(s) 260
PdmI GAANNNNTTC 1 cut(s) 333
PfeI GAWTC 1 cut(s) 396
PkrI GCNGC 2 cut(s) 98, 373
PscI ACATGT 1 cut(s) 450
PspN4I GGNNCC 1 cut(s) 503
PspOMI GGGCCC 1 cut(s) 501
PspPI GGNCC 2 cut(s) 501, 502
PstI CTGCAG 1 cut(s) 98
PvuII CAGCTG 1 cut(s) 179
RsaI GTAC 1 cut(s) 455
RsaNI GTAC 1 cut(s) 454
SaqAI TTAA 2 cut(s) 164, 267
SatI GCNGC 2 cut(s) 97, 372
Sau3AI GATC 1 cut(s) 520
Sau96I GGNCC 2 cut(s) 501, 502
SduI GDGCHC 1 cut(s) 505
SfaNI GCATC 1 cut(s) 481
SfcI CTRYAG 1 cut(s) 94
SmlI CTYRAG 1 cut(s) 305
SmoI CTYRAG 1 cut(s) 305
Sse9I AATT 4 cut(s) 82, 287, 345, 547
SspMI CTAG 2 cut(s) 78, 565
StyI CCWWGG 1 cut(s) 67
TaaI ACNGT 3 cut(s) 24, 190, 427
TaqI TCGA 2 cut(s) 354, 415
TaqII GACCGA 1 cut(s) 500
TasI AATT 4 cut(s) 82, 287, 345, 547
TatI WGTACW 1 cut(s) 453
TfiI GAWTC 1 cut(s) 396
Tru1I TTAA 2 cut(s) 164, 267
Tru9I TTAA 2 cut(s) 164, 267
TscAI CASTG 1 cut(s) 27
TseI GCWGC 2 cut(s) 96, 371
TspGWI ACGGA 2 cut(s) 121, 341
TspRI CASTG 1 cut(s) 27
XapI RAATTY 2 cut(s) 345, 547
XceI RCATGY 1 cut(s) 454
XmnI GAANNNNTTC 1 cut(s) 333
XspI CTAG 2 cut(s) 78, 565
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.