Rh3BG002100

ycf20-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0011386
Physical Location & Seq
Forward (+)
237687 .. 239018
1332 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG002100.1

Sequence Viewer

Length: 627 bp
ATGGGAACCATGATGCTACAGTCAACTTTTCTGATTCGGGAGAAAAAAATCCATGAAAGATCGTTTATTACTCTTGCAACTAGTCTGGTCCAGAACTGTTGCAGTGAGCCGAGTTTCAGTATGCAGACATCAAAGATCGACTTTAACTCTGTCCCTTTTTTTCCCCAAAGGAGATTTCAGTCAAGAAAGCAGCAATGGGGATTAGCCTTTGCCTTGGACGCAGGTGGGGTTCCTGATAATGGTGGCCAAGAGAGCGTCAATGACAACAGCATCAATGATCTCAATCGCACTCGTTTAGGTCGGATAGTGACTGCAGCTGGAAGACAGCTATTAGAGAAGCTGAACTTAGCTAGAAAAAACTTTCCCATGAAGATATTTCTACTTCTTTTGGGTTTCTACACGGCAAATGCATTGGCCACGATCCTTGGGCAGACAGGAGATTGGGATGTTTTGGTTGCAGGAATTGTGGTTGCTGCTATTGAGGGTATTGGCATGCTCATGTATAGAAAGCCCACTTCCCCTTCTTTATCAAGTGGGAAGCTCAAGTCTTTTGTCATGCTGATGAATTACTGGAAAGCCGGTGTGTGCTTAGGCCTCTTTGTGGATGCTTTTAAATTGGGTAGTTAG

Protein Analysis

208

Amino Acids

22.98

Weight (kDa)

9.75

Isoelectric Point (pI)

