Rroxscaffold_6G00425840

tic 20-ii

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0017208
Physical Location & Seq
Reverse (-)
46808266 .. 46808894
629 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00425840.1

Sequence Viewer

Length: 552 bp
ATGGCCTCCATCCATCTCCTCCACGGCCTGTCGCCGACTACTCCCAAAACCCTAAAAATGATGCCCAAATTCCACTCCTCCTTCCCGTCCACCATCGCCAACAGGTCGCTCTCTTTCCCCAAACCCAAATCGAGGACCATCACTTGCATGTCCTCCTCCGGCACGACGACACCCGCCACAGATCGGTTAATCTCCGCCGTCTCTTACACTCTCCCCTTCTTCAATTCCCTCCAGTACGGTCGCTACCTGTTCTTCCAGTTCCCCAAACTGGGCCTCCTCTTCGAGCCGCTGCTTCCTTGTTGGGCCTCTACCGGTCCATCCCCTACTCGAGCTTCGTCGCCTTCTTCGCCCTCTATTTGGGTGTGGTCAGAAACCCTAGCTTCAGCCACTATGTCAGGTTCAATGCTATGCAGGCCGTCACCTTGGACGTCCTCCTGGTCCTCCCCCTCCTCATTCAGAGGATCTTCAGTCCGGGTCAGGCCGGTCTGGGCTACAAGCTCATGGACTCCTTATTTGCCCTTTGTTGCTGATGCCGCCGGCCGCCAGCTCTGA

Protein Analysis

183

Amino Acids

20.03

Weight (kDa)

10.54

Isoelectric Point (pI)

