Rroxscaffold_5G00335430

Encoded by

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000577
Physical Location & Seq
Forward (+)
2815921 .. 2817492
1572 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00335430.1

Sequence Viewer

Length: 570 bp
ATGGCTTCGTTCGTTGGAAGAACAGTGAAGCTAATATTGCTTTTGCTATTCTTAACAACCACATGTGATGCTAAAACATATGTTAGAATCACTAATGATTTGGGCGGAGGAATGAATCTCACCTTTCACTGTAAATCCGCAGATGATGATCTTGGCGTCAAAGAGCTTCTTCCCCAACAGTACTATGAGTTCAGTTTCAAACCTACCTTGATAGGCCGAACAGACTTCTATTGCAGTTTTCAATGGACTGCATATTTCTACCAAGATAAAACTTCTTCAAAACAAATTAACATGGGTTCCTCAATTGGAAGAGCAATGATGCTAATCTTGCTTATGTTGTTCCTCGTAATTGCTTGTGATGCAAGCTTTAAGAAACAAGTTAGAATCACAAATCAATTACAAGGCATGACCCTCAATGTTCACTGCAAATCCGATGATAATGATATCGGTCTCCAAAAGCTTGCCCCTAATGCTTTCTTCCAATTCAGTTTTAAATCTAGTTGGATAGGGAACACTGATTTCTACTGCAGTTTCCAGTGGTCTGGTGCATTCAAATGGTTTGATGTTTAG
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
Self-incomp_S1

Protein Analysis

189

Amino Acids

21.6

Weight (kDa)

8.5

Isoelectric Point (pI)