34.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF565 PF04483 144 - 208 3.1e-22 Protein of unknown function (DUF565)
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: OG0011386)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G65420
fragaria_vesca FvH4_6g00150 FvH4_6g00150 FvH4_6g00150
malus_domestica MD04G1247900.v1.1 MD12G1262600.v1.1
prunus_persica Prupe.6G364400_v2.0.a1 Prupe.6G364400_v2.0.a1 Prupe.6G364400_v2.0.a1
pyrus_communis pycom04g21860
rosa_chinensis RchiOBHm_Chr3g0447501
rosa_laevigata RLG00000025992
rosa_multiflora Rmu_sc0006572.1_g000003
rosa_roxburghii Rroxscaffold_6G00425720
rosa_rugosa Rorug02G0602400
rosa_samantha Rh3AG002600 Rh3BG002100 Rh3CG002400 Rh3DG002500
rosa_wichuraiana Rw3G000150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 212
Acc36I ACCTGC 1 cut(s) 212
AclWI GGATC 1 cut(s) 415
AcoI YGGCCR 2 cut(s) 244, 414
AfiI CCNNNNNNNGG 2 cut(s) 239, 601
AhlI ACTAGT 1 cut(s) 80
AjuI GAANNNNNNNTTGG 2 cut(s) 159, 191
AluBI AGCT 5 cut(s) 317, 328, 340, 350, 541
AluI AGCT 5 cut(s) 317, 328, 340, 350, 541
AlwI GGATC 1 cut(s) 415
AoxI GGCC 3 cut(s) 244, 414, 592
ApeKI GCWGC 3 cut(s) 190, 314, 473
AspS9I GGNCC 1 cut(s) 88
AvaII GGWCC 1 cut(s) 88
BalI TGGCCA 2 cut(s) 246, 416
BbsI GAAGAC 1 cut(s) 328
BbvI GCAGC 3 cut(s) 202, 326, 460
BceAI ACGGC 1 cut(s) 417
BcuI ACTAGT 1 cut(s) 80
BfaI CTAG 2 cut(s) 81, 351
BfmI CTRYAG 2 cut(s) 17, 312
BfuAI ACCTGC 1 cut(s) 212
BisI GCNGC 3 cut(s) 191, 315, 474
BlsI GCNGC 3 cut(s) 192, 316, 475
Bme18I GGWCC 1 cut(s) 88
BmgT120I GGNCC 1 cut(s) 88
BmiI GGNNCC 2 cut(s) 7, 231
BmsI GCATC 3 cut(s) 3, 279, 595
BpiI GAAGAC 1 cut(s) 328
Bpu10I CCTNAGC 1 cut(s) 589
BpuEI CTTGAG 1 cut(s) 527
BsaBI GATNNNNATC 1 cut(s) 282
BsaJI CCNNGG 2 cut(s) 213, 424
Bsc4I CCNNNNNNNGG 2 cut(s) 239, 601
Bse118I RCCGGY 1 cut(s) 578
Bse1I ACTGG 1 cut(s) 575
Bse3DI GCAATG 1 cut(s) 200
Bse8I GATNNNNATC 1 cut(s) 282
BseDI CCNNGG 2 cut(s) 213, 424
BseGI GGATG 2 cut(s) 451, 610
BseJI GATNNNNATC 1 cut(s) 282
BseLI CCNNNNNNNGG 2 cut(s) 239, 601
BseMI GCAATG 1 cut(s) 200
BseNI ACTGG 1 cut(s) 575
BseXI GCAGC 3 cut(s) 202, 326, 460
BshFI GGCC 3 cut(s) 246, 416, 594
BsiSI CCGG 1 cut(s) 579
BslFI GGGAC 1 cut(s) 137
BslI CCNNNNNNNGG 2 cut(s) 239, 601
BsmFI GGGAC 1 cut(s) 137
BsnI GGCC 3 cut(s) 246, 416, 594
Bsp143I GATC 4 cut(s) 59, 135, 277, 420
BspANI GGCC 3 cut(s) 246, 416, 594
BspLI GGNNCC 2 cut(s) 7, 231
BspMAI CTGCAG 1 cut(s) 316
BspMI ACCTGC 1 cut(s) 212
BspPI GGATC 1 cut(s) 415
BsrDI GCAATG 1 cut(s) 200
BsrFI RCCGGY 1 cut(s) 578
BsrI ACTGG 1 cut(s) 575
BssAI RCCGGY 1 cut(s) 578
BssECI CCNNGG 2 cut(s) 213, 424
BssMI GATC 4 cut(s) 59, 135, 277, 420
BssT1I CCWWGG 2 cut(s) 213, 424
Bst4CI ACNGT 2 cut(s) 21, 98
BstC8I GCNNGC 1 cut(s) 494
BstDEI CTNAG 2 cut(s) 346, 589
BstF5I GGATG 2 cut(s) 451, 610
BstKTI GATC 4 cut(s) 62, 138, 280, 423
BstMBI GATC 4 cut(s) 59, 135, 277, 420
BstMWI GCNNNNNNNGC 2 cut(s) 218, 252
BstNSI RCATGY 1 cut(s) 496
BstSFI CTRYAG 2 cut(s) 17, 312
BstV1I GCAGC 3 cut(s) 202, 326, 460
BstV2I GAAGAC 1 cut(s) 328
BsuRI GGCC 3 cut(s) 246, 416, 594
BtsCI GGATG 2 cut(s) 451, 610
BtsI GCAGTG 1 cut(s) 109
BtsIMutI CAGTG 1 cut(s) 109
BveI ACCTGC 1 cut(s) 212
Cac8I GCNNGC 1 cut(s) 494
Cfr10I RCCGGY 1 cut(s) 578
Cfr13I GGNCC 1 cut(s) 88
CseI GACGC 2 cut(s) 227, 244
CspCI CAANNNNNGTGG 2 cut(s) 406, 441
CviAII CATG 6 cut(s) 10, 53, 367, 493, 499, 556
DdeI CTNAG 2 cut(s) 346, 589
DpnI GATC 4 cut(s) 61, 137, 279, 422
DpnII GATC 4 cut(s) 59, 135, 277, 420
