Rorug06G0220300

CSC1-like protein At4g02900

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0010682
Physical Location & Seq
Reverse (-)
35260619 .. 35262855
2237 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0220300.1

Sequence Viewer

Length: 1386 bp
ATGAACCATGGGAAAACGGTGCACGCAGAGTGTGTCAAGGCTGGTGTGCATTGTGATGTGTTGGTTGGCACCTCATTGGTTGACATGTATGCGAAATGCGGGGACGTTTTTGAGTCCCGGAAAGTGTTTGATTATATGCCTCAGAGAAATGTGGTAAGCTGGAATGCCATGATTGGTGGGTACTGGAGAAACGGGGATGCAGCATCTGCGTTGGTTTTGTTTGAGAAGATGTCAATGCGGACATATGTGACTTGGGCTGAGATGATCACCGGGTTTGCAAGGACTGGAGATACTGTTAGTGCTAGGCGGTTTTTTGATCAGGTTCCACTGGAGTTGAAGAATGTGATTACGTGGACTGTGATGGTTGATGGGTATTGTAGCAATGGGCAGATGGAGATGGCGAGGCAAGTTTTCGAGGCAATGCCCCAGCGCAATCACTTTGTTTGGTCATCAATGATTTCTGGGTATTGCAAGTTAGGTGATGTTGAGGAGGCTAAGATCGTTTTCGATAGAATCCCAGTCCGGAACTTGGTGAATTGGAATTCGATGATATCTGGATATGCGCAAAATGGGTTTTGCGGGGAAGCTTTGAAAGCGTTTGAGAGCATGCAAGCCCAAGGCTTTGAGCCGGATGAATTTACTGTTGTGAGTGTTTTATCTGCATGTGCTCAGTCTGGGCTATTAGATGTTGGCAAGGATATACATAACATGTTGAGTCATAAAAGGATAAAGCTCAATCAGATTGTTCTCAATGCACTTGTAGACATGTATGCAAAATGTGGCGACTTGATCAATGCAAGGTTGGTCTTTGATGAGATGACTGGGAGGAACAGTGCTTGCTGGAATGCGATGATTTCAAGCATGGCTATTCATGGACAGTGCAAGGAGGCTCTTGAATTGTTTAGCAGAATGGAGGATTCAAATGAAAAGCCTGATGAGATAACCTTTCTTTCTGTTCTGTCAGCTTGTGCGCATGGAGGTTTAGTAGAAGAAGGCATGGAACTTTTCTCCAAGATGCAGAAGAAATATGGTTTGGAATCAGGAATTAAGCATTATGGTTGCTTAGTTGACCTTTTGGGACGGGCTGGAAGGTTAAGAGAAGCTTACGCTTTAGTCAAAAGTATGCCCATGAAACCCAATGACATGGTTTGGGGGGCTATGCTTGGAGCTTGCCGGATTTATATGGATATGGAAATGACAGAACAGGTAGCAAAGGATATTAGCACCCAAAATTCAGACAATCAGTCAGGCGATAATTCACATTATGTGCTTCTGTCAAATATTTATGCCGCTTCTGATAGATGGGAGAAAGCTGAAAGGACGAGAATGGACTTGGTAAACGAAGGCTTTCAAAAGACACCTGCTCACAGTGCATTTATGCCCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PHM7_cyt RSN1_7TM RSN1_TM

Protein Analysis

461

Amino Acids

51.64

Weight (kDa)

5.73

Isoelectric Point (pI)