64.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TIC20 PF16166 62 - 100 4.2e-06 Chloroplast import apparatus Tic20-like
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: OG0017208)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G47840
fragaria_vesca FvH4_6g00330
malus_domestica MD12G1263500.v1.1
prunus_persica Prupe.6G362900_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0447631
rosa_laevigata RLG00000025982
rosa_multiflora Rmu_sc0003550.1_g000002
rosa_roxburghii Rroxscaffold_6G00425840
rosa_rugosa Rorug02G0603800
rosa_samantha Rh3BG003400 Rh3CG003700 Rh3DG003700
rosa_wichuraiana Rw3G000280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 431
AciI CCGC 5 cut(s) 174, 195, 287, 534, 541
AclWI GGATC 1 cut(s) 469
AcoI YGGCCR 1 cut(s) 538
AcsI RAATTY 1 cut(s) 68
AcuI CTGAAG 2 cut(s) 366, 450
AcyI GRCGYC 1 cut(s) 428
AfaI GTAC 1 cut(s) 236
AfiI CCNNNNNNNGG 5 cut(s) 132, 183, 268, 269, 357
AgeI ACCGGT 1 cut(s) 311
AgsI TTSAA 2 cut(s) 223, 402
AjnI CCWGG 1 cut(s) 434
AluBI AGCT 4 cut(s) 332, 380, 498, 547
AluI AGCT 4 cut(s) 332, 380, 498, 547
Alw26I GTCTC 1 cut(s) 205
AlwI GGATC 1 cut(s) 469
Ama87I CYCGRG 1 cut(s) 327
AoxI GGCC 7 cut(s) 3, 25, 271, 303, 413, 479, 538
ApeKI GCWGC 1 cut(s) 289
ApoI RAATTY 1 cut(s) 68
ArsI GACNNNNNNTTYG 2 cut(s) 496, 528
AsiGI ACCGGT 1 cut(s) 311
AspS9I GGNCC 5 cut(s) 135, 271, 303, 314, 438
AsuC2I CCSGG 1 cut(s) 473
AsuHPI GGTGA 1 cut(s) 411
AvaI CYCGRG 1 cut(s) 327
AvaII GGWCC 3 cut(s) 135, 314, 438
BbvI GCAGC 1 cut(s) 276
BccI CCATC 5 cut(s) 17, 21, 101, 146, 325
BceAI ACGGC 3 cut(s) 40, 182, 400
BciT130I CCWGG 1 cut(s) 436
BcnI CCSGG 1 cut(s) 473
BcoDI GTCTC 1 cut(s) 205
BfaI CTAG 1 cut(s) 377
BisI GCNGC 4 cut(s) 287, 290, 534, 541
BlsI GCNGC 4 cut(s) 288, 291, 535, 542
Bme1390I CCNGG 2 cut(s) 436, 473
Bme18I GGWCC 3 cut(s) 135, 314, 438
BmeT110I CYCGRG 1 cut(s) 327
BmgT120I GGNCC 5 cut(s) 135, 271, 303, 314, 438
BmrFI CCNGG 2 cut(s) 436, 473
BmrI ACTGGG 1 cut(s) 278
BmsI GCATC 2 cut(s) 51, 520
BmuI ACTGGG 1 cut(s) 278
BpmI CTGGAG 1 cut(s) 215
BpuMI CCSGG 1 cut(s) 473
BsaHI GRCGYC 1 cut(s) 428
BsaJI CCNNGG 2 cut(s) 22, 422
BsaWI WCCGGW 1 cut(s) 311
BsaXI ACNNNNNCTCC 2 cut(s) 258, 288
Bsc4I CCNNNNNNNGG 5 cut(s) 132, 183, 268, 269, 357
Bse118I RCCGGY 3 cut(s) 311, 481, 536
Bse1I ACTGG 3 cut(s) 232, 256, 273
BseBI CCWGG 1 cut(s) 436
BseDI CCNNGG 2 cut(s) 22, 422
BseGI GGATG 2 cut(s) 9, 317
BseLI CCNNNNNNNGG 5 cut(s) 132, 183, 268, 269, 357
BseNI ACTGG 3 cut(s) 232, 256, 273
BseRI GAGGAG 5 cut(s) 8, 67, 145, 266, 439
BseX3I CGGCCG 1 cut(s) 538
BseXI GCAGC 1 cut(s) 276
Bsh1285I CGRYCG 2 cut(s) 241, 541
BshFI GGCC 7 cut(s) 5, 27, 273, 305, 415, 481, 540
