RchiOBHm_Chr3g0447631

tic 20-ii

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0017208
Physical Location & Seq
Reverse (-)
264794 .. 265660
867 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ41509

Sequence Viewer

Length: 630 bp
ATGGCCTCCATCCATGTCCTCCACGGCCTGTCGCCGACTACTCCCAAAACCCTAAAAATGATGCCCAAATTCCACTCCTCGTTCCCGTCCACCATCGCCAACAGGTCGCTCTCTTTCCCCAAACCCAAATCGAGGACCATCACTTGCATGTCCTCCTCCGGCACGACGACACCCGCCACAGATCGGTTAATCTCCGCCGTCTCTTACACTCTCCCCTTCTTCAATTCCCTCCAGTACGGTCGCTACCTGTTCTTCCAGTTCCCCAAACTGGGCCTCCTCTTCGAGCCGCTGCTTCCCTTGTTGGGCCTCTACCGGTCCATCCCCTACTCGAGCTTCGTCGCCTTCTTCGCCCTCTATTTGGGTGTGGTCAGAAACCCTAGCTTCAGCCACTATGTCAGGTTCAATGCTATGCAGGCCGTCACCTTGGACGTCCTCTTGGTCCTCCCGCTCCTCATTCAGAGGATCTTCAGTCCGGGTCAGGCCGGTCTGGGATACAAGCTCATGGTCTGGGGGCACAATGGTATTTTCGTGTTCAGTGTTCTCTGCTTTGTTTATGGGTTGGTTAGTTCAATTTTGGGTAGGACTCCTTATTTGCCCTTTGTTGCTGATGCCGCCGGCCGCCAGCTCTGA

Protein Analysis

209

Amino Acids

23.22

Weight (kDa)

10.15

Isoelectric Point (pI)

