Rh4DG338000

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0016536
Physical Location & Seq
Reverse (-)
56073169 .. 56074923
1755 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG338000.1

Sequence Viewer

Length: 579 bp
ATGGCCATCGAGGTGTGCTCGGAGATTTCCAGCCCCGTATTTAGTCCAAGGATTTCGTTTTCTCATGATCTCGACAAGGCAAACGTTACGGTGACAAAAGAAGAGCAGCCACAACAACGGTTAGACTCATCTCTGGTGGATTCAAGTTCTGATTTCGACTTCTGCATAGTCAATAATATCAAGCTAGAGCTGTCTTCGGCGGACGAGCTTTTCTCCAATGGCAAGATTCTTCCTGTCCAAATCAAGCTAAATCCCAACACCACCGCCACCAAAGAAGCCCTTCTTCAGCCTCCTCATCAATCCGCAACAAAAAACACAGAGAAAAAGAGACTGAAGGAGTTCTTAGACGACAGCAATGCTGAAGATGAAACTAATGAAAATGATGAGAAGCCTGCGATTGCAAAGCCCTCCTGGCAGTTCAGGAGAAGCAGCAGCCTCAATTTCGATAGTACTACTACTGCTCGCGATGAAGTGAAACAGAGTACTACTGACAAAAGCAACAATCGTCTGACGCGCATTCAAAGGTCAAGAATGCCGAGTCAAACAACAGCTTTTGGACCTTGGTTCTCCGAGTTTTGA
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
DUF1645

Protein Analysis

192

Amino Acids

21.66

Weight (kDa)

5.19

Isoelectric Point (pI)

