Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0003506

Physical Location & Seq

Genomic Coordinates Forward (+)

23156713 .. 23176625

Gene Structure 19913 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG244500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 321 bp

ATGGAAGGCAGGAAGACCAGAGGACGGCAGAAGATTGAAATAAAGAAAATTGCAAATGCAGACGATCGCCATGTCACTTTTTCAAAGAGGAGATCTGGCGTTTACAAAAAGTGCAACGAGCTAGCAACCCTATGCGGTGCAGAGGTTGGTGTCGTGGTGTTCTCCGAATCTGAGAAACCATTCTCGTACGCCTTGCTTGAGTTTATTCTCACCATGGAAGGAGGCAAGAAAACAAAAGGCAGGCAAAAGATTCCAATAAAAAAGACTGAGAACGCTGACGAACGTCAAGTGACGTTTTCTAAAAGAAATCTGGCGTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009791 GO:0009888 GO:0009889 GO:0009960 GO:0010154 GO:0010468 GO:0010556 GO:0010817 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032879 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051049 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0080090 GO:0140110 GO:1903506 GO:2000012 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04011 ko04111 map04011 map04111

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

106

Amino Acids

12.03

Weight (kDa)

9.96

Isoelectric Point (pI)

42.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	16 - 63	3.8e-22	SRF-type transcription factor (DNA-binding and dimerisation domain)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003506)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28450 AT1G28460 AT1G29962 AT1G54760 AT3G04100
fragaria_vesca	FvH4_6g21070
malus_domestica	MD05G1287200.v1.1 MD10G1264600.v1.1 MD13G1257500.v1.1
prunus_persica	Prupe.1G087700_v2.0.a1 Prupe.4G077700_v2.0.a1 Prupe.5G243900_v2.0.a1
pyrus_communis	pycom05g26570 pycom10g22070
rosa_chinensis	RchiOBHm_Chr3g0477441 RchiOBHm_Chr3g0477451
rosa_laevigata	RLG00000023719 RLG00000023721
rosa_multiflora	Rmu_sc0005234.1_g000012 Rmu_ssc0000341.1_g000014 Rmu_ssc0000341.1_g000016
rosa_roxburghii	Rroxscaffold_6G00404150 Rroxscaffold_6G00404620 Rroxscaffold_6G00404630
rosa_rugosa	Rorug03G0160800 Rorug03G0160900
rosa_samantha	Rh3AG211100 Rh3AG211200 Rh3BG244500 Rh3BG244600 Rh3CG238300 Rh3CG238500 Rh3DG238000
rosa_wichuraiana	Rw3G019130 Rw3G019140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	319
AciI	CCGC	1 cut(s)	135
AfaI	GTAC	1 cut(s)	188
AfiI	CCNNNNNNNGG	1 cut(s)	24
AgsI	TTSAA	2 cut(s)	38, 84
AluBI	AGCT	1 cut(s)	121
AluI	AGCT	1 cut(s)	121
Asp700I	GAANNNNTTC	1 cut(s)	179
AsuHPI	GGTGA	1 cut(s)	202
AsuNHI	GCTAGC	1 cut(s)	121
BbsI	GAAGAC	1 cut(s)	20
BceAI	ACGGC	1 cut(s)	41
BfaI	CTAG	1 cut(s)	122
BglII	AGATCT	1 cut(s)	92
BmtI	GCTAGC	1 cut(s)	125
BoxI	GACNNNNGTC	1 cut(s)	282
BpiI	GAAGAC	1 cut(s)	20
BpuEI	CTTGAG	1 cut(s)	218
BsaJI	CCNNGG	1 cut(s)	213
Bsc4I	CCNNNNNNNGG	1 cut(s)	24
BseDI	CCNNGG	1 cut(s)	213
BseLI	CCNNNNNNNGG	1 cut(s)	24