41.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TIC20 PF16166 62 - 205 3.1e-46 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
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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) 432
AccBSI CCGCTC 1 cut(s) 448
AciI CCGC 6 cut(s) 174, 195, 287, 446, 612, 619
AclWI GGATC 1 cut(s) 470
AcoI YGGCCR 1 cut(s) 616
AcsI RAATTY 1 cut(s) 68
AcuI CTGAAG 2 cut(s) 367, 451
AcyI GRCGYC 1 cut(s) 429
AfaI GTAC 1 cut(s) 236
AfiI CCNNNNNNNGG 6 cut(s) 132, 183, 268, 269, 302, 358
AgeI ACCGGT 1 cut(s) 312
AgsI TTSAA 3 cut(s) 223, 403, 570
AluBI AGCT 4 cut(s) 333, 381, 499, 625
AluI AGCT 4 cut(s) 333, 381, 499, 625
Alw26I GTCTC 1 cut(s) 205
AlwI GGATC 1 cut(s) 470
Ama87I CYCGRG 1 cut(s) 328
AoxI GGCC 7 cut(s) 3, 25, 271, 304, 414, 480, 616
ApeKI GCWGC 1 cut(s) 289
ApoI RAATTY 1 cut(s) 68
ArsI GACNNNNNNTTYG 2 cut(s) 574, 606
AsiGI ACCGGT 1 cut(s) 312
AspS9I GGNCC 5 cut(s) 135, 271, 304, 315, 439
AsuC2I CCSGG 1 cut(s) 474
AsuHPI GGTGA 1 cut(s) 412
AvaI CYCGRG 1 cut(s) 328
AvaII GGWCC 3 cut(s) 135, 315, 439
BaeGI GKGCMC 1 cut(s) 516
BbvI GCAGC 1 cut(s) 276
BccI CCATC 4 cut(s) 17, 101, 146, 326
BceAI ACGGC 3 cut(s) 40, 182, 401
BciVI GTATCC 1 cut(s) 485
BcnI CCSGG 1 cut(s) 474
BcoDI GTCTC 1 cut(s) 205
BfaI CTAG 1 cut(s) 378
BfuI GTATCC 1 cut(s) 485
BisI GCNGC 4 cut(s) 287, 290, 612, 619
BlsI GCNGC 4 cut(s) 288, 291, 613, 620
Bme1390I CCNGG 1 cut(s) 474
Bme18I GGWCC 3 cut(s) 135, 315, 439
BmeT110I CYCGRG 1 cut(s) 328
BmgT120I GGNCC 5 cut(s) 135, 271, 304, 315, 439
BmrFI CCNGG 1 cut(s) 474
BmrI ACTGGG 1 cut(s) 278
BmsI GCATC 2 cut(s) 51, 598
BmuI ACTGGG 1 cut(s) 278
BpmI CTGGAG 1 cut(s) 215
BpuMI CCSGG 1 cut(s) 474
BsaHI GRCGYC 1 cut(s) 429
BsaJI CCNNGG 2 cut(s) 22, 423
BsaWI WCCGGW 1 cut(s) 312
BsaXI ACNNNNNCTCC 2 cut(s) 258, 288
Bsc4I CCNNNNNNNGG 6 cut(s) 132, 183, 268, 269, 302, 358
Bse118I RCCGGY 3 cut(s) 312, 482, 614
Bse1I ACTGG 3 cut(s) 232, 256, 273
BseDI CCNNGG 2 cut(s) 22, 423
BseGI GGATG 2 cut(s) 9, 318
BseLI CCNNNNNNNGG 6 cut(s) 132, 183, 268, 269, 302, 358
BseNI ACTGG 3 cut(s) 232, 256, 273
BseRI GAGGAG 4 cut(s) 67, 145, 266, 440
BseSI GKGCMC 1 cut(s) 516
BseX3I CGGCCG 1 cut(s) 616
BseXI GCAGC 1 cut(s) 276
Bsh1285I CGRYCG 2 cut(s) 241, 619
BshFI GGCC 7 cut(s) 5, 27, 273, 306, 416, 482, 618
BshTI ACCGGT 1 cut(s) 312
BsiEI CGRYCG 2 cut(s) 241, 619
BsiHKCI CYCGRG 1 cut(s) 328
BsiSI CCGG 5 cut(s) 159, 313, 473, 483, 615
BslI CCNNNNNNNGG 6 cut(s) 132, 183, 268, 269, 302, 358
BsmAI GTCTC 1 cut(s) 205
BsmBI CGTCTC 1 cut(s) 205
BsnI GGCC 7 cut(s) 5, 27, 273, 306, 416, 482, 618
