Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002171

Physical Location & Seq

Genomic Coordinates Reverse (-)

13679516 .. 13680182

Gene Structure 667 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG158300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGAAGAGAACTAGAGAAGAGGTTGTTGCTGTAGACATGGATAAAGTTCTTATGCTACTATCATGTAGGTTAGAAACCAAGTTCAAAAGATGTTCATCTACCCCAAATGATGTGTTCGAGTGCAAAACTTGCAATCGTCAATTCCCATCGTTCCAAGCTCTTGGTGGCCACAGAGCAAGCCACAAAAAGCCAAGAACGTTAATGGGCAGTGATCAAGACCCGAAAAGTGAGAACAAAATGGCCCAAAGCAAGCCGAAAAAGCACGAGTGCTCCATATGTGGGCGTGAGTTTAGTTCGGGACAAGCTTTGGGGGGTCACATGAGAAGGCATAGAACGGTGAATGCTACCATTCCTGCTGGTGCGTCGGTTGATGGTGCTTCAAAGATGAAGATTCCGATACTAATGAGATCGAATAGTAAGAGGTTGATGTGTTTGGACATGGACCTGAACTTGACACCTCTAGAGAATGAATTGAAGCTGTTGTTTGGGAATATGGCACCAAAAATTGATACTTTGATTTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010045 GO:0010200 GO:0010243 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0042221 GO:0042493 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051239 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071241 GO:0071248 GO:0071289 GO:0080090 GO:0140110 GO:1901698 GO:1901700 GO:1903506 GO:2000026 GO:2000112 GO:2000280 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2_6

Protein Analysis

174

Amino Acids

19.47

Weight (kDa)

9.65

Isoelectric Point (pI)