37.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 49 - 79 6.6e-06 PPR repeat family
PPR PF01535 52 - 78 9.3e-06 PPR repeat
PPR_2 PF13041 113 - 145 9.2e-08 PPR repeat family
PPR_1 PF12854 114 - 141 3e-06 PPR repeat
PPR PF01535 116 - 145 7.3e-08 PPR repeat
PPR_1 PF12854 145 - 171 1e-05 PPR repeat
PPR PF01535 148 - 175 2.5e-07 PPR repeat
PPR_2 PF13041 176 - 223 4.1e-10 PPR repeat family
PPR PF01535 179 - 208 1.2e-07 PPR repeat
PPR_2 PF13041 277 - 325 1.7e-10 PPR repeat family
PPR PF01535 280 - 307 1.2e-06 PPR repeat
E_motif PF20431 415 - 456 7.7e-08 E motif
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: OG0010682)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G02900 AT4G02900 AT4G02900 AT4G02900
fragaria_vesca FvH4_2g23940 FvH4_2g23940
malus_domestica MD11G1289500.v1.1
prunus_persica Prupe.8G244700_v2.0.a1 Prupe.8G244700_v2.0.a1
pyrus_communis pycom11g25690
rosa_chinensis RchiOBHm_Chr6g0291571
rosa_laevigata RLG00000012106
rosa_roxburghii Rroxscaffold_7G00175960
rosa_rugosa Rorug06G0220300 Rorug06G0220400 Rorug06G0220400
rosa_samantha Rh6AG332700 Rh6CG345900 Rh6DG333100
rosa_wichuraiana Rw6G028890