BsoBI CYCGRG 1 cut(s) 328
Bsp1286I GDGCHC 1 cut(s) 516
Bsp143I GATC 2 cut(s) 181, 462
BspACI CCGC 6 cut(s) 174, 195, 287, 446, 612, 619
BspANI GGCC 7 cut(s) 5, 27, 273, 306, 416, 482, 618
BspPI GGATC 1 cut(s) 470
BsrBI CCGCTC 1 cut(s) 448
BsrFI RCCGGY 3 cut(s) 312, 482, 614
BsrI ACTGG 3 cut(s) 232, 256, 273
BssAI RCCGGY 3 cut(s) 312, 482, 614
BssECI CCNNGG 2 cut(s) 22, 423
BssMI GATC 2 cut(s) 181, 462
BssNI GRCGYC 1 cut(s) 429
BssT1I CCWWGG 1 cut(s) 423
Bst4CI ACNGT 1 cut(s) 239
Bst6I CTCTTC 1 cut(s) 284
BstACI GRCGYC 1 cut(s) 429
BstC8I GCNNGC 3 cut(s) 414, 616, 623
BstDSI CCRYGG 1 cut(s) 22
BstF5I GGATG 2 cut(s) 9, 318
BstKTI GATC 2 cut(s) 184, 465
BstMAI GTCTC 1 cut(s) 205
BstMBI GATC 2 cut(s) 181, 462
BstMCI CGRYCG 2 cut(s) 241, 619
BstMWI GCNNNNNNNGC 3 cut(s) 347, 413, 611
BstNSI RCATGY 1 cut(s) 151
BstSCI CCNGG 1 cut(s) 472
BstSLI GKGCMC 1 cut(s) 516
BstV1I GCAGC 1 cut(s) 276
BstX2I RGATCY 1 cut(s) 462
BstYI RGATCY 1 cut(s) 462
BstZI CGGCCG 1 cut(s) 616
BsuI GTATCC 1 cut(s) 485
BsuRI GGCC 7 cut(s) 5, 27, 273, 306, 416, 482, 618
BtgI CCRYGG 1 cut(s) 22
BtgZI GCGATG 1 cut(s) 79
BtsCI GGATG 2 cut(s) 9, 318
BtsIMutI CAGTG 1 cut(s) 541
Cac8I GCNNGC 3 cut(s) 414, 616, 623
Cfr10I RCCGGY 3 cut(s) 312, 482, 614
Cfr13I GGNCC 5 cut(s) 135, 271, 304, 315, 439
Csp6I GTAC 1 cut(s) 235
CspAI ACCGGT 1 cut(s) 312
CviAII CATG 3 cut(s) 14, 148, 502
CviQI GTAC 1 cut(s) 235
DpnI GATC 2 cut(s) 183, 464
DpnII GATC 2 cut(s) 181, 462
EaeI YGGCCR 1 cut(s) 616
EagI CGGCCG 1 cut(s) 616
Eam1104I CTCTTC 1 cut(s) 284
EarI CTCTTC 1 cut(s) 284
EciI GGCGGA 1 cut(s) 184
EclXI CGGCCG 1 cut(s) 616
Eco130I CCWWGG 1 cut(s) 423
Eco47I GGWCC 3 cut(s) 135, 315, 439
Eco52I CGGCCG 1 cut(s) 616
Eco57I CTGAAG 2 cut(s) 367, 451
Eco88I CYCGRG 1 cut(s) 328
EcoT14I CCWWGG 1 cut(s) 423
ErhI CCWWGG 1 cut(s) 423
Esp3I CGTCTC 1 cut(s) 205
FaeI CATG 3 cut(s) 17, 151, 505
FaiI YATR 6 cut(s) 15, 149, 393, 410, 503, 555
FatI CATG 3 cut(s) 13, 147, 501
FauI CCCGC 2 cut(s) 181, 453
Fnu4HI GCNGC 4 cut(s) 287, 290, 612, 619
FokI GGATG 1 cut(s) 305
Fsp4HI GCNGC 4 cut(s) 287, 290, 612, 619
FspBI CTAG 1 cut(s) 378
GluI GCNGC 4 cut(s) 287, 290, 612, 619
GsuI CTGGAG 1 cut(s) 215
HaeIII GGCC 7 cut(s) 5, 27, 273, 306, 416, 482, 618
HapII CCGG 5 cut(s) 159, 313, 473, 483, 615
Hin1I GRCGYC 1 cut(s) 429
Hin1II CATG 3 cut(s) 17, 151, 505
HinfI GANTC 1 cut(s) 583
HpaII CCGG 5 cut(s) 159, 313, 473, 483, 615
HphI GGTGA 1 cut(s) 412
Hpy166II GTNNAC 1 cut(s) 90
Hpy188I TCNGA 3 cut(s) 371, 459, 629
Hpy8I GTNNAC 1 cut(s) 90
Hpy99I CGWCG 2 cut(s) 169, 341