44.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C2H2_6	PF13912	38 - 64	3.9e-13	C2H2-type zinc finger
zf-C2H2_6	PF13912	88 - 112	4e-12	C2H2-type zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002171)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37430 AT3G53600
fragaria_vesca	FvH4_6g14410 FvH4_6g14411
malus_domestica	MD04G1119600.v1.1 MD12G1136900.v1.1
prunus_persica	Prupe.6G249300_v2.0.a1
pyrus_communis	pycom04g10910 pycom12g13140
rosa_chinensis	RchiOBHm_Chr3g0467501 RchiOBHm_Chr3g0467521 RchiOBHm_Chr3g0467531 RchiOBHm_Chr3g0467541
rosa_laevigata	RLG00000024493 RLG00000024494 RLG00000024497 RLG00000024498 RLG00000024500 RLG00000024501
rosa_multiflora	Rmu_co8150280.1_g000001 Rmu_sc0000286.1_g000002 Rmu_sc0000286.1_g000003 Rmu_sc0000286.1_g000005 Rmu_sc0006408.1_g000010
rosa_roxburghii	Rroxscaffold_6G00413620 Rroxscaffold_6G00413630 Rroxscaffold_6G00413640
rosa_rugosa	Rorug03G0087700 Rorug03G0087800 Rorug03G0087900 Rorug03G0087900
rosa_samantha	Rh3AG135700 Rh3AG135800 Rh3BG157300 Rh3BG157400 Rh3BG157500 Rh3BG157600 Rh3CG157400 Rh3CG157500 Rh3DG158300 Rh3DG158400
rosa_wichuraiana	Rw3G012890 Rw3G012900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	496
AccI	GTMKAC	1 cut(s)	33
AclI	AACGTT	1 cut(s)	197
AcoI	YGGCCR	1 cut(s)	166
AfiI	CCNNNNNNNGG	1 cut(s)	279
AgsI	TTSAA	3 cut(s)	85, 381, 475
AluBI	AGCT	3 cut(s)	158, 305, 478
AluI	AGCT	3 cut(s)	158, 305, 478
Alw21I	GWGCWC	1 cut(s)	272
AoxI	GGCC	2 cut(s)	166, 240
AspS9I	GGNCC	2 cut(s)	241, 442
AsuHPI	GGTGA	1 cut(s)	349
AvaII	GGWCC	1 cut(s)	442
BalI	TGGCCA	1 cut(s)	168
BanI	GGYRCC	1 cut(s)	496
BauI	CACGAG	1 cut(s)	263
Bbv12I	GWGCWC	1 cut(s)	272
BccI	CCATC	2 cut(s)	154, 365
BclI	TGATCA	1 cut(s)	211
BfaI	CTAG	2 cut(s)	12, 461
BfmI	CTRYAG	1 cut(s)	30
Bme18I	GGWCC	1 cut(s)	442
BmgT120I	GGNCC	2 cut(s)	241, 442
BmiI	GGNNCC	1 cut(s)	498
BsaBI	GATNNNNATC	1 cut(s)	94
BsaXI	ACNNNNNCTCC	2 cut(s)	254, 284
Bsc4I	CCNNNNNNNGG	1 cut(s)	279
Bse8I	GATNNNNATC	1 cut(s)	94
BseJI	GATNNNNATC	1 cut(s)	94
BseLI	CCNNNNNNNGG	1 cut(s)	279
BshFI	GGCC	2 cut(s)	168, 242
BshNI	GGYRCC	1 cut(s)	496
BsiHKAI	GWGCWC	1 cut(s)	272
BslFI	GGGAC	1 cut(s)	312
BslI	CCNNNNNNNGG	1 cut(s)	279
BsmFI	GGGAC	1 cut(s)	312
BsmI	GAATGC	1 cut(s)	346
BsnI	GGCC	2 cut(s)	168, 242
Bsp1286I	GDGCHC	1 cut(s)	272
Bsp143I	GATC	2 cut(s)	211, 407
BspANI	GGCC	2 cut(s)	168, 242
BspLI	GGNNCC	1 cut(s)	498
BspT107I	GGYRCC	1 cut(s)	496
BssMI	GATC	2 cut(s)	211, 407
BssSI	CACGAG	1 cut(s)	263
Bst2BI	CACGAG	1 cut(s)	263
Bst4CI	ACNGT	1 cut(s)	337
Bst6I	CTCTTC	1 cut(s)	12
BstAPI	GCANNNNNTGC	1 cut(s)	129
BstC8I	GCNNGC	2 cut(s)	178, 251
BstKTI	GATC	2 cut(s)	214, 410
BstMBI	GATC	2 cut(s)	211, 407
BstMWI	GCNNNNNNNGC	2 cut(s)	129, 259
BstSFI	CTRYAG	1 cut(s)	30
BstXI	CCANNNNNNTGG	1 cut(s)	161
BsuRI	GGCC	2 cut(s)	168, 242
BtsI	GCAGTG	1 cut(s)	214
BtsIMutI	CAGTG	1 cut(s)	214
