Rh4CG078200

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0017282
Physical Location & Seq
Reverse (-)
14121464 .. 14122728
1265 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG078200.1

Sequence Viewer

Length: 570 bp
ATGGCTTCGCGTAATCGAATTTTCTTTCAAATTATAAATATTTTGCCAAAATTAAGTCCCTCAAAAGGTTTCTCATCTCCCTTTAAATCAGTCTCCGTTGTGAACAGATTTTCTCAACATCAAATTCGTAAGAGTCACCTTATCAGATTCAAAATGTTTGGCAATTGCAGCCGCATGATGCTAATCCATGTGATCATCTTCTCCTTCACCATTTCCATCAGTTCTTCATCTCCAGCAAGACTCTCCGACAGTGGCCAACTTCCGGTGCTTAATTTCATTAATGGGTTGCCGAAAAACTCAGAGCCATGGGAGCTCAGATGCGGTAATCAGAGCACTAACGAACACCATGCGTATTTGAAAACTGGTGCAGAGGACCAATGGAGGATCGAGAAGAACATTGGTTACAGCTGCGATACACTGTGGGGAACTCAGTTTGCATACTGGAAAGTTTATCAGCCTGGTGAAGACTCCGGCAAAGCCACAGTGTTCTGGTTGGCTAAAGACGATGGTTTTTATCGCAGCTGGGATAAATCTACATGGACAAGAGAGTTTGAATGGGAACATGAGTAA
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

22.0

Weight (kDa)

9.32

Isoelectric Point (pI)