BshTI ACCGGT 1 cut(s) 311
BsiEI CGRYCG 2 cut(s) 241, 541
BsiHKCI CYCGRG 1 cut(s) 327
BsiSI CCGG 5 cut(s) 159, 312, 472, 482, 537
BslI CCNNNNNNNGG 5 cut(s) 132, 183, 268, 269, 357
BsmAI GTCTC 1 cut(s) 205
BsmBI CGTCTC 1 cut(s) 205
BsnI GGCC 7 cut(s) 5, 27, 273, 305, 415, 481, 540
BsoBI CYCGRG 1 cut(s) 327
Bsp143I GATC 2 cut(s) 181, 461
BspACI CCGC 5 cut(s) 174, 195, 287, 534, 541
BspANI GGCC 7 cut(s) 5, 27, 273, 305, 415, 481, 540
BspPI GGATC 1 cut(s) 469
BsrFI RCCGGY 3 cut(s) 311, 481, 536
BsrI ACTGG 3 cut(s) 232, 256, 273
BssAI RCCGGY 3 cut(s) 311, 481, 536
BssECI CCNNGG 2 cut(s) 22, 422
BssMI GATC 2 cut(s) 181, 461
BssNI GRCGYC 1 cut(s) 428
BssT1I CCWWGG 1 cut(s) 422
Bst2UI CCWGG 1 cut(s) 436
Bst4CI ACNGT 1 cut(s) 239
Bst6I CTCTTC 1 cut(s) 284
BstACI GRCGYC 1 cut(s) 428
BstC8I GCNNGC 3 cut(s) 413, 538, 545
BstDSI CCRYGG 1 cut(s) 22
BstF5I GGATG 2 cut(s) 9, 317
BstKTI GATC 2 cut(s) 184, 464
BstMAI GTCTC 1 cut(s) 205
BstMBI GATC 2 cut(s) 181, 461
BstMCI CGRYCG 2 cut(s) 241, 541
BstMWI GCNNNNNNNGC 3 cut(s) 346, 412, 533
BstNI CCWGG 1 cut(s) 436
BstNSI RCATGY 1 cut(s) 151
BstSCI CCNGG 2 cut(s) 434, 471
BstV1I GCAGC 1 cut(s) 276
BstX2I RGATCY 1 cut(s) 461
BstYI RGATCY 1 cut(s) 461
BstZI CGGCCG 1 cut(s) 538
BsuRI GGCC 7 cut(s) 5, 27, 273, 305, 415, 481, 540
BtgI CCRYGG 1 cut(s) 22
BtgZI GCGATG 1 cut(s) 79
BtsCI GGATG 2 cut(s) 9, 317
Cac8I GCNNGC 3 cut(s) 413, 538, 545
Cfr10I RCCGGY 3 cut(s) 311, 481, 536
Cfr13I GGNCC 5 cut(s) 135, 271, 303, 314, 438
Csp6I GTAC 1 cut(s) 235
CspAI ACCGGT 1 cut(s) 311
CviAII CATG 2 cut(s) 148, 501
CviQI GTAC 1 cut(s) 235
DpnI GATC 2 cut(s) 183, 463
DpnII GATC 2 cut(s) 181, 461
EaeI YGGCCR 1 cut(s) 538
EagI CGGCCG 1 cut(s) 538
Eam1104I CTCTTC 1 cut(s) 284
EarI CTCTTC 1 cut(s) 284
EciI GGCGGA 1 cut(s) 184
EclXI CGGCCG 1 cut(s) 538
Eco130I CCWWGG 1 cut(s) 422
Eco47I GGWCC 3 cut(s) 135, 314, 438
Eco52I CGGCCG 1 cut(s) 538
Eco57I CTGAAG 2 cut(s) 366, 450
Eco88I CYCGRG 1 cut(s) 327
EcoRII CCWGG 1 cut(s) 434
EcoT14I CCWWGG 1 cut(s) 422
ErhI CCWWGG 1 cut(s) 422
Esp3I CGTCTC 1 cut(s) 205
FaeI CATG 2 cut(s) 151, 504
FaiI YATR 4 cut(s) 149, 392, 409, 502
FatI CATG 2 cut(s) 147, 500
FauI CCCGC 1 cut(s) 181
Fnu4HI GCNGC 4 cut(s) 287, 290, 534, 541
FokI GGATG 1 cut(s) 304
Fsp4HI GCNGC 4 cut(s) 287, 290, 534, 541
FspBI CTAG 1 cut(s) 377
GluI GCNGC 4 cut(s) 287, 290, 534, 541
GsuI CTGGAG 1 cut(s) 215
HaeIII GGCC 7 cut(s) 5, 27, 273, 305, 415, 481, 540
HapII CCGG 5 cut(s) 159, 312, 472, 482, 537
Hin1I GRCGYC 1 cut(s) 428
Hin1II CATG 2 cut(s) 151, 504
HinfI GANTC 1 cut(s) 505
HpaII CCGG 5 cut(s) 159, 312, 472, 482, 537
HphI GGTGA 1 cut(s) 411
Hpy166II GTNNAC 1 cut(s) 90
