Rh5DG342800

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000612
Physical Location & Seq
Reverse (-)
46800263 .. 46809061
8799 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG342800.1

Sequence Viewer

Length: 474 bp
ATGGATTTGTTGATCCCTATGATCTTAGCGCTCAGCGATTTCTTGAATAATGAAATGGCGGATATGCTGAGTCGTTTGCATTTGCATGACGATGATGGTGACGGTGGTGATATAGGCGGTGGTGTTCGGGGGGATCAAGTCGAGGAAGAAGTGTCTGCAGATGATAGGACTATTTTCTTGACATTTTCTAAGGGTATCCCATTTCTGAAAAGGAAGAAATATGGGGAATTTTTTGATGCTATCCATATGCAAGAAGTACAAGTAGCGGATCAGCAGCCTTTATATGCCCGCCTTGTGGTTCGTTCCGCTTCTTTTATTCCAGTGGTGCTCGAGGGACAAAGCAAGGCCAAATTTTCTATCAATGGAAAACATGTTTGGGCAAGAAAGTTTCACATACTACTGTTGGAAGTTAATTTCTGTGTTGAAGCAAAGGGTGACAAGTTGTTGGCATCTCAAAATGCACAGCCGTCATAG
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
No domains found.

Protein Analysis

157

Amino Acids

17.53

Weight (kDa)

5.3

Isoelectric Point (pI)