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1369
Acc16I TGCGCA 2 cut(s) 564, 972
Acc36I ACCTGC 1 cut(s) 1369
AccB1I GGYRCC 1 cut(s) 68
AccI GTMKAC 1 cut(s) 762
AccIII TCCGGA 1 cut(s) 522
AciI CCGC 5 cut(s) 99, 238, 307, 579, 1290
AcsI RAATTY 3 cut(s) 541, 635, 1231
AfaI GTAC 1 cut(s) 182
AfiI CCNNNNNNNGG 1 cut(s) 529
AflIII ACRYGT 3 cut(s) 84, 708, 765
AgsI TTSAA 6 cut(s) 337, 592, 858, 896, 921, 1352
AhdI GACNNNNNGTC 1 cut(s) 1243
AjuI GAANNNNNNNTTGG 2 cut(s) 1016, 1048
AluBI AGCT 7 cut(s) 159, 587, 733, 965, 1103, 1169, 1313
AluI AGCT 7 cut(s) 159, 587, 733, 965, 1103, 1169, 1313
Alw21I GWGCWC 2 cut(s) 24, 670
Alw44I GTGCAC 1 cut(s) 20
AlwNI CAGNNNCTG 1 cut(s) 206
Aor13HI TCCGGA 1 cut(s) 522
ApaLI GTGCAC 1 cut(s) 20
ApeKI GCWGC 1 cut(s) 200
ApoI RAATTY 3 cut(s) 541, 635, 1231
Asp700I GAANNNNTTC 1 cut(s) 1347
AspLEI GCGC 3 cut(s) 432, 565, 973
AsuC2I CCSGG 2 cut(s) 118, 271
AsuHPI GGTGA 3 cut(s) 259, 491, 544
BaeGI GKGCMC 1 cut(s) 24
BanI GGYRCC 1 cut(s) 68
Bbv12I GWGCWC 2 cut(s) 24, 670
BbvI GCAGC 1 cut(s) 212
BccI CCATC 5 cut(s) 355, 362, 385, 391, 1296
BclI TGATCA 3 cut(s) 264, 316, 789
BcnI CCSGG 2 cut(s) 118, 271
BfaI CTAG 1 cut(s) 303
BfuAI ACCTGC 1 cut(s) 1369
BisI GCNGC 2 cut(s) 201, 1290
BlsI GCNGC 2 cut(s) 202, 1291
Bme1390I CCNGG 2 cut(s) 118, 271
BmeRI GACNNNNNGTC 1 cut(s) 1243
BmiI GGNNCC 2 cut(s) 70, 324
BmrFI CCNGG 2 cut(s) 118, 271
BmrI ACTGGG 2 cut(s) 512, 831
BmsI GCATC 3 cut(s) 187, 212, 1005
BmuI ACTGGG 2 cut(s) 512, 831
BpmI CTGGAG 3 cut(s) 205, 306, 350
BpuMI CCSGG 2 cut(s) 118, 271
BsaAI YACGTR 1 cut(s) 351
BsaJI CCNNGG 2 cut(s) 7, 616
BsaWI WCCGGW 1 cut(s) 522
BsaXI ACNNNNNCTCC 6 cut(s) 279, 309, 817, 847, 969, 999
Bsc4I CCNNNNNNNGG 1 cut(s) 529
Bse1I ACTGG 5 cut(s) 188, 289, 333, 518, 826
Bse3DI GCAATG 2 cut(s) 388, 426
BseAI TCCGGA 1 cut(s) 522
BseDI CCNNGG 2 cut(s) 7, 616
BseGI GGATG 2 cut(s) 202, 637
BseLI CCNNNNNNNGG 1 cut(s) 529
BseMI GCAATG 2 cut(s) 388, 426
BseMII CTCAG 3 cut(s) 155, 249, 683
BseNI ACTGG 5 cut(s) 188, 289, 333, 518, 826
BseRI GAGGAG 1 cut(s) 503
BseSI GKGCMC 1 cut(s) 24
BseXI GCAGC 1 cut(s) 212
BseYI CCCAGC 1 cut(s) 426
BshNI GGYRCC 1 cut(s) 68
BsiHKAI GWGCWC 2 cut(s) 24, 670
BsiSI CCGG 5 cut(s) 118, 270, 523, 629, 1174
BslFI GGGAC 3 cut(s) 100, 116, 1092
BslI CCNNNNNNNGG 1 cut(s) 529
BsmFI GGGAC 3 cut(s) 100, 116, 1092
BsmI GAATGC 2 cut(s) 169, 850
Bsp1286I GDGCHC 2 cut(s) 24, 670
Bsp13I TCCGGA 1 cut(s) 522
Bsp143I GATC 4 cut(s) 264, 316, 498, 789
Bsp19I CCATGG 1 cut(s) 7
BspACI CCGC 5 cut(s) 99, 238, 307, 579, 1290
BspCNI CTCAG 3 cut(s) 154, 250, 682
BspEI TCCGGA 1 cut(s) 522
BspLI GGNNCC 2 cut(s) 70, 324
BspMI ACCTGC 1 cut(s) 1369
BspT107I GGYRCC 1 cut(s) 68
BsrDI GCAATG 2 cut(s) 388, 426
BsrI ACTGG 5 cut(s) 188, 289, 333, 518, 826