26.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Self-incomp_S1 PF05938 28 - 86 9.7e-17 Plant self-incompatibility protein S1
Self-incomp_S1 PF05938 126 - 189 2.9e-16 Plant self-incompatibility protein S1
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: OG0000577)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G16960 AT3G16970 AT3G17080 AT4G16195 AT5G12060 AT5G12070
fragaria_vesca FvH4_2g16811 FvH4_4g02030 FvH4_4g02050 FvH4_4g02160 FvH4_4g05620
malus_domestica MD04G1130600.v1.1 MD07G1006200.v1.1 MD07G1270000.v1.1 MD09G1134100.v1.1 MD09G1134200.v1.1 MD10G1085700.v1.1 MD17G1052500.v1.1 MD17G1052600.v1.1 MD17G1052700.v1.1 MD17G1123000.v1.1
prunus_persica Prupe.1G026600_v2.0.a1 Prupe.1G049500_v2.0.a1 Prupe.1G055500_v2.0.a1 Prupe.1G055600_v2.0.a1 Prupe.1G057000_v2.0.a1 Prupe.1G057100_v2.0.a1 Prupe.1G057200_v2.0.a1 Prupe.1G057300_v2.0.a1 Prupe.1G058100_v2.0.a1 Prupe.8G012700_v2.0.a1
pyrus_communis pycom17g05060 pycom17g11360
rosa_chinensis RchiOBHm_Chr3g0496401 RchiOBHm_Chr4g0389011 RchiOBHm_Chr4g0389231 RchiOBHm_Chr4g0389421 RchiOBHm_Chr4g0396771 RchiOBHm_Chr4g0396781 RchiOBHm_Chr4g0396791 RchiOBHm_Chr4g0399631 RchiOBHm_Chr4g0399641 RchiOBHm_Chr5g0071851 RchiOBHm_Chr6g0268511
rosa_laevigata RLG00000009249 RLG00000009256 RLG00000009505 RLG00000009983 RLG00000009984 RLG00000013253
rosa_multiflora Rmu_sc0000487.1_g000011 Rmu_sc0002404.1_g000026
rosa_roxburghii Rroxscaffold_5G00335430 Rroxscaffold_5G00341610
rosa_rugosa Rorug03G0282200 Rorug03G0347600 Rorug04G0017800 Rorug04G0017800 Rorug05G0227600 Rorug06G0042400 Rorug06G0042500
rosa_samantha Rh3AG328900 Rh4AG027600 Rh4BG093100 Rh4CG029700 Rh4CG077600 Rh4CG077800 Rh4CG104100 Rh4CG104200 Rh4DG020800 Rh4DG021100 Rh4DG021200 Rh4DG067000 Rh4DG067100 Rh6AG162000 Rh6BG166300
rosa_wichuraiana Rw4G002000 Rw4G005780 Rw4G005790 Rw4G007880 Rw6G013990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 105, 138
AcyI GRCGYC 1 cut(s) 156
AfaI GTAC 1 cut(s) 182
AflIII ACRYGT 1 cut(s) 62
AgsI TTSAA 4 cut(s) 199, 242, 279, 553
AluBI AGCT 4 cut(s) 31, 166, 366, 460
AluI AGCT 4 cut(s) 31, 166, 366, 460
Alw26I GTCTC 1 cut(s) 455
AoxI GGCC 1 cut(s) 214
AsuHPI GGTGA 1 cut(s) 112
BcoDI GTCTC 1 cut(s) 455
BfaI CTAG 1 cut(s) 498
BfmI CTRYAG 1 cut(s) 526
BmcAI AGTACT 1 cut(s) 182
BmiI GGNNCC 1 cut(s) 298
BmsI GCATC 3 cut(s) 58, 309, 349
BsaBI GATNNNNATC 2 cut(s) 147, 323
BsaHI GRCGYC 1 cut(s) 156
BsaI GGTCTC 1 cut(s) 455
Bse1I ACTGG 1 cut(s) 535
Bse3DI GCAATG 1 cut(s) 321
Bse8I GATNNNNATC 2 cut(s) 147, 323
BseJI GATNNNNATC 2 cut(s) 147, 323
BseMI GCAATG 1 cut(s) 321
BseNI ACTGG 1 cut(s) 535
BshFI GGCC 1 cut(s) 216
BsmAI GTCTC 1 cut(s) 455
BsmI GAATGC 1 cut(s) 548
BsnI GGCC 1 cut(s) 216
Bso31I GGTCTC 1 cut(s) 455
Bsp143I GATC 1 cut(s) 148
BspACI CCGC 2 cut(s) 105, 138
BspANI GGCC 1 cut(s) 216
BspLI GGNNCC 1 cut(s) 298
BspMAI CTGCAG 1 cut(s) 530
BspQI GCTCTTC 1 cut(s) 304
BspTNI GGTCTC 1 cut(s) 455
BsrDI GCAATG 1 cut(s) 321
BsrI ACTGG 1 cut(s) 535
BssMI GATC 1 cut(s) 148
BssNI GRCGYC 1 cut(s) 156
Bst4CI ACNGT 3 cut(s) 25, 131, 180
Bst6I CTCTTC 1 cut(s) 304
BstACI GRCGYC 1 cut(s) 156
BstC8I GCNNGC 2 cut(s) 364, 462
BstKTI GATC 1 cut(s) 151
BstMAI GTCTC 1 cut(s) 455
BstMBI GATC 1 cut(s) 148