DraI TTTAAA 1 cut(s) 613
EaeI YGGCCR 2 cut(s) 244, 414
Eco130I CCWWGG 2 cut(s) 213, 424
Eco147I AGGCCT 1 cut(s) 594
Eco47I GGWCC 1 cut(s) 88
EcoT14I CCWWGG 2 cut(s) 213, 424
EcoT22I ATGCAT 1 cut(s) 412
ErhI CCWWGG 2 cut(s) 213, 424
FaeI CATG 6 cut(s) 13, 56, 370, 496, 502, 559
FaiI YATR 8 cut(s) 11, 54, 122, 368, 494, 500, 504, 557
FalI AAGNNNNNCTT 4 cut(s) 125, 157, 329, 361
FaqI GGGAC 1 cut(s) 137
FatI CATG 6 cut(s) 9, 52, 366, 492, 498, 555
Fnu4HI GCNGC 3 cut(s) 191, 315, 474
FokI GGATG 2 cut(s) 458, 617
Fsp4HI GCNGC 3 cut(s) 191, 315, 474
FspBI CTAG 2 cut(s) 81, 351
GluI GCNGC 3 cut(s) 191, 315, 474
HaeIII GGCC 3 cut(s) 246, 416, 594
HapII CCGG 1 cut(s) 579
HgaI GACGC 2 cut(s) 227, 244
Hin1II CATG 6 cut(s) 13, 56, 370, 496, 502, 559
HincII GTYRAC 1 cut(s) 24
HindII GTYRAC 1 cut(s) 24
HinfI GANTC 1 cut(s) 34
HpaII CCGG 1 cut(s) 579
Hpy166II GTNNAC 1 cut(s) 24
Hpy188I TCNGA 2 cut(s) 33, 303
Hpy188III TCNNGA 4 cut(s) 38, 91, 183, 233
Hpy8I GTNNAC 1 cut(s) 24
HpyAV CCTTC 1 cut(s) 531
HpyCH4III ACNGT 2 cut(s) 21, 98
HpyCH4V TGCA 6 cut(s) 77, 102, 124, 314, 410, 458
HpyF10VI GCNNNNNNNGC 2 cut(s) 218, 252
HpyF3I CTNAG 2 cut(s) 346, 589
Hsp92II CATG 6 cut(s) 13, 56, 370, 496, 502, 559
Kzo9I GATC 4 cut(s) 59, 135, 277, 420
LpnPI CCDG 9 cut(s) 71, 104, 207, 246, 303, 420, 444, 556, 592
Lsp1109I GCAGC 3 cut(s) 202, 326, 460
LweI GCATC 3 cut(s) 3, 279, 595
MaeI CTAG 2 cut(s) 81, 351
MaeIII GTNAC 1 cut(s) 307
MalI GATC 4 cut(s) 61, 137, 279, 422
MboI GATC 4 cut(s) 59, 135, 277, 420
MboII GAAGA 2 cut(s) 333, 382
MlsI TGGCCA 2 cut(s) 246, 416
MluCI AATT 3 cut(s) 462, 565, 614
MluNI TGGCCA 2 cut(s) 246, 416
MmeI TCCRAC 1 cut(s) 281
MnlI CCTC 2 cut(s) 475, 605
Mox20I TGGCCA 2 cut(s) 246, 416
Mph1103I ATGCAT 1 cut(s) 412
MscI TGGCCA 2 cut(s) 246, 416
MseI TTAA 2 cut(s) 144, 612
MslI CAYNNNNRTG 2 cut(s) 497, 560
Msp20I TGGCCA 2 cut(s) 246, 416
MspA1I CMGCKG 1 cut(s) 317
MspI CCGG 1 cut(s) 579
MwoI GCNNNNNNNGC 2 cut(s) 218, 252
NdeII GATC 4 cut(s) 59, 135, 277, 420
NlaIII CATG 6 cut(s) 13, 56, 370, 496, 502, 559
NlaIV GGNNCC 2 cut(s) 7, 231
NmeAIII GCCGAG 1 cut(s) 135
NmuCI GTSAC 1 cut(s) 307
NsiI ATGCAT 1 cut(s) 412
NspI RCATGY 1 cut(s) 496
PaeI GCATGC 1 cut(s) 496
PaqCI CACCTGC 1 cut(s) 212
PceI AGGCCT 1 cut(s) 594
PfeI GAWTC 1 cut(s) 34
PkrI GCNGC 3 cut(s) 192, 316, 475
PspN4I GGNNCC 2 cut(s) 7, 231
PspPI GGNCC 1 cut(s) 88
PstI CTGCAG 1 cut(s) 316
PvuII CAGCTG 1 cut(s) 317
RseI CAYNNNNRTG 2 cut(s) 497, 560
SaqAI TTAA 2 cut(s) 144, 612
SatI GCNGC 3 cut(s) 191, 315, 474
Sau3AI GATC 4 cut(s) 59, 135, 277, 420
Sau96I GGNCC 1 cut(s) 88
SetI ASST 7 cut(s) 226, 301, 319, 330, 342, 352, 543
SfaNI GCATC 3 cut(s) 3, 279, 595
SfcI CTRYAG 2 cut(s) 17, 312
SinI GGWCC 1 cut(s) 88
SmiMI CAYNNNNRTG 2 cut(s) 497, 560
SmlI CTYRAG 1 cut(s) 542
SmoI CTYRAG 1 cut(s) 542
SpeI ACTAGT 1 cut(s) 80
SphI GCATGC 1 cut(s) 496
Sse9I AATT 3 cut(s) 462, 565, 614
SseBI AGGCCT 1 cut(s) 594
SspMI CTAG 2 cut(s) 81, 351
StuI AGGCCT 1 cut(s) 594
StyI CCWWGG 2 cut(s) 213, 424
TaaI ACNGT 2 cut(s) 21, 98
TaqI TCGA 1 cut(s) 138
TasI AATT 3 cut(s) 462, 565, 614
TfiI GAWTC 1 cut(s) 34
Tru1I TTAA 2 cut(s) 144, 612
Tru9I TTAA 2 cut(s) 144, 612
TscAI CASTG 1 cut(s) 109
TseFI GTSAC 1 cut(s) 307
TseI GCWGC 3 cut(s) 190, 314, 473
Tsp45I GTSAC 1 cut(s) 307
TspDTI ATGAA 3 cut(s) 69, 383, 578
TspRI CASTG 1 cut(s) 109
VpaK11BI GGWCC 1 cut(s) 88
XceI RCATGY 1 cut(s) 496
XspI CTAG 2 cut(s) 81, 351
Zsp2I ATGCAT 1 cut(s) 412
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.