Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0003714

Physical Location & Seq

Genomic Coordinates Reverse (-)

45547198 .. 45550012

Gene Structure 2815 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG323900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 336 bp

ATGGGTAGGGGGAAGATCGAGATCAAGAAGATTGAGAACACCAACAGCAGACAAGTCACATTCTCAAAGAGGCGTGCTGGATTACTCAAGAAAGCTCAGATGCTGAGATACAGCAAGTGTTATGAGTCTTCAGAGACCGCTCTGGTAGAATCAAGGGCAGAGGAGGATGACCCTAAGGACGTGGATGTTCTAAAAGATGAACTTGAGAAGCTACAACAGAATCAATTGCGTCTATTGGGCAATGACTTGTCTAGTTTGAGCTTGAAAGAATTGCAGAAACTAGAAAATCAATTAACTGAAGGATTATTTTCAGTGAAGGAGAAAAAGATAAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0003824 GO:0004601 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006082 GO:0006355 GO:0006629 GO:0006720 GO:0006721 GO:0007275 GO:0008150 GO:0008152 GO:0008300 GO:0009056 GO:0009636 GO:0009685 GO:0009719 GO:0009725 GO:0009733 GO:0009790 GO:0009791 GO:0009793 GO:0009838 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009900 GO:0009908 GO:0009909 GO:0009910 GO:0009987 GO:0010033 GO:0010047 GO:0010154 GO:0010227 GO:0010262 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010629 GO:0010817 GO:0016042 GO:0016054 GO:0016101 GO:0016103 GO:0016115 GO:0016209 GO:0016491 GO:0016684 GO:0019219 GO:0019222 GO:0019752 GO:0022414 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0032501 GO:0032502 GO:0032504 GO:0032870 GO:0042221 GO:0042445 GO:0042447 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043565 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044255 GO:0044281 GO:0044282 GO:0044424 GO:0044464 GO:0045487 GO:0045892 GO:0045893 GO:0045934 GO:0045935 GO:0046395 GO:0046983 GO:0048316 GO:0048367 GO:0048437 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048577 GO:0048580 GO:0048581 GO:0048583 GO:0048585 GO:0048587 GO:0048608 GO:0048609 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051171 GO:0051172 GO:0051173 GO:0051239 GO:0051241 GO:0051252 GO:0051253 GO:0051254 GO:0051716 GO:0055114 GO:0060255 GO:0060860 GO:0060862 GO:0060867 GO:0061458 GO:0065007 GO:0065008 GO:0070887 GO:0071310 GO:0071365 GO:0071495 GO:0071704 GO:0080050 GO:0080090 GO:0090567 GO:0097159 GO:0097237 GO:0098754 GO:0098869 GO:0099402 GO:0140110 GO:1901363 GO:1901575 GO:1902679 GO:1902680 GO:1903506 GO:1903507 GO:1903508 GO:1990748 GO:2000026 GO:2000028 GO:2000034 GO:2000112 GO:2000113 GO:2000241 GO:2000242 GO:2000692 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04013 ko04022 ko04371 ko05418 map04013 map04022 map04371 map05418

Pfam Domains

Protein Families

K-box SRF-TF

Protein Analysis

111

Amino Acids

12.83

Weight (kDa)

9.21

Isoelectric Point (pI)