BstMWI GCNNNNNNNGC 4 cut(s) 37, 328, 359, 470
BstNSI RCATGY 1 cut(s) 66
BstSFI CTRYAG 1 cut(s) 526
BstXI CCANNNNNNTGG 1 cut(s) 542
BsuRI GGCC 1 cut(s) 216
BtsI GCAGTG 1 cut(s) 421
BtsIMutI CAGTG 5 cut(s) 30, 127, 421, 513, 542
Cac8I GCNNGC 2 cut(s) 364, 462
CseI GACGC 1 cut(s) 145
Csp6I GTAC 1 cut(s) 181
CviAII CATG 3 cut(s) 63, 292, 406
CviJI RGCY 6 cut(s) 5, 31, 166, 216, 366, 460
CviKI_1 RGCY 6 cut(s) 5, 31, 166, 216, 366, 460
CviQI GTAC 1 cut(s) 181
DpnI GATC 1 cut(s) 150
DpnII GATC 1 cut(s) 148
DraI TTTAAA 1 cut(s) 493
Eam1104I CTCTTC 1 cut(s) 304
EarI CTCTTC 1 cut(s) 304
EciI GGCGGA 1 cut(s) 120
Eco31I GGTCTC 1 cut(s) 455
Eco32I GATATC 1 cut(s) 445
EcoRV GATATC 1 cut(s) 445
FaeI CATG 3 cut(s) 66, 295, 409
FaiI YATR 8 cut(s) 64, 79, 81, 186, 253, 293, 335, 407
FalI AAGNNNNNCTT 2 cut(s) 153, 185
FatI CATG 3 cut(s) 62, 291, 405
FauNDI CATATG 1 cut(s) 79
FspBI CTAG 1 cut(s) 498
HaeIII GGCC 1 cut(s) 216
HgaI GACGC 1 cut(s) 145
Hin1I GRCGYC 1 cut(s) 156
Hin1II CATG 3 cut(s) 66, 295, 409
HindIII AAGCTT 2 cut(s) 364, 458
HinfI GANTC 3 cut(s) 87, 115, 384
HphI GGTGA 1 cut(s) 112
Hpy166II GTNNAC 1 cut(s) 421
Hpy188I TCNGA 1 cut(s) 433
Hpy8I GTNNAC 1 cut(s) 421
HpyCH4III ACNGT 3 cut(s) 25, 131, 180
HpyCH4V TGCA 6 cut(s) 234, 251, 362, 426, 528, 548
HpyF10VI GCNNNNNNNGC 4 cut(s) 37, 328, 359, 470
Hsp92I GRCGYC 1 cut(s) 156
Hsp92II CATG 3 cut(s) 66, 295, 409
Kzo9I GATC 1 cut(s) 148
LguI GCTCTTC 1 cut(s) 304
LpnPI CCDG 2 cut(s) 528, 548
LweI GCATC 3 cut(s) 58, 309, 349
MaeI CTAG 1 cut(s) 498
MalI GATC 1 cut(s) 150
MboI GATC 1 cut(s) 148
MboII GAAGA 5 cut(s) 30, 161, 267, 321, 469
MfeI CAATTG 1 cut(s) 303
MluCI AATT 5 cut(s) 285, 303, 348, 395, 482
MmeI TCCRAC 1 cut(s) 482
MnlI CCTC 4 cut(s) 101, 310, 353, 422
MseI TTAA 4 cut(s) 53, 288, 369, 492
MslI CAYNNNNRTG 1 cut(s) 553
MunI CAATTG 1 cut(s) 303
Mva1269I GAATGC 1 cut(s) 548
MwoI GCNNNNNNNGC 4 cut(s) 37, 328, 359, 470
NdeI CATATG 1 cut(s) 79
NdeII GATC 1 cut(s) 148
NlaIII CATG 3 cut(s) 66, 295, 409
NlaIV GGNNCC 1 cut(s) 298
NspI RCATGY 1 cut(s) 66
PciI ACATGT 1 cut(s) 62
PciSI GCTCTTC 1 cut(s) 304
PctI GAATGC 1 cut(s) 548
PfeI GAWTC 3 cut(s) 87, 115, 384
PscI ACATGT 1 cut(s) 62
PspN4I GGNNCC 1 cut(s) 298
PsrI GAACNNNNNNTAC 2 cut(s) 173, 205
PstI CTGCAG 1 cut(s) 530
RsaI GTAC 1 cut(s) 182
RsaNI GTAC 1 cut(s) 181
RseI CAYNNNNRTG 1 cut(s) 553
SapI GCTCTTC 1 cut(s) 304
SaqAI TTAA 4 cut(s) 53, 288, 369, 492
Sau3AI GATC 1 cut(s) 148
ScaI AGTACT 1 cut(s) 182
SetI ASST 7 cut(s) 33, 125, 168, 205, 209, 368, 462
SfaNI GCATC 3 cut(s) 58, 309, 349
SfcI CTRYAG 1 cut(s) 526
SmiMI CAYNNNNRTG 1 cut(s) 553
Sse9I AATT 5 cut(s) 285, 303, 348, 395, 482
SsiI CCGC 2 cut(s) 105, 138
SspI AATATT 1 cut(s) 36
SspMI CTAG 1 cut(s) 498
TaaI ACNGT 3 cut(s) 25, 131, 180
TaqII GACCGA 1 cut(s) 437
TasI AATT 5 cut(s) 285, 303, 348, 395, 482
TatI WGTACW 1 cut(s) 180
TfiI GAWTC 3 cut(s) 87, 115, 384
Tru1I TTAA 4 cut(s) 53, 288, 369, 492
Tru9I TTAA 4 cut(s) 53, 288, 369, 492
TscAI CASTG 5 cut(s) 30, 134, 428, 520, 542
TspDTI ATGAA 1 cut(s) 128
TspRI CASTG 5 cut(s) 30, 134, 428, 520, 542
XceI RCATGY 1 cut(s) 66
XspI CTAG 1 cut(s) 498
ZrmI AGTACT 1 cut(s) 182
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.