44.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Self-incomp_S1 PF05938 91 - 186 9.8e-09 Plant self-incompatibility protein S1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0017282)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g05643
rosa_chinensis RchiOBHm_Chr4g0396821
rosa_laevigata RLG00000009502
rosa_multiflora Rmu_sc0000487.1_g000053
rosa_roxburghii Rroxscaffold_5G00341660
rosa_rugosa Rorug03G0347500
rosa_samantha Rh4AG072000 Rh4AG072800 Rh4AG074900 Rh4BG069900 Rh4CG078200 Rh4DG067700
rosa_wichuraiana Rw4G005910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 35
AccII CGCG 1 cut(s) 10
AciI CCGC 2 cut(s) 172, 321
AclWI GGATC 1 cut(s) 392
AcoI YGGCCR 1 cut(s) 253
AcsI RAATTY 2 cut(s) 18, 123
AfiI CCNNNNNNNGG 2 cut(s) 65, 262
AgsI TTSAA 4 cut(s) 29, 151, 358, 554
AjnI CCWGG 1 cut(s) 457
AluBI AGCT 3 cut(s) 313, 408, 522
AluI AGCT 3 cut(s) 313, 408, 522
Alw21I GWGCWC 2 cut(s) 315, 335
Alw26I GTCTC 1 cut(s) 97
AlwI GGATC 1 cut(s) 392
AoxI GGCC 1 cut(s) 253
ApeKI GCWGC 3 cut(s) 168, 408, 519
ApoI RAATTY 2 cut(s) 18, 123
AseI ATTAAT 1 cut(s) 279
AspS9I GGNCC 1 cut(s) 373
AsuHPI GGTGA 3 cut(s) 128, 199, 473
AvaII GGWCC 1 cut(s) 373
BalI TGGCCA 1 cut(s) 255
BanII GRGCYC 1 cut(s) 315
BbsI GAAGAC 1 cut(s) 471
Bbv12I GWGCWC 2 cut(s) 315, 335
BbvI GCAGC 3 cut(s) 180, 395, 531
BccI CCATC 2 cut(s) 224, 500
BcgI CGANNNNNNTGC 2 cut(s) 329, 363
BciT130I CCWGG 1 cut(s) 459
BclI TGATCA 1 cut(s) 192
BcoDI GTCTC 1 cut(s) 97
BisI GCNGC 4 cut(s) 169, 172, 409, 520
BlsI GCNGC 4 cut(s) 170, 173, 410, 521
Bme1390I CCNGG 1 cut(s) 459
Bme18I GGWCC 1 cut(s) 373
BmgT120I GGNCC 1 cut(s) 373
BmrFI CCNGG 1 cut(s) 459
BmsI GCATC 2 cut(s) 168, 308
BpiI GAAGAC 1 cut(s) 471
BpmI CTGGAG 1 cut(s) 216
BsaBI GATNNNNATC 1 cut(s) 182
BsaJI CCNNGG 1 cut(s) 305
BsaWI WCCGGW 1 cut(s) 262
Bsc4I CCNNNNNNNGG 2 cut(s) 65, 262
Bse1I ACTGG 2 cut(s) 367, 446
Bse8I GATNNNNATC 1 cut(s) 182
BseBI CCWGG 1 cut(s) 459
BseDI CCNNGG 1 cut(s) 305
BseJI GATNNNNATC 1 cut(s) 182
BseLI CCNNNNNNNGG 2 cut(s) 65, 262
BseMII CTCAG 3 cut(s) 312, 328, 443
BseNI ACTGG 2 cut(s) 367, 446
BseXI GCAGC 3 cut(s) 180, 395, 531
BseYI CCCAGC 1 cut(s) 522
BsgI GTGCAG 1 cut(s) 387
Bsh1236I CGCG 1 cut(s) 10
BshFI GGCC 1 cut(s) 255
BsiHKAI GWGCWC 2 cut(s) 315, 335
BsiSI CCGG 2 cut(s) 263, 471
BslFI GGGAC 1 cut(s) 42
BslI CCNNNNNNNGG 2 cut(s) 65, 262
BsmAI GTCTC 1 cut(s) 97
BsmFI GGGAC 1 cut(s) 42
BsnI GGCC 1 cut(s) 255
Bsp1286I GDGCHC 2 cut(s) 315, 335
Bsp143I GATC 2 cut(s) 192, 384
Bsp19I CCATGG 1 cut(s) 305
BspACI CCGC 2 cut(s) 172, 321
BspANI GGCC 1 cut(s) 255
BspCNI CTCAG 3 cut(s) 311, 327, 442
BspFNI CGCG 1 cut(s) 10
BspPI GGATC 1 cut(s) 392
BsrI ACTGG 2 cut(s) 367, 446
BssECI CCNNGG 1 cut(s) 305
BssMI GATC 2 cut(s) 192, 384
BssT1I CCWWGG 1 cut(s) 305
Bst2UI CCWGG 1 cut(s) 459
Bst4CI ACNGT 3 cut(s) 251, 420, 484
BstDEI CTNAG 3 cut(s) 298, 314, 429
BstDSI CCRYGG 1 cut(s) 305
BstFNI CGCG 1 cut(s) 10
BstKTI GATC 2 cut(s) 195, 387
BstMAI GTCTC 1 cut(s) 97
BstMBI GATC 2 cut(s) 192, 384
BstMWI GCNNNNNNNGC 2 cut(s) 168, 310
BstNI CCWGG 1 cut(s) 459
BstSCI CCNGG 1 cut(s) 457
BstUI CGCG 1 cut(s) 10
BstV1I GCAGC 3 cut(s) 180, 395, 531
BstV2I GAAGAC 1 cut(s) 471
BsuRI GGCC 1 cut(s) 255
BtgI CCRYGG 1 cut(s) 305
BtsIMutI CAGTG 3 cut(s) 256, 416, 489
Cfr13I GGNCC 1 cut(s) 373
CviAII CATG 6 cut(s) 175, 188, 306, 347, 537, 563
DdeI CTNAG 3 cut(s) 298, 314, 429
DpnI GATC 2 cut(s) 194, 386
DpnII GATC 2 cut(s) 192, 384
DraI TTTAAA 1 cut(s) 85
EaeI YGGCCR 1 cut(s) 253
Ecl136II GAGCTC 1 cut(s) 313
Eco130I CCWWGG 1 cut(s) 305
Eco24I GRGCYC 1 cut(s) 315
Eco47I GGWCC 1 cut(s) 373
Eco53kI GAGCTC 1 cut(s) 313