Hpy188I TCNGA 3 cut(s) 370, 458, 551
Hpy8I GTNNAC 1 cut(s) 90
Hpy99I CGWCG 2 cut(s) 169, 340
HpyAV CCTTC 3 cut(s) 91, 226, 351
HpyCH4III ACNGT 1 cut(s) 239
HpyCH4IV ACGT 1 cut(s) 428
HpyCH4V TGCA 2 cut(s) 147, 411
HpyF10VI GCNNNNNNNGC 3 cut(s) 346, 412, 533
HpySE526I ACGT 1 cut(s) 428
Hsp92I GRCGYC 1 cut(s) 428
Hsp92II CATG 2 cut(s) 151, 504
KroI GCCGGC 1 cut(s) 536
KroNI GCCGGC 1 cut(s) 538
Kzo9I GATC 2 cut(s) 181, 461
Lsp1109I GCAGC 1 cut(s) 276
LweI GCATC 2 cut(s) 51, 520
MaeI CTAG 1 cut(s) 377
MaeII ACGT 1 cut(s) 428
MaeIII GTNAC 1 cut(s) 417
MalI GATC 2 cut(s) 183, 463
MboI GATC 2 cut(s) 181, 461
MboII GAAGA 5 cut(s) 211, 244, 271, 336, 456
MflI RGATCY 1 cut(s) 461
MluCI AATT 2 cut(s) 68, 223
MlyI GAGTC 1 cut(s) 499
MroNI GCCGGC 1 cut(s) 536
MseI TTAA 1 cut(s) 188
MslI CAYNNNNRTG 1 cut(s) 146
MspA1I CMGCKG 1 cut(s) 289
MspI CCGG 5 cut(s) 159, 312, 472, 482, 537
MspR9I CCNGG 2 cut(s) 436, 473
MvaI CCWGG 1 cut(s) 436
MwoI GCNNNNNNNGC 3 cut(s) 346, 412, 533
NaeI GCCGGC 1 cut(s) 538
NciI CCSGG 1 cut(s) 473
NdeII GATC 2 cut(s) 181, 461
NgoMIV GCCGGC 1 cut(s) 536
NlaIII CATG 2 cut(s) 151, 504
NmuCI GTSAC 1 cut(s) 417
NspI RCATGY 1 cut(s) 151
PaeR7I CTCGAG 1 cut(s) 327
PdiI GCCGGC 1 cut(s) 538
PinAI ACCGGT 1 cut(s) 311
PkrI GCNGC 4 cut(s) 288, 291, 535, 542
PleI GAGTC 1 cut(s) 499
PpsI GAGTC 1 cut(s) 499
Psp6I CCWGG 1 cut(s) 434
PspGI CCWGG 1 cut(s) 434
PspPI GGNCC 5 cut(s) 135, 271, 303, 314, 438
PspXI VCTCGAGB 1 cut(s) 327
PsuI RGATCY 1 cut(s) 461
RsaI GTAC 1 cut(s) 236
RsaNI GTAC 1 cut(s) 235
RseI CAYNNNNRTG 1 cut(s) 146
SaqAI TTAA 1 cut(s) 188
SatI GCNGC 4 cut(s) 287, 290, 534, 541
Sau3AI GATC 2 cut(s) 181, 461
Sau96I GGNCC 5 cut(s) 135, 271, 303, 314, 438
SchI GAGTC 1 cut(s) 499
ScrFI CCNGG 2 cut(s) 436, 473
SetI ASST 9 cut(s) 107, 249, 334, 382, 400, 424, 431, 500, 549
SfaNI GCATC 2 cut(s) 51, 520
Sfr274I CTCGAG 1 cut(s) 327
SinI GGWCC 3 cut(s) 135, 314, 438
SlaI CTCGAG 1 cut(s) 327
SmiMI CAYNNNNRTG 1 cut(s) 146
SmlI CTYRAG 1 cut(s) 327
SmoI CTYRAG 1 cut(s) 327
Sse9I AATT 2 cut(s) 68, 223
SsiI CCGC 5 cut(s) 174, 195, 287, 534, 541
SspMI CTAG 1 cut(s) 377
StyD4I CCNGG 2 cut(s) 434, 471
StyI CCWWGG 1 cut(s) 422
TaaI ACNGT 1 cut(s) 239
TaiI ACGT 1 cut(s) 431
TaqI TCGA 3 cut(s) 131, 282, 328
TasI AATT 2 cut(s) 68, 223
TauI GCSGC 3 cut(s) 289, 536, 543
Tru1I TTAA 1 cut(s) 188
Tru9I TTAA 1 cut(s) 188
TseFI GTSAC 1 cut(s) 417
TseI GCWGC 1 cut(s) 289
Tsp45I GTSAC 1 cut(s) 417
VpaK11BI GGWCC 3 cut(s) 135, 314, 438
XapI RAATTY 1 cut(s) 68
XceI RCATGY 1 cut(s) 151
XhoI CTCGAG 1 cut(s) 327
XspI CTAG 1 cut(s) 377
ZraI GACGTC 1 cut(s) 429
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.