BssECI CCNNGG 2 cut(s) 7, 616
BssMI GATC 4 cut(s) 264, 316, 498, 789
BssT1I CCWWGG 2 cut(s) 7, 616
Bst4CI ACNGT 7 cut(s) 19, 295, 358, 643, 833, 879, 1370
BstAPI GCANNNNNTGC 1 cut(s) 206
BstBAI YACGTR 1 cut(s) 351
BstC8I GCNNGC 5 cut(s) 24, 608, 612, 838, 1171
BstDEI CTNAG 5 cut(s) 141, 258, 495, 669, 1063
BstDSI CCRYGG 1 cut(s) 7
BstF5I GGATG 2 cut(s) 202, 637
BstHHI GCGC 3 cut(s) 432, 565, 973
BstKTI GATC 4 cut(s) 267, 319, 501, 792
BstMBI GATC 4 cut(s) 264, 316, 498, 789
BstMWI GCNNNNNNNGC 3 cut(s) 206, 593, 1370
BstNSI RCATGY 5 cut(s) 88, 610, 666, 712, 769
BstSCI CCNGG 2 cut(s) 116, 269
BstSLI GKGCMC 1 cut(s) 24
BstV1I GCAGC 1 cut(s) 212
BstXI CCANNNNNNTGG 1 cut(s) 1144
BtgI CCRYGG 1 cut(s) 7
BtgZI GCGATG 1 cut(s) 863
BtsCI GGATG 2 cut(s) 202, 637
BtsIMutI CAGTG 4 cut(s) 326, 838, 884, 1375
BveI ACCTGC 1 cut(s) 1369
Cac8I GCNNGC 5 cut(s) 24, 608, 612, 838, 1171
CaiI CAGNNNCTG 1 cut(s) 206
CfoI GCGC 3 cut(s) 432, 565, 973
Csp6I GTAC 1 cut(s) 181
CspCI CAANNNNNGTGG 2 cut(s) 315, 350
CviQI GTAC 1 cut(s) 181
DdeI CTNAG 5 cut(s) 141, 258, 495, 669, 1063
DpnI GATC 4 cut(s) 266, 318, 500, 791
DpnII GATC 4 cut(s) 264, 316, 498, 789
DriI GACNNNNNGTC 1 cut(s) 1243
Eam1105I GACNNNNNGTC 1 cut(s) 1243
Eco130I CCWWGG 2 cut(s) 7, 616
Eco32I GATATC 1 cut(s) 552
EcoRI GAATTC 1 cut(s) 541
EcoRV GATATC 1 cut(s) 552
EcoT14I CCWWGG 2 cut(s) 7, 616
ErhI CCWWGG 2 cut(s) 7, 616
FalI AAGNNNNNCTT 2 cut(s) 1087, 1119
FaqI GGGAC 3 cut(s) 100, 116, 1092
FauI CCCGC 2 cut(s) 92, 572
FauNDI CATATG 1 cut(s) 244
FbaI TGATCA 3 cut(s) 264, 316, 789
FblI GTMKAC 1 cut(s) 762
Fnu4HI GCNGC 2 cut(s) 201, 1290
FokI GGATG 2 cut(s) 209, 644
Fsp4HI GCNGC 2 cut(s) 201, 1290
FspAI RTGCGCAY 1 cut(s) 972
FspBI CTAG 1 cut(s) 303
FspI TGCGCA 2 cut(s) 564, 972
GlaI GCGC 3 cut(s) 431, 564, 972
GluI GCNGC 2 cut(s) 201, 1290
GsaI CCCAGC 1 cut(s) 430
GsuI CTGGAG 3 cut(s) 205, 306, 350
HapII CCGG 5 cut(s) 118, 270, 523, 629, 1174
HhaI GCGC 3 cut(s) 432, 565, 973
Hin6I GCGC 3 cut(s) 430, 563, 971
HinP1I GCGC 3 cut(s) 430, 563, 971
HincII GTYRAC 2 cut(s) 82, 1069
HindII GTYRAC 2 cut(s) 82, 1069
HindIII AAGCTT 2 cut(s) 585, 1101
HinfI GANTC 5 cut(s) 113, 513, 715, 917, 1037
HpaII CCGG 5 cut(s) 118, 270, 523, 629, 1174
HphI GGTGA 3 cut(s) 259, 491, 544
Hpy166II GTNNAC 6 cut(s) 22, 82, 354, 763, 1069, 1339
Hpy188I TCNGA 4 cut(s) 144, 741, 1237, 1297
Hpy188III TCNNGA 4 cut(s) 523, 555, 893, 1041
Hpy8I GTNNAC 6 cut(s) 22, 82, 354, 763, 1069, 1339
HpyAV CCTTC 3 cut(s) 986, 1083, 1337
HpyCH4III ACNGT 7 cut(s) 19, 295, 358, 643, 833, 879, 1370
HpyCH4IV ACGT 2 cut(s) 105, 350
HpyF10VI GCNNNNNNNGC 3 cut(s) 206, 593, 1370
HpyF3I CTNAG 5 cut(s) 141, 258, 495, 669, 1063
HpySE526I ACGT 2 cut(s) 105, 350
HspAI GCGC 3 cut(s) 430, 563, 971