31.31

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: OG0000612)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G49290 AT5G13620
fragaria_vesca FvH4_1g08631 FvH4_2g11491 FvH4_3g26240 FvH4_7g20310 FvH4_7g20310 FvH4_7g20311
malus_domestica MD02G1091200.v1.1 MD07G1180400.v1.1 MD15G1217400.v1.1
prunus_persica Prupe.2G219300_v2.0.a1 Prupe.2G219700_v2.0.a1 Prupe.7G199100_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0364241 RchiOBHm_Chr1g0364261 RchiOBHm_Chr2g0094911 RchiOBHm_Chr5g0048831 RchiOBHm_Chr5g0048891 RchiOBHm_Chr5g0048921 RchiOBHm_Chr6g0270221
rosa_laevigata RLG00000013804 RLG00000016530 RLG00000027499 RLG00000027502 RLG00000027503 RLG00000034558
rosa_multiflora Rmu_co8509593.1_g000001 Rmu_sc0002138.1_g000006 Rmu_sc0003628.1_g000024 Rmu_sc0006611.1_g000002 Rmu_sc0011253.1_g000002 Rmu_sc0011664.1_g000001 Rmu_sc0023830.1_g000002 Rmu_sc0023830.1_g000003
rosa_roxburghii Rroxscaffold_1G00033000 Rroxscaffold_2G00146780 Rroxscaffold_4G00292480 Rroxscaffold_4G00292520 Rroxscaffold_4G00292540 Rroxscaffold_7G00198040
rosa_rugosa Rorug01G0315200 Rorug01G0315300.1 Rorug02G0048800 Rorug05G0241300 Rorug06G0053800
rosa_samantha Rh1AG322400 Rh1AG322500 Rh1BG285300 Rh1BG285400 Rh1CG301700 Rh1CG301900 Rh1DG316700 Rh1DG316800 Rh2AG095400 Rh2BG096400 Rh2CG098400 Rh2DG095100 Rh5AG321000 Rh5AG321300 Rh5BG331300 Rh5BG331400 Rh5BG331500 Rh5CG356900 Rh5DG342800 Rh5DG342900 Rh5DG343100 Rh5DG343300 Rh6AG172300 Rh6BG176600 Rh6CG172500 Rh6DG163800
rosa_wichuraiana Rw1G028560 Rw1G028570 Rw2G007180 Rw5G030080 Rw5G030110 Rw5G030290 Rw5G030320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 5 cut(s) 59, 117, 266, 289, 306
AclWI GGATC 3 cut(s) 7, 141, 276
AcsI RAATTY 2 cut(s) 227, 350
AfaI GTAC 1 cut(s) 258
AfeI AGCGCT 1 cut(s) 30
AfiI CCNNNNNNNGG 1 cut(s) 295
AflIII ACRYGT 1 cut(s) 370
AgsI TTSAA 2 cut(s) 46, 425
AjuI GAANNNNNNNTTGG 2 cut(s) 358, 390
Alw21I GWGCWC 1 cut(s) 330
AlwI GGATC 3 cut(s) 7, 141, 276
Ama87I CYCGRG 1 cut(s) 329
Aor51HI AGCGCT 1 cut(s) 30
AoxI GGCC 1 cut(s) 345
ApeKI GCWGC 1 cut(s) 274
ApoI RAATTY 2 cut(s) 227, 350
AspLEI GCGC 1 cut(s) 31
AsuHPI GGTGA 3 cut(s) 110, 119, 446
AvaI CYCGRG 1 cut(s) 329
Bbv12I GWGCWC 1 cut(s) 330
BbvI GCAGC 1 cut(s) 286
BccI CCATC 1 cut(s) 89
BceAI ACGGC 1 cut(s) 451
BciVI GTATCC 1 cut(s) 206
BfmI CTRYAG 1 cut(s) 156
BfoI RGCGCY 1 cut(s) 32
BfuI GTATCC 1 cut(s) 206
BisI GCNGC 1 cut(s) 275
BlpI GCTNAGC 1 cut(s) 32
BlsI GCNGC 1 cut(s) 276
BmeT110I CYCGRG 1 cut(s) 329
BmsI GCATC 2 cut(s) 226, 458
Bpu1102I GCTNAGC 1 cut(s) 32
Bsc4I CCNNNNNNNGG 1 cut(s) 295
Bse1I ACTGG 1 cut(s) 320
BseLI CCNNNNNNNGG 1 cut(s) 295
BseMII CTCAG 2 cut(s) 46, 59
BseNI ACTGG 1 cut(s) 320
BseXI GCAGC 1 cut(s) 286
BshFI GGCC 1 cut(s) 347
BsiHKAI GWGCWC 1 cut(s) 330
BsiHKCI CYCGRG 1 cut(s) 329
BslFI GGGAC 1 cut(s) 348
BslI CCNNNNNNNGG 1 cut(s) 295
BsmFI GGGAC 1 cut(s) 348
BsnI GGCC 1 cut(s) 347
BsoBI CYCGRG 1 cut(s) 329
Bsp1286I GDGCHC 1 cut(s) 330
Bsp143I GATC 4 cut(s) 12, 21, 133, 268
Bsp1720I GCTNAGC 1 cut(s) 32
BspACI CCGC 5 cut(s) 59, 117, 266, 289, 306
BspANI GGCC 1 cut(s) 347
BspCNI CTCAG 2 cut(s) 45, 60
BspMAI CTGCAG 1 cut(s) 160
BspPI GGATC 3 cut(s) 7, 141, 276
BsrI ACTGG 1 cut(s) 320