60.31

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0016536)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G68330
fragaria_vesca FvH4_4g27060
malus_domestica MD13G1039600.v1.1 MD16G1040500.v1.1
prunus_persica Prupe.1G313600_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0434861
rosa_laevigata RLG00000006640
rosa_multiflora Rmu_sc0003726.1_g000002
rosa_roxburghii Rroxscaffold_5G00376070
rosa_rugosa Rorug04G0279700
rosa_samantha Rh4AG335500 Rh4BG344000 Rh4DG338000
rosa_wichuraiana Rw4G029270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 465, 514
AciI CCGC 3 cut(s) 200, 264, 303
AclI AACGTT 1 cut(s) 84
AcoI YGGCCR 1 cut(s) 3
AcuI CTGAAG 3 cut(s) 269, 353, 381
AfaI GTAC 2 cut(s) 451, 484
AgsI TTSAA 2 cut(s) 144, 521
AjnI CCWGG 1 cut(s) 410
AluBI AGCT 5 cut(s) 184, 190, 208, 247, 551
AluI AGCT 5 cut(s) 184, 190, 208, 247, 551
Alw21I GWGCWC 1 cut(s) 20
Alw26I GTCTC 1 cut(s) 322
AoxI GGCC 1 cut(s) 3
ApeKI GCWGC 3 cut(s) 106, 429, 432
Asp700I GAANNNNTTC 2 cut(s) 279, 338
AspLEI GCGC 1 cut(s) 516
AspS9I GGNCC 1 cut(s) 557
AsuHPI GGTGA 1 cut(s) 103
AvaII GGWCC 1 cut(s) 557
BalI TGGCCA 1 cut(s) 5
BbsI GAAGAC 1 cut(s) 186
Bbv12I GWGCWC 1 cut(s) 20
BbvI GCAGC 3 cut(s) 118, 441, 444
BccI CCATC 1 cut(s) 14
BcgI CGANNNNNNTGC 2 cut(s) 338, 372
BciT130I CCWGG 1 cut(s) 412
BcoDI GTCTC 1 cut(s) 322
BfaI CTAG 1 cut(s) 185
BglI GCCNNNNNGGC 1 cut(s) 412
BisI GCNGC 3 cut(s) 107, 430, 433
BlsI GCNGC 3 cut(s) 108, 431, 434
BmcAI AGTACT 2 cut(s) 451, 484
Bme1390I CCNGG 1 cut(s) 412
Bme18I GGWCC 1 cut(s) 557
BmgT120I GGNCC 1 cut(s) 557
BmrFI CCNGG 1 cut(s) 412
BpiI GAAGAC 1 cut(s) 186
BplI GAGNNNNNCTC 3 cut(s) 34, 197, 229
BsaJI CCNNGG 2 cut(s) 47, 560
Bse3DI GCAATG 1 cut(s) 361
BseBI CCWGG 1 cut(s) 412
BseDI CCNNGG 2 cut(s) 47, 560
BseMI GCAATG 1 cut(s) 361
BseRI GAGGAG 1 cut(s) 282
BseXI GCAGC 3 cut(s) 118, 441, 444
Bsh1236I CGCG 2 cut(s) 465, 514
BshFI GGCC 1 cut(s) 5
BsiHKAI GWGCWC 1 cut(s) 20
BsmAI GTCTC 1 cut(s) 322
BsmI GAATGC 2 cut(s) 516, 537
BsnI GGCC 1 cut(s) 5
Bsp1286I GDGCHC 1 cut(s) 20
Bsp143I GATC 1 cut(s) 67
Bsp68I TCGCGA 1 cut(s) 465
BspACI CCGC 3 cut(s) 200, 264, 303
BspANI GGCC 1 cut(s) 5
BspFNI CGCG 2 cut(s) 465, 514
BspHI TCATGA 1 cut(s) 64
BspQI GCTCTTC 1 cut(s) 96
BsrDI GCAATG 1 cut(s) 361
BssECI CCNNGG 2 cut(s) 47, 560
BssMI GATC 1 cut(s) 67
BssT1I CCWWGG 2 cut(s) 47, 560
Bst2UI CCWGG 1 cut(s) 412
Bst4CI ACNGT 2 cut(s) 91, 120
Bst6I CTCTTC 1 cut(s) 96
BstC8I GCNNGC 2 cut(s) 393, 463
BstDEI CTNAG 1 cut(s) 343
BstFNI CGCG 2 cut(s) 465, 514
BstHHI GCGC 1 cut(s) 516
BstKTI GATC 1 cut(s) 70
BstMAI GTCTC 1 cut(s) 322
BstMBI GATC 1 cut(s) 67
BstMWI GCNNNNNNNGC 1 cut(s) 412
BstNI CCWGG 1 cut(s) 412
BstSCI CCNGG 1 cut(s) 410
BstUI CGCG 2 cut(s) 465, 514
BstV1I GCAGC 3 cut(s) 118, 441, 444
BstV2I GAAGAC 1 cut(s) 186
BsuRI GGCC 1 cut(s) 5
BtgZI GCGATG 1 cut(s) 480
BtuMI TCGCGA 1 cut(s) 465
Cac8I GCNNGC 2 cut(s) 393, 463
CciI TCATGA 1 cut(s) 64
CfoI GCGC 1 cut(s) 516
Cfr13I GGNCC 1 cut(s) 557
CseI GACGC 1 cut(s) 520
Csp6I GTAC 2 cut(s) 450, 483
CviAII CATG 1 cut(s) 65
CviQI GTAC 2 cut(s) 450, 483
DdeI CTNAG 1 cut(s) 343
DpnI GATC 1 cut(s) 69
DpnII GATC 1 cut(s) 67
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 1 cut(s) 96
EarI CTCTTC 1 cut(s) 96
EciI GGCGGA 1 cut(s) 215
Eco130I CCWWGG 2 cut(s) 47, 560
