Rh4AG072000

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0017282
Physical Location & Seq
Reverse (-)
14819703 .. 14820969
1267 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG072000.1

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
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Publication-ready
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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.