Cac8I	GCNNGC	2 cut(s)	178, 251
Cfr13I	GGNCC	2 cut(s)	241, 442
CseI	GACGC	1 cut(s)	351
CviAII	CATG	4 cut(s)	37, 63, 319, 439
CviJI	RGCY	8 cut(s)	158, 168, 180, 190, 242, 253, 305, 478
CviKI_1	RGCY	8 cut(s)	158, 168, 180, 190, 242, 253, 305, 478
DpnI	GATC	2 cut(s)	213, 409
DpnII	GATC	2 cut(s)	211, 407
EaeI	YGGCCR	1 cut(s)	166
Eam1104I	CTCTTC	1 cut(s)	12
EarI	CTCTTC	1 cut(s)	12
Eco47I	GGWCC	1 cut(s)	442
FaeI	CATG	4 cut(s)	40, 66, 322, 442
FaqI	GGGAC	1 cut(s)	312
FatI	CATG	4 cut(s)	36, 62, 318, 438
FauNDI	CATATG	1 cut(s)	275
FbaI	TGATCA	1 cut(s)	211
FblI	GTMKAC	1 cut(s)	33
FspBI	CTAG	2 cut(s)	12, 461
HaeIII	GGCC	2 cut(s)	168, 242
HgaI	GACGC	1 cut(s)	351
Hin1II	CATG	4 cut(s)	40, 66, 322, 442
HindIII	AAGCTT	1 cut(s)	303
HinfI	GANTC	1 cut(s)	391
HphI	GGTGA	1 cut(s)	349
Hpy166II	GTNNAC	1 cut(s)	34
Hpy188I	TCNGA	1 cut(s)	396
Hpy188III	TCNNGA	3 cut(s)	215, 297, 461
Hpy8I	GTNNAC	1 cut(s)	34
Hpy99I	CGWCG	1 cut(s)	367
HpyAV	CCTTC	1 cut(s)	318
HpyCH4III	ACNGT	1 cut(s)	337
HpyCH4IV	ACGT	1 cut(s)	197
HpyCH4V	TGCA	2 cut(s)	123, 132
HpyF10VI	GCNNNNNNNGC	2 cut(s)	129, 259
HpySE526I	ACGT	1 cut(s)	197
Hsp92II	CATG	4 cut(s)	40, 66, 322, 442
Ksp22I	TGATCA	1 cut(s)	211
Kzo9I	GATC	2 cut(s)	211, 407
LmnI	GCTCC	1 cut(s)	275
LpnPI	CCDG	3 cut(s)	342, 366, 458
MaeI	CTAG	2 cut(s)	12, 461
MaeII	ACGT	1 cut(s)	197
MaeIII	GTNAC	1 cut(s)	314
MalI	GATC	2 cut(s)	213, 409
MboI	GATC	2 cut(s)	211, 407
MboII	GAAGA	3 cut(s)	16, 29, 400
MhlI	GDGCHC	1 cut(s)	272
MlsI	TGGCCA	1 cut(s)	168
MluCI	AATT	3 cut(s)	140, 470, 504
MluNI	TGGCCA	1 cut(s)	168
MnlI	CCTC	3 cut(s)	13, 414, 468
Mox20I	TGGCCA	1 cut(s)	168
MscI	TGGCCA	1 cut(s)	168
MseI	TTAA	1 cut(s)	200
Msp20I	TGGCCA	1 cut(s)	168
Mva1269I	GAATGC	1 cut(s)	346
MwoI	GCNNNNNNNGC	2 cut(s)	129, 259
NdeI	CATATG	1 cut(s)	275
NdeII	GATC	2 cut(s)	211, 407
NlaIII	CATG	4 cut(s)	40, 66, 322, 442
NlaIV	GGNNCC	1 cut(s)	498
NmuCI	GTSAC	1 cut(s)	314
PctI	GAATGC	1 cut(s)	346
PfeI	GAWTC	1 cut(s)	391
Psp1406I	AACGTT	1 cut(s)	197
PspN4I	GGNNCC	1 cut(s)	498
PspPI	GGNCC	2 cut(s)	241, 442
SaqAI	TTAA	1 cut(s)	200
Sau3AI	GATC	2 cut(s)	211, 407
Sau96I	GGNCC	2 cut(s)	241, 442
SduI	GDGCHC	1 cut(s)	272
SetI	ASST	9 cut(s)	24, 71, 160, 200, 307, 425, 447, 460, 480
SfcI	CTRYAG	1 cut(s)	30
SinI	GGWCC	1 cut(s)	442
Sse9I	AATT	3 cut(s)	140, 470, 504
SspMI	CTAG	2 cut(s)	12, 461
TaaI	ACNGT	1 cut(s)	337
TaiI	ACGT	1 cut(s)	200
TaqI	TCGA	2 cut(s)	117, 410
TasI	AATT	3 cut(s)	140, 470, 504
TfiI	GAWTC	1 cut(s)	391
Tru1I	TTAA	1 cut(s)	200
Tru9I	TTAA	1 cut(s)	200
TscAI	CASTG	1 cut(s)	214
TseFI	GTSAC	1 cut(s)	314
Tsp45I	GTSAC	1 cut(s)	314
TspDTI	ATGAA	5 cut(s)	17, 84, 401, 483, 510
TspRI	CASTG	1 cut(s)	214
VpaK11BI	GGWCC	1 cut(s)	442
XbaI	TCTAGA	1 cut(s)	460
XcmI	CCANNNNNNNNNTGG	1 cut(s)	161
XmiI	GTMKAC	1 cut(s)	33
XspI	CTAG	2 cut(s)	12, 461

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.