EcoICRI GAGCTC 1 cut(s) 313
EcoRII CCWGG 1 cut(s) 457
EcoT14I CCWWGG 1 cut(s) 305
EcoT38I GRGCYC 1 cut(s) 315
ErhI CCWWGG 1 cut(s) 305
FaeI CATG 6 cut(s) 178, 191, 309, 350, 540, 566
FaiI YATR 8 cut(s) 35, 176, 189, 307, 348, 439, 538, 564
FaqI GGGAC 1 cut(s) 42
FatI CATG 6 cut(s) 174, 187, 305, 346, 536, 562
FbaI TGATCA 1 cut(s) 192
Fnu4HI GCNGC 4 cut(s) 169, 172, 409, 520
FriOI GRGCYC 1 cut(s) 315
Fsp4HI GCNGC 4 cut(s) 169, 172, 409, 520
GluI GCNGC 4 cut(s) 169, 172, 409, 520
GsaI CCCAGC 1 cut(s) 526
GsuI CTGGAG 1 cut(s) 216
HaeIII GGCC 1 cut(s) 255
HapII CCGG 2 cut(s) 263, 471
Hin1II CATG 6 cut(s) 178, 191, 309, 350, 540, 566
HinfI GANTC 4 cut(s) 133, 147, 240, 467
HpaII CCGG 2 cut(s) 263, 471
HphI GGTGA 3 cut(s) 128, 199, 473
Hpy166II GTNNAC 1 cut(s) 103
Hpy188I TCNGA 5 cut(s) 146, 247, 301, 317, 330
Hpy188III TCNNGA 1 cut(s) 388
Hpy8I GTNNAC 1 cut(s) 103
HpyAV CCTTC 1 cut(s) 214
HpyCH4III ACNGT 3 cut(s) 251, 420, 484
HpyCH4V TGCA 3 cut(s) 168, 368, 437
HpyF10VI GCNNNNNNNGC 2 cut(s) 168, 310
HpyF3I CTNAG 3 cut(s) 298, 314, 429
Hsp92II CATG 6 cut(s) 178, 191, 309, 350, 540, 566
Ksp22I TGATCA 1 cut(s) 192
Kzo9I GATC 2 cut(s) 192, 384
LmnI GCTCC 1 cut(s) 310
LpnPI CCDG 9 cut(s) 246, 276, 348, 427, 444, 471, 475, 484, 508
Lsp1109I GCAGC 3 cut(s) 180, 395, 531
LweI GCATC 2 cut(s) 168, 308
MaeIII GTNAC 2 cut(s) 134, 401
MalI GATC 2 cut(s) 194, 386
MboI GATC 2 cut(s) 192, 384
MboII GAAGA 4 cut(s) 190, 216, 403, 476
MfeI CAATTG 1 cut(s) 163
MhlI GDGCHC 2 cut(s) 315, 335
MlsI TGGCCA 1 cut(s) 255
MluCI AATT 6 cut(s) 18, 30, 50, 123, 163, 271
MluNI TGGCCA 1 cut(s) 255
MlyI GAGTC 3 cut(s) 142, 234, 461
MmeI TCCRAC 1 cut(s) 270
MnlI CCTC 3 cut(s) 70, 364, 375
Mox20I TGGCCA 1 cut(s) 255
MscI TGGCCA 1 cut(s) 255
MseI TTAA 4 cut(s) 53, 84, 270, 279
Msp20I TGGCCA 1 cut(s) 255
MspA1I CMGCKG 2 cut(s) 408, 522
MspI CCGG 2 cut(s) 263, 471
MspR9I CCNGG 1 cut(s) 459
MunI CAATTG 1 cut(s) 163
MvaI CCWGG 1 cut(s) 459
MvnI CGCG 1 cut(s) 10
MwoI GCNNNNNNNGC 2 cut(s) 168, 310
NcoI CCATGG 1 cut(s) 305
NdeII GATC 2 cut(s) 192, 384
NlaIII CATG 6 cut(s) 178, 191, 309, 350, 540, 566
NmuCI GTSAC 1 cut(s) 134
PfeI GAWTC 1 cut(s) 147
PkrI GCNGC 4 cut(s) 170, 173, 410, 521
PleI GAGTC 3 cut(s) 141, 234, 461
PpsI GAGTC 3 cut(s) 141, 234, 461
PshBI ATTAAT 1 cut(s) 279
PsiI TTATAA 1 cut(s) 35
Psp124BI GAGCTC 1 cut(s) 315
Psp6I CCWGG 1 cut(s) 457
PspFI CCCAGC 1 cut(s) 522
PspGI CCWGG 1 cut(s) 457
PspPI GGNCC 1 cut(s) 373
PsrI GAACNNNNNNTAC 2 cut(s) 386, 418
PvuII CAGCTG 2 cut(s) 408, 522
SacI GAGCTC 1 cut(s) 315
SaqAI TTAA 4 cut(s) 53, 84, 270, 279
SatI GCNGC 4 cut(s) 169, 172, 409, 520
Sau3AI GATC 2 cut(s) 192, 384
Sau96I GGNCC 1 cut(s) 373
SchI GAGTC 3 cut(s) 142, 234, 461
ScrFI CCNGG 1 cut(s) 459
SduI GDGCHC 2 cut(s) 315, 335
SetI ASST 5 cut(s) 70, 141, 315, 410, 524
SfaNI GCATC 2 cut(s) 168, 308
SinI GGWCC 1 cut(s) 373
Sse9I AATT 6 cut(s) 18, 30, 50, 123, 163, 271
SsiI CCGC 2 cut(s) 172, 321
SspI AATATT 1 cut(s) 40
SstI GAGCTC 1 cut(s) 315
StyD4I CCNGG 1 cut(s) 457
StyI CCWWGG 1 cut(s) 305
TaaI ACNGT 3 cut(s) 251, 420, 484
TaqI TCGA 2 cut(s) 16, 387
TasI AATT 6 cut(s) 18, 30, 50, 123, 163, 271
TauI GCSGC 1 cut(s) 174
TfiI GAWTC 1 cut(s) 147
Tru1I TTAA 4 cut(s) 53, 84, 270, 279
Tru9I TTAA 4 cut(s) 53, 84, 270, 279
TscAI CASTG 3 cut(s) 256, 423, 489
TseFI GTSAC 1 cut(s) 134
TseI GCWGC 3 cut(s) 168, 408, 519
Tsp45I GTSAC 1 cut(s) 134
TspDTI ATGAA 2 cut(s) 216, 265
TspGWI ACGGA 1 cut(s) 85
TspRI CASTG 3 cut(s) 256, 423, 489
VpaK11BI GGWCC 1 cut(s) 373
VspI ATTAAT 1 cut(s) 279
XapI RAATTY 2 cut(s) 18, 123
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.