43.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	10 - 33	1.9e-10	SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box	PF01486	55 - 109	2.7e-13	K-box region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003714)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13790 AT5G13790
fragaria_vesca	FvH4_7g01720 FvH4_7g01720 FvH4_7g01720 FvH4_7g01720
malus_domestica	MD00G1004500.v1.1 MD01G1193800.v1.1 MD02G1301400.v1.1 MD07G1022500.v1.1
prunus_persica	Prupe.2G023100_v2.0.a1 Prupe.2G023100_v2.0.a1
pyrus_communis	pycom02g25320 pycom07g01690
rosa_chinensis	RchiOBHm_Chr0c22g0500511 RchiOBHm_Chr1g0318281 RchiOBHm_Chr7g0204181 RchiOBHm_Chr7g0206821 RchiOBHm_Chr7g0207131
rosa_laevigata	RLG00000030549
rosa_multiflora	Rmu_ssc0000308.1_g000004
rosa_roxburghii	Rroxscaffold_4G00329440 Rroxscaffold_4G00329720
rosa_rugosa	Rorug01G0019900 Rorug01G0019900
rosa_samantha	Rh1AG032000 Rh1BG027500 Rh1CG030400 Rh1CG044100 Rh1DG039500 Rh3AG323900 Rh3BG361900 Rh4CG066600
rosa_wichuraiana	Rw1G002550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	140
AciI	CCGC	1 cut(s)	138
AcuI	CTGAAG	2 cut(s)	114, 318
AgsI	TTSAA	1 cut(s)	265
AjiI	CACGTC	1 cut(s)	181
AluBI	AGCT	3 cut(s)	95, 211, 261
AluI	AGCT	3 cut(s)	95, 211, 261
Alw26I	GTCTC	1 cut(s)	128
AlwNI	CAGNNNCTG	1 cut(s)	103
AxyI	CCTNAGG	1 cut(s)	174
BbsI	GAAGAC	1 cut(s)	120
BcoDI	GTCTC	1 cut(s)	128
BfaI	CTAG	2 cut(s)	252, 281
BmgBI	CACGTC	1 cut(s)	181
BmsI	GCATC	1 cut(s)	90
BpiI	GAAGAC	1 cut(s)	120
BpuEI	CTTGAG	2 cut(s)	71, 224
BsaBI	GATNNNNATC	1 cut(s)	20
BsaI	GGTCTC	1 cut(s)	128
Bse21I	CCTNAGG	1 cut(s)	174
Bse3DI	GCAATG	1 cut(s)	247
Bse8I	GATNNNNATC	1 cut(s)	20
BseGI	GGATG	2 cut(s)	172, 190
BseJI	GATNNNNATC	1 cut(s)	20
BseMI	GCAATG	1 cut(s)	247
BseMII	CTCAG	2 cut(s)	95, 110
BseRI	GAGGAG	1 cut(s)	176
BsmAI	GTCTC	1 cut(s)	128
Bso31I	GGTCTC	1 cut(s)	128
Bsp143I	GATC	2 cut(s)	15, 21
BspACI	CCGC	1 cut(s)	138
BspCNI	CTCAG	2 cut(s)	96, 109
BspTNI	GGTCTC	1 cut(s)	128
BsrBI	CCGCTC	1 cut(s)	140
BsrDI	GCAATG	1 cut(s)	247
BssMI	GATC	2 cut(s)	15, 21
BstC8I	GCNNGC	1 cut(s)	75
BstDEI	CTNAG	3 cut(s)	96, 104, 174
BstF5I	GGATG	2 cut(s)	172, 190
BstKTI	GATC	2 cut(s)	18, 24
BstMAI	GTCTC	1 cut(s)	128
BstMBI	GATC	2 cut(s)	15, 21
BstV2I	GAAGAC	1 cut(s)	120
Bsu36I	CCTNAGG	1 cut(s)	174
BtrI	CACGTC	1 cut(s)	181
BtsCI	GGATG	2 cut(s)	172, 190
BtsIMutI	CAGTG	1 cut(s)	318
Cac8I	GCNNGC	1 cut(s)	75
CaiI	CAGNNNCTG	1 cut(s)	103
CseI	GACGC	1 cut(s)	218
CviJI	RGCY	3 cut(s)	95, 211, 261
CviKI_1	RGCY	3 cut(s)	95, 211, 261
DdeI	CTNAG	3 cut(s)	96, 104, 174
DpnI	GATC	2 cut(s)	17, 23
DpnII	GATC	2 cut(s)	15, 21
Eco31I	GGTCTC	1 cut(s)	128
Eco57I	CTGAAG	2 cut(s)	114, 318
Eco81I	CCTNAGG	1 cut(s)	174
FaiI	YATR	1 cut(s)	123
FalI	AAGNNNNNCTT	2 cut(s)	186, 218
FokI	GGATG	2 cut(s)	179, 197
FspBI	CTAG	2 cut(s)	252, 281
HgaI	GACGC	1 cut(s)	218
HinfI	GANTC	3 cut(s)	125, 149, 220
Hpy188I	TCNGA	2 cut(s)	99, 133
Hpy188III	TCNNGA	3 cut(s)	19, 25, 88
HpyAV	CCTTC	2 cut(s)	293, 310
HpyCH4IV	ACGT	1 cut(s)	180
HpyCH4V	TGCA	1 cut(s)	274
HpyF3I	CTNAG	3 cut(s)	96, 104, 174
HpySE526I	ACGT	1 cut(s)	180
Kzo9I	GATC	2 cut(s)	15, 21
LpnPI	CCDG	2 cut(s)	63, 128
LweI	GCATC	1 cut(s)	90
MaeI	CTAG	2 cut(s)	252, 281
MaeII	ACGT	1 cut(s)	180
MaeIII	GTNAC	1 cut(s)	55
MalI	GATC	2 cut(s)	17, 23
MbiI	CCGCTC	1 cut(s)	140
MboI	GATC	2 cut(s)	15, 21
MboII	GAAGA	3 cut(s)	25, 40, 120
MfeI	CAATTG	1 cut(s)	224
MluCI	AATT	3 cut(s)	224, 269, 290
MlyI	GAGTC	1 cut(s)	134
MnlI	CCTC	3 cut(s)	63, 154, 157
MseI	TTAA	1 cut(s)	293
MunI	CAATTG	1 cut(s)	224
NdeII	GATC	2 cut(s)	15, 21
NmuCI	GTSAC	1 cut(s)	55
PfeI	GAWTC	2 cut(s)	149, 220
PleI	GAGTC	1 cut(s)	133
PpsI	GAGTC	1 cut(s)	133
PstNI	CAGNNNCTG	1 cut(s)	103
SaqAI	TTAA	1 cut(s)	293
Sau3AI	GATC	2 cut(s)	15, 21
SchI	GAGTC	1 cut(s)	134
SetI	ASST	5 cut(s)	97, 183, 213, 263, 335
SfaNI	GCATC	1 cut(s)	90
SmlI	CTYRAG	2 cut(s)	86, 203
SmoI	CTYRAG	2 cut(s)	86, 203
Sse9I	AATT	3 cut(s)	224, 269, 290
SsiI	CCGC	1 cut(s)	138
SspMI	CTAG	2 cut(s)	252, 281
TaiI	ACGT	1 cut(s)	183
TaqI	TCGA	1 cut(s)	18
TasI	AATT	3 cut(s)	224, 269, 290
TfiI	GAWTC	2 cut(s)	149, 220
Tru1I	TTAA	1 cut(s)	293
Tru9I	TTAA	1 cut(s)	293
TscAI	CASTG	1 cut(s)	318
TseFI	GTSAC	1 cut(s)	55
Tsp45I	GTSAC	1 cut(s)	55
TspDTI	ATGAA	1 cut(s)	213
TspRI	CASTG	1 cut(s)	318
XspI	CTAG	2 cut(s)	252, 281

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