HpyAV CCTTC 2 cut(s) 226, 352
HpyCH4III ACNGT 1 cut(s) 239
HpyCH4IV ACGT 1 cut(s) 429
HpyCH4V TGCA 2 cut(s) 147, 412
HpyF10VI GCNNNNNNNGC 3 cut(s) 347, 413, 611
HpySE526I ACGT 1 cut(s) 429
Hsp92I GRCGYC 1 cut(s) 429
Hsp92II CATG 3 cut(s) 17, 151, 505
KroI GCCGGC 1 cut(s) 614
KroNI GCCGGC 1 cut(s) 616
Kzo9I GATC 2 cut(s) 181, 462
LmnI GCTCC 1 cut(s) 453
Lsp1109I GCAGC 1 cut(s) 276
LweI GCATC 2 cut(s) 51, 598
MaeI CTAG 1 cut(s) 378
MaeII ACGT 1 cut(s) 429
MaeIII GTNAC 1 cut(s) 418
MalI GATC 2 cut(s) 183, 464
MbiI CCGCTC 1 cut(s) 448
MboI GATC 2 cut(s) 181, 462
MboII GAAGA 5 cut(s) 211, 244, 271, 337, 457
MflI RGATCY 1 cut(s) 462
MhlI GDGCHC 1 cut(s) 516
MluCI AATT 3 cut(s) 68, 223, 570
MlyI GAGTC 1 cut(s) 577
MroNI GCCGGC 1 cut(s) 614
MseI TTAA 1 cut(s) 188
MslI CAYNNNNRTG 1 cut(s) 146
MspA1I CMGCKG 1 cut(s) 289
MspI CCGG 5 cut(s) 159, 313, 473, 483, 615
MspR9I CCNGG 1 cut(s) 474
MwoI GCNNNNNNNGC 3 cut(s) 347, 413, 611
NaeI GCCGGC 1 cut(s) 616
NciI CCSGG 1 cut(s) 474
NdeII GATC 2 cut(s) 181, 462
NgoMIV GCCGGC 1 cut(s) 614
NlaIII CATG 3 cut(s) 17, 151, 505
NmuCI GTSAC 1 cut(s) 418
NspI RCATGY 1 cut(s) 151
PaeR7I CTCGAG 1 cut(s) 328
PdiI GCCGGC 1 cut(s) 616
PinAI ACCGGT 1 cut(s) 312
PkrI GCNGC 4 cut(s) 288, 291, 613, 620
PleI GAGTC 1 cut(s) 577
PpsI GAGTC 1 cut(s) 577
PspPI GGNCC 5 cut(s) 135, 271, 304, 315, 439
PspXI VCTCGAGB 1 cut(s) 328
PsuI RGATCY 1 cut(s) 462
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, 612, 619
Sau3AI GATC 2 cut(s) 181, 462
Sau96I GGNCC 5 cut(s) 135, 271, 304, 315, 439
SchI GAGTC 1 cut(s) 577
ScrFI CCNGG 1 cut(s) 474
SduI GDGCHC 1 cut(s) 516
SetI ASST 9 cut(s) 107, 249, 335, 383, 401, 425, 432, 501, 627
SfaNI GCATC 2 cut(s) 51, 598
Sfr274I CTCGAG 1 cut(s) 328
SinI GGWCC 3 cut(s) 135, 315, 439
SlaI CTCGAG 1 cut(s) 328
SmiMI CAYNNNNRTG 1 cut(s) 146
SmlI CTYRAG 1 cut(s) 328
SmoI CTYRAG 1 cut(s) 328
Sse9I AATT 3 cut(s) 68, 223, 570
SsiI CCGC 6 cut(s) 174, 195, 287, 446, 612, 619
SspMI CTAG 1 cut(s) 378
StyD4I CCNGG 1 cut(s) 472
StyI CCWWGG 1 cut(s) 423
TaaI ACNGT 1 cut(s) 239
TaiI ACGT 1 cut(s) 432
TaqI TCGA 3 cut(s) 131, 282, 329
TasI AATT 3 cut(s) 68, 223, 570
TauI GCSGC 3 cut(s) 289, 614, 621
Tru1I TTAA 1 cut(s) 188
Tru9I TTAA 1 cut(s) 188
TscAI CASTG 1 cut(s) 541
TseFI GTSAC 1 cut(s) 418
TseI GCWGC 1 cut(s) 289
Tsp45I GTSAC 1 cut(s) 418
TspRI CASTG 1 cut(s) 541
VpaK11BI GGWCC 3 cut(s) 135, 315, 439
XapI RAATTY 1 cut(s) 68
XceI RCATGY 1 cut(s) 151
XhoI CTCGAG 1 cut(s) 328
XspI CTAG 1 cut(s) 378
ZraI GACGTC 1 cut(s) 430
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.