Kpn2I TCCGGA 1 cut(s) 522
Ksp22I TGATCA 3 cut(s) 264, 316, 789
Kzo9I GATC 4 cut(s) 264, 316, 498, 789
LmnI GCTCC 1 cut(s) 1166
Lsp1109I GCAGC 1 cut(s) 212
LweI GCATC 3 cut(s) 187, 212, 1005
MaeI CTAG 1 cut(s) 303
MaeII ACGT 2 cut(s) 105, 350
MaeIII GTNAC 1 cut(s) 247
MalI GATC 4 cut(s) 266, 318, 500, 791
MboI GATC 4 cut(s) 264, 316, 498, 789
MboII GAAGA 4 cut(s) 238, 349, 1001, 1033
MhlI GDGCHC 2 cut(s) 24, 670
MluCI AATT 7 cut(s) 535, 541, 635, 896, 1044, 1231, 1255
MlyI GAGTC 2 cut(s) 122, 724
MroI TCCGGA 1 cut(s) 522
MroXI GAANNNNTTC 1 cut(s) 1347
MseI TTAA 2 cut(s) 1047, 1094
MslI CAYNNNNRTG 1 cut(s) 54
MspI CCGG 5 cut(s) 118, 270, 523, 629, 1174
MspR9I CCNGG 2 cut(s) 118, 271
Mva1269I GAATGC 2 cut(s) 169, 850
MwoI GCNNNNNNNGC 3 cut(s) 206, 593, 1370
NciI CCSGG 2 cut(s) 118, 271
NcoI CCATGG 1 cut(s) 7
NdeI CATATG 1 cut(s) 244
NdeII GATC 4 cut(s) 264, 316, 498, 789
NlaIV GGNNCC 2 cut(s) 70, 324
NmuCI GTSAC 1 cut(s) 247
NsbI TGCGCA 2 cut(s) 564, 972
NspI RCATGY 5 cut(s) 88, 610, 666, 712, 769
PaeI GCATGC 1 cut(s) 610
PaqCI CACCTGC 1 cut(s) 1369
PciI ACATGT 3 cut(s) 84, 708, 765
PctI GAATGC 2 cut(s) 169, 850
PdmI GAANNNNTTC 1 cut(s) 1347
PfeI GAWTC 3 cut(s) 513, 917, 1037
PfoI TCCNGGA 1 cut(s) 116
PkrI GCNGC 2 cut(s) 202, 1291
PleI GAGTC 2 cut(s) 121, 723
PpsI GAGTC 2 cut(s) 121, 723
Ppu21I YACGTR 1 cut(s) 351
PscI ACATGT 3 cut(s) 84, 708, 765
PspFI CCCAGC 1 cut(s) 426
PspN4I GGNNCC 2 cut(s) 70, 324
PstNI CAGNNNCTG 1 cut(s) 206
RsaI GTAC 1 cut(s) 182
RsaNI GTAC 1 cut(s) 181
RseI CAYNNNNRTG 1 cut(s) 54
SaqAI TTAA 2 cut(s) 1047, 1094
SatI GCNGC 2 cut(s) 201, 1290
Sau3AI GATC 4 cut(s) 264, 316, 498, 789
SchI GAGTC 2 cut(s) 122, 724
ScrFI CCNGG 2 cut(s) 118, 271
SduI GDGCHC 2 cut(s) 24, 670
SfaNI GCATC 3 cut(s) 187, 212, 1005
SmiMI CAYNNNNRTG 1 cut(s) 54
SphI GCATGC 1 cut(s) 610
Sse9I AATT 7 cut(s) 535, 541, 635, 896, 1044, 1231, 1255
SsiI CCGC 5 cut(s) 99, 238, 307, 579, 1290
SspI AATATT 1 cut(s) 1282
SspMI CTAG 1 cut(s) 303
StyD4I CCNGG 2 cut(s) 116, 269
StyI CCWWGG 2 cut(s) 7, 616
TaaI ACNGT 7 cut(s) 19, 295, 358, 643, 833, 879, 1370
TaiI ACGT 2 cut(s) 108, 353
TaqI TCGA 3 cut(s) 414, 507, 545
TasI AATT 7 cut(s) 535, 541, 635, 896, 1044, 1231, 1255
TauI GCSGC 1 cut(s) 1292
TfiI GAWTC 3 cut(s) 513, 917, 1037
Tru1I TTAA 2 cut(s) 1047, 1094
Tru9I TTAA 2 cut(s) 1047, 1094
TscAI CASTG 4 cut(s) 333, 838, 884, 1375
TseFI GTSAC 1 cut(s) 247
TseI GCWGC 1 cut(s) 200
Tsp45I GTSAC 1 cut(s) 247
TspDTI ATGAA 5 cut(s) 17, 648, 860, 939, 1145
TspRI CASTG 4 cut(s) 333, 838, 884, 1375
VneI GTGCAC 1 cut(s) 20
XapI RAATTY 3 cut(s) 541, 635, 1231
XceI RCATGY 5 cut(s) 88, 610, 666, 712, 769
XmiI GTMKAC 1 cut(s) 762
XmnI GAANNNNTTC 1 cut(s) 1347
XspI CTAG 1 cut(s) 303
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.