BssMI GATC 4 cut(s) 12, 21, 133, 268
Bst4CI ACNGT 2 cut(s) 104, 402
BstC8I GCNNGC 1 cut(s) 289
BstDEI CTNAG 4 cut(s) 25, 32, 68, 189
BstH2I RGCGCY 1 cut(s) 32
BstHHI GCGC 1 cut(s) 31
BstKTI GATC 4 cut(s) 15, 24, 136, 271
BstMBI GATC 4 cut(s) 12, 21, 133, 268
BstNSI RCATGY 1 cut(s) 374
BstSFI CTRYAG 1 cut(s) 156
BstV1I GCAGC 1 cut(s) 286
BsuI GTATCC 1 cut(s) 206
BsuRI GGCC 1 cut(s) 347
BtsIMutI CAGTG 1 cut(s) 327
Cac8I GCNNGC 1 cut(s) 289
CfoI GCGC 1 cut(s) 31
Csp6I GTAC 1 cut(s) 257
CviAII CATG 2 cut(s) 86, 371
CviJI RGCY 3 cut(s) 277, 347, 466
CviKI_1 RGCY 3 cut(s) 277, 347, 466
CviQI GTAC 1 cut(s) 257
DdeI CTNAG 4 cut(s) 25, 32, 68, 189
DpnI GATC 4 cut(s) 14, 23, 135, 270
DpnII GATC 4 cut(s) 12, 21, 133, 268
EciI GGCGGA 1 cut(s) 74
Eco47III AGCGCT 1 cut(s) 30
Eco88I CYCGRG 1 cut(s) 329
FaeI CATG 2 cut(s) 89, 374
FaqI GGGAC 1 cut(s) 348
FatI CATG 2 cut(s) 85, 370
FauI CCCGC 1 cut(s) 296
FauNDI CATATG 1 cut(s) 246
Fnu4HI GCNGC 1 cut(s) 275
Fsp4HI GCNGC 1 cut(s) 275
GlaI GCGC 1 cut(s) 30
GluI GCNGC 1 cut(s) 275
HaeII RGCGCY 1 cut(s) 32
HaeIII GGCC 1 cut(s) 347
HhaI GCGC 1 cut(s) 31
Hin1II CATG 2 cut(s) 89, 374
Hin6I GCGC 1 cut(s) 29
HinP1I GCGC 1 cut(s) 29
HinfI GANTC 1 cut(s) 70
HphI GGTGA 3 cut(s) 110, 119, 446
Hpy188I TCNGA 1 cut(s) 207
Hpy188III TCNNGA 2 cut(s) 43, 178
HpyCH4III ACNGT 2 cut(s) 104, 402
HpyCH4V TGCA 5 cut(s) 79, 85, 158, 250, 461
HpyF3I CTNAG 4 cut(s) 25, 32, 68, 189
Hsp92II CATG 2 cut(s) 89, 374
HspAI GCGC 1 cut(s) 29
Kzo9I GATC 4 cut(s) 12, 21, 133, 268
LpnPI CCDG 1 cut(s) 333
Lsp1109I GCAGC 1 cut(s) 286
LweI GCATC 2 cut(s) 226, 458
MaeIII GTNAC 2 cut(s) 98, 434
MalI GATC 4 cut(s) 14, 23, 135, 270
MboI GATC 4 cut(s) 12, 21, 133, 268
MboII GAAGA 2 cut(s) 158, 226
MhlI GDGCHC 1 cut(s) 330
MluCI AATT 3 cut(s) 227, 350, 412
MlyI GAGTC 1 cut(s) 79
MmeI TCCRAC 1 cut(s) 384
MnlI CCTC 2 cut(s) 136, 325
MseI TTAA 1 cut(s) 411
MslI CAYNNNNRTG 2 cut(s) 84, 90
NdeI CATATG 1 cut(s) 246
NdeII GATC 4 cut(s) 12, 21, 133, 268
NlaIII CATG 2 cut(s) 89, 374
NmuCI GTSAC 2 cut(s) 98, 434
NspI RCATGY 1 cut(s) 374
PaeR7I CTCGAG 1 cut(s) 329
PciI ACATGT 1 cut(s) 370
PkrI GCNGC 1 cut(s) 276
PleI GAGTC 1 cut(s) 78
PpsI GAGTC 1 cut(s) 78
PscI ACATGT 1 cut(s) 370
PspXI VCTCGAGB 1 cut(s) 329
PstI CTGCAG 1 cut(s) 160
RsaI GTAC 1 cut(s) 258
RsaNI GTAC 1 cut(s) 257
RseI CAYNNNNRTG 2 cut(s) 84, 90
SaqAI TTAA 1 cut(s) 411
SatI GCNGC 1 cut(s) 275
Sau3AI GATC 4 cut(s) 12, 21, 133, 268
SchI GAGTC 1 cut(s) 79
SduI GDGCHC 1 cut(s) 330
SfaNI GCATC 2 cut(s) 226, 458
SfcI CTRYAG 1 cut(s) 156
Sfr274I CTCGAG 1 cut(s) 329
SlaI CTCGAG 1 cut(s) 329
SmiMI CAYNNNNRTG 2 cut(s) 84, 90
SmlI CTYRAG 1 cut(s) 329
SmoI CTYRAG 1 cut(s) 329
Sse9I AATT 3 cut(s) 227, 350, 412
SsiI CCGC 5 cut(s) 59, 117, 266, 289, 306
TaaI ACNGT 2 cut(s) 104, 402
TaqI TCGA 2 cut(s) 141, 330
TasI AATT 3 cut(s) 227, 350, 412
TatI WGTACW 1 cut(s) 256
Tru1I TTAA 1 cut(s) 411
Tru9I TTAA 1 cut(s) 411
TscAI CASTG 1 cut(s) 327
TseFI GTSAC 2 cut(s) 98, 434
TseI GCWGC 1 cut(s) 274
Tsp45I GTSAC 2 cut(s) 98, 434
TspDTI ATGAA 1 cut(s) 66
TspRI CASTG 1 cut(s) 327
XapI RAATTY 2 cut(s) 227, 350
XceI RCATGY 1 cut(s) 374
XhoI CTCGAG 1 cut(s) 329
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.