BseMII	CTCAG	2 cut(s)	162, 258
BseRI	GAGGAG	1 cut(s)	103
BsgI	GTGCAG	1 cut(s)	159
Bsh1285I	CGRYCG	1 cut(s)	67
BsiEI	CGRYCG	1 cut(s)	67
BsiWI	CGTACG	1 cut(s)	186
BslI	CCNNNNNNNGG	1 cut(s)	24
Bsp143I	GATC	2 cut(s)	64, 92
Bsp19I	CCATGG	1 cut(s)	213
BspACI	CCGC	1 cut(s)	135
BspCNI	CTCAG	2 cut(s)	163, 259
BspOI	GCTAGC	1 cut(s)	125
BssECI	CCNNGG	1 cut(s)	213
BssMI	GATC	2 cut(s)	64, 92
BssT1I	CCWWGG	1 cut(s)	213
BstC8I	GCNNGC	2 cut(s)	123, 242
BstDEI	CTNAG	2 cut(s)	171, 267
BstDSI	CCRYGG	1 cut(s)	213
BstKTI	GATC	2 cut(s)	67, 95
BstMBI	GATC	2 cut(s)	64, 92
BstMCI	CGRYCG	1 cut(s)	67
BstPAI	GACNNNNGTC	1 cut(s)	282
BstV2I	GAAGAC	1 cut(s)	20
BstX2I	RGATCY	1 cut(s)	92
BstYI	RGATCY	1 cut(s)	92
BtgI	CCRYGG	1 cut(s)	213
Cac8I	GCNNGC	2 cut(s)	123, 242
Csp6I	GTAC	1 cut(s)	187
CviAII	CATG	2 cut(s)	71, 214
CviJI	RGCY	1 cut(s)	121
CviKI_1	RGCY	1 cut(s)	121
CviQI	GTAC	1 cut(s)	187
DdeI	CTNAG	2 cut(s)	171, 267
DpnI	GATC	2 cut(s)	66, 94
DpnII	GATC	2 cut(s)	64, 92
Eco130I	CCWWGG	1 cut(s)	213
EcoT14I	CCWWGG	1 cut(s)	213
ErhI	CCWWGG	1 cut(s)	213
FaeI	CATG	2 cut(s)	74, 217
FaiI	YATR	4 cut(s)	72, 133, 215, 319
FatI	CATG	2 cut(s)	70, 213
FspBI	CTAG	1 cut(s)	122
Hin1II	CATG	2 cut(s)	74, 217
HinfI	GANTC	2 cut(s)	167, 250
HphI	GGTGA	1 cut(s)	202
Hpy166II	GTNNAC	1 cut(s)	103
Hpy188I	TCNGA	2 cut(s)	166, 172
Hpy8I	GTNNAC	1 cut(s)	103
HpyAV	CCTTC	1 cut(s)	212
HpyCH4IV	ACGT	2 cut(s)	283, 293
HpyCH4V	TGCA	4 cut(s)	53, 59, 114, 140
HpyF3I	CTNAG	2 cut(s)	171, 267
HpySE526I	ACGT	2 cut(s)	283, 293
Hsp92II	CATG	2 cut(s)	74, 217
Kzo9I	GATC	2 cut(s)	64, 92
LpnPI	CCDG	4 cut(s)	31, 81, 226, 296
MaeI	CTAG	1 cut(s)	122
MaeII	ACGT	2 cut(s)	283, 293
MaeIII	GTNAC	2 cut(s)	73, 289
MalI	GATC	2 cut(s)	66, 94
MboI	GATC	2 cut(s)	64, 92
MboII	GAAGA	2 cut(s)	25, 43
MflI	RGATCY	1 cut(s)	92
MluCI	AATT	1 cut(s)	48
MnlI	CCTC	4 cut(s)	14, 81, 136, 215
MroXI	GAANNNNTTC	1 cut(s)	179
NcoI	CCATGG	1 cut(s)	213
NdeII	GATC	2 cut(s)	64, 92
NheI	GCTAGC	1 cut(s)	121
NlaIII	CATG	2 cut(s)	74, 217
NmuCI	GTSAC	2 cut(s)	73, 289
PdmI	GAANNNNTTC	1 cut(s)	179
PfeI	GAWTC	2 cut(s)	167, 250
Pfl23II	CGTACG	1 cut(s)	186
Ple19I	CGATCG	1 cut(s)	67
PshAI	GACNNNNGTC	1 cut(s)	282
PsiI	TTATAA	1 cut(s)	319
PspLI	CGTACG	1 cut(s)	186
PsuI	RGATCY	1 cut(s)	92
PvuI	CGATCG	1 cut(s)	67
RsaI	GTAC	1 cut(s)	188
RsaNI	GTAC	1 cut(s)	187
Sau3AI	GATC	2 cut(s)	64, 92
SetI	ASST	4 cut(s)	123, 147, 286, 296
SmlI	CTYRAG	1 cut(s)	197
SmoI	CTYRAG	1 cut(s)	197
Sse9I	AATT	1 cut(s)	48
SsiI	CCGC	1 cut(s)	135
SspMI	CTAG	1 cut(s)	122
StyI	CCWWGG	1 cut(s)	213
TaiI	ACGT	2 cut(s)	286, 296
TasI	AATT	1 cut(s)	48
TfiI	GAWTC	2 cut(s)	167, 250
TseFI	GTSAC	2 cut(s)	73, 289
Tsp45I	GTSAC	2 cut(s)	73, 289
XmnI	GAANNNNTTC	1 cut(s)	179
XspI	CTAG	1 cut(s)	122

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