Eco47I GGWCC 1 cut(s) 557
Eco57I CTGAAG 3 cut(s) 269, 353, 381
EcoRII CCWGG 1 cut(s) 410
EcoT14I CCWWGG 2 cut(s) 47, 560
ErhI CCWWGG 2 cut(s) 47, 560
FaeI CATG 1 cut(s) 68
FaiI YATR 2 cut(s) 66, 167
FalI AAGNNNNNCTT 6 cut(s) 264, 296, 267, 299, 326, 358
FatI CATG 1 cut(s) 64
Fnu4HI GCNGC 3 cut(s) 107, 430, 433
Fsp4HI GCNGC 3 cut(s) 107, 430, 433
FspBI CTAG 1 cut(s) 185
GlaI GCGC 1 cut(s) 515
GluI GCNGC 3 cut(s) 107, 430, 433
HaeIII GGCC 1 cut(s) 5
HgaI GACGC 1 cut(s) 520
HhaI GCGC 1 cut(s) 516
Hin1II CATG 1 cut(s) 68
Hin6I GCGC 1 cut(s) 514
HinP1I GCGC 1 cut(s) 514
HinfI GANTC 4 cut(s) 125, 140, 226, 538
HphI GGTGA 1 cut(s) 103
Hpy188I TCNGA 4 cut(s) 22, 151, 510, 571
Hpy188III TCNNGA 5 cut(s) 65, 71, 421, 464, 528
HpyAV CCTTC 2 cut(s) 290, 328
HpyCH4III ACNGT 2 cut(s) 91, 120
HpyCH4IV ACGT 1 cut(s) 84
HpyCH4V TGCA 2 cut(s) 165, 401
HpyF10VI GCNNNNNNNGC 1 cut(s) 412
HpyF3I CTNAG 1 cut(s) 343
HpySE526I ACGT 1 cut(s) 84
Hsp92II CATG 1 cut(s) 68
HspAI GCGC 1 cut(s) 514
Kzo9I GATC 1 cut(s) 67
LguI GCTCTTC 1 cut(s) 96
LpnPI CCDG 7 cut(s) 43, 119, 246, 397, 405, 406, 424
Lsp1109I GCAGC 3 cut(s) 118, 441, 444
MaeI CTAG 1 cut(s) 185
MaeII ACGT 1 cut(s) 84
MaeIII GTNAC 2 cut(s) 85, 91
MalI GATC 1 cut(s) 69
MboI GATC 1 cut(s) 67
MboII GAAGA 5 cut(s) 113, 186, 221, 275, 374
MhlI GDGCHC 1 cut(s) 20
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 1 cut(s) 439
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 2 cut(s) 119, 547
MnlI CCTC 5 cut(s) 4, 300, 303, 418, 446
Mox20I TGGCCA 1 cut(s) 5
MroXI GAANNNNTTC 2 cut(s) 279, 338
MscI TGGCCA 1 cut(s) 5
MslI CAYNNNNRTG 1 cut(s) 11
Msp20I TGGCCA 1 cut(s) 5
MspR9I CCNGG 1 cut(s) 412
Mva1269I GAATGC 2 cut(s) 516, 537
MvaI CCWGG 1 cut(s) 412
MvnI CGCG 2 cut(s) 465, 514
MwoI GCNNNNNNNGC 1 cut(s) 412
NdeII GATC 1 cut(s) 67
NlaIII CATG 1 cut(s) 68
NmeAIII GCCGAG 1 cut(s) 561
NmuCI GTSAC 1 cut(s) 91
NruI TCGCGA 1 cut(s) 465
PagI TCATGA 1 cut(s) 64
PciSI GCTCTTC 1 cut(s) 96
PctI GAATGC 2 cut(s) 516, 537
PdmI GAANNNNTTC 2 cut(s) 279, 338
PfeI GAWTC 2 cut(s) 140, 226
PkrI GCNGC 3 cut(s) 108, 431, 434
PleI GAGTC 2 cut(s) 119, 546
PpsI GAGTC 2 cut(s) 119, 546
Psp1406I AACGTT 1 cut(s) 84
Psp6I CCWGG 1 cut(s) 410
PspGI CCWGG 1 cut(s) 410
PspPI GGNCC 1 cut(s) 557
RruI TCGCGA 1 cut(s) 465
RsaI GTAC 2 cut(s) 451, 484
RsaNI GTAC 2 cut(s) 450, 483
RseI CAYNNNNRTG 1 cut(s) 11
SapI GCTCTTC 1 cut(s) 96
SatI GCNGC 3 cut(s) 107, 430, 433
Sau3AI GATC 1 cut(s) 67
Sau96I GGNCC 1 cut(s) 557
ScaI AGTACT 2 cut(s) 451, 484
SchI GAGTC 2 cut(s) 119, 547
ScrFI CCNGG 1 cut(s) 412
SduI GDGCHC 1 cut(s) 20
SetI ASST 9 cut(s) 15, 87, 186, 192, 210, 249, 527, 553, 562
SinI GGWCC 1 cut(s) 557
SmiMI CAYNNNNRTG 1 cut(s) 11
Sse9I AATT 1 cut(s) 439
SsiI CCGC 3 cut(s) 200, 264, 303
SspMI CTAG 1 cut(s) 185
StyD4I CCNGG 1 cut(s) 410
StyI CCWWGG 2 cut(s) 47, 560
TaaI ACNGT 2 cut(s) 91, 120
TaiI ACGT 1 cut(s) 87
TaqI TCGA 4 cut(s) 9, 72, 156, 444
TasI AATT 1 cut(s) 439
TatI WGTACW 2 cut(s) 449, 482
TfiI GAWTC 2 cut(s) 140, 226
TseFI GTSAC 1 cut(s) 91
TseI GCWGC 3 cut(s) 106, 429, 432
Tsp45I GTSAC 1 cut(s) 91
TspDTI ATGAA 3 cut(s) 381, 390, 483
VpaK11BI GGWCC 1 cut(s) 557
XmnI GAANNNNTTC 2 cut(s) 279, 338
XspI CTAG 1 cut(s) 185
ZrmI AGTACT 2 cut(s) 451, 484
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.