Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0018403

Physical Location & Seq

Genomic Coordinates Reverse (-)

67346391 .. 67351499

Gene Structure 5109 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG422300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1296 bp

ATGGAAACAACAATTGGGAGAACGAGGAAGGGGAGAACCCATACATCAGAAGAAGAAGAAGAGAATCGTATGCTAAAAAAGAAGATGCAAACAACACTGGGGAGAAAGAGGAAGGAGAGAACACATACATCAGAAGAAGAAGAAGAAGAGAATTGCAGGCAAACAAAAAAAGAGAAAAGCAAAATAGACGTGAGTTTCTCCAAGAGGCGTAAAGGGTTGTTTGGTAAGGCTGCTCGTTTGTGCAAGGATTTCAATGACACACGAATTGCAGTTCTCGTGGTTTCGAAAGCAAGTAGACCTTATGCTTTTGGACACTCTTCGGTGGACGAAGTTCTCAATGATCTCTACCACATTCAACCAACAACTACTGAATCTGTCGAGGGGCTCAATCTGATGAGGCACCAACACGAGCAAAAAATGTTGATGGTTGTGAAGGAAGAGATTGAGAACGAATTGAGGGCCTGTCAAACTGTTGAGGGACTTGCGTCGTTGAGAGAAAAATACTTGAAGCTTGATGAAGATATTAAAAAGAGGTTGAGAAGTTGTTCCTCTGAAGAAATCAGTTTTGAGGGTGGTGTGATTGATCAGAAGTACAATATCGACATCATTAATAATGTTGGTGATGAGGAATGTTCTTTGGGGTCAAGGCATGAAAGTAACTATAATAATTTTTCAAGGGCTGGTGGTCTAAGATTAGATGGAGACACTGGTGGTGAGGGGTATTGTTCTGGGTTAGGGCATAGGGATTCAACTACTGGATTTAGGGGGTTATGGCATGAAGCAAGTGATAATTCTTTGAGGGATTCAACTACTGACATTAGGGGTAATGTTTTGTTGGCTTCAACTACAAGTAATTATGGTGTTGATGGGGATTTAAGATTAAATGGAGACATCGATGCCGAGGGCTGTTCTTTAGGGTTATGGCATGAAGTCAGTGACAATGCTTTGAGGGATTCGTCTACTGACATTAGTGGTAATGTTTTGTTGGCTTCAACTACAAGTAATAATGGTGTTGATGGGGATTTCAGATTAAATGGAGACATGGATGCTGAGGGATGTTCTTTAGGGTTCTGGTATGAAGTTAGTGATAATCCTATGGGGGATTCAACTACTGACACTATTGGTAATGTTCTGTTGGCTCCAACTACAAGCAATGATGGTGTTGATGGTGGTTTAAGATTGAATGGAGGCACTGATGCTGATGAGGGATTCTCTTTAGGGTTAGGACATGAAGTTTATGATGATCACAACAGCAACAAAACTCCAATTTTCACGTTTGAAGCTTTGAGCTGGTAG

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:0007275 GO:0008150 GO:0009553 GO:0009559 GO:0009561 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048229 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

431

Amino Acids

47.72

Weight (kDa)

4.97

Isoelectric Point (pI)

42.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	59 - 103	1.5e-07	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

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0018403)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g33170
rosa_laevigata	RLG00000035367
rosa_multiflora	Rmu_sc0001650.1_g000018
rosa_roxburghii	Rroxscaffold_1G00020300
rosa_rugosa	Rorug05G0330800
rosa_samantha	Rh5AG395100 Rh5BG407500 Rh5CG431200 Rh5DG422300
rosa_wichuraiana	Rw5G037160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	399
AccI	GTMKAC	2 cut(s)	295, 959
AcuI	CTGAAG	1 cut(s)	573
AfaI	GTAC	1 cut(s)	593
AjiI	CACGTC	1 cut(s)	190
AjuI	GAANNNNNNNTTGG	1 cut(s)	29
AluBI	AGCT	3 cut(s)	511, 1283, 1290
AluI	AGCT	3 cut(s)	511, 1283, 1290
Alw26I	GTCTC	3 cut(s)	696, 882, 1032
AoxI	GGCC	1 cut(s)	459
ApeKI	GCWGC	1 cut(s)	230
AseI	ATTAAT	1 cut(s)	609
Asp700I	GAANNNNTTC	1 cut(s)	544
AspS9I	GGNCC	1 cut(s)	459
AsuHPI	GGTGA	2 cut(s)	632, 725
AsuII	TTCGAA	1 cut(s)	284
BanI	GGYRCC	1 cut(s)	399
BanII	GRGCYC	1 cut(s)	387
BauI	CACGAG	2 cut(s)	275, 407
BbvCI	CCTCAGC	1 cut(s)	1050
BbvI	GCAGC	1 cut(s)	217
BccI	CCATC	6 cut(s)	418, 692, 860, 1010, 1151, 1160
BclI	TGATCA	2 cut(s)	583, 1243
BcoDI	GTCTC	3 cut(s)	696, 882, 1032
BisI	GCNGC	1 cut(s)	231
BlsI	GCNGC	1 cut(s)	232
BmgBI	CACGTC	1 cut(s)	190
BmgT120I	GGNCC	1 cut(s)	459
BmiI	GGNNCC	2 cut(s)	401, 1140
BmrI	ACTGGG	1 cut(s)	107
BmsI	GCATC	4 cut(s)	75, 886, 1036, 1186
BmuI	ACTGGG	1 cut(s)	107
BoxI	GACNNNNGTC	1 cut(s)	484
BplI	GAGNNNNNCTC	2 cut(s)	1196, 1228
Bpu10I	CCTNAGC	1 cut(s)	1050
Bpu14I	TTCGAA	1 cut(s)	284
Bsa29I	ATCGAT	1 cut(s)	894
BsaJI	CCNNGG	1 cut(s)	900
Bse1I	ACTGG	3 cut(s)	102, 712, 760
Bse3DI	GCAATG	1 cut(s)	1159
BseCI	ATCGAT	1 cut(s)	894
BseDI	CCNNGG	1 cut(s)	900
BseGI	GGATG	2 cut(s)	1051, 1061
BseMI	GCAATG	1 cut(s)	1159
BseMII	CTCAG	1 cut(s)	1041
BseNI	ACTGG	3 cut(s)	102, 712, 760
BseXI	GCAGC	1 cut(s)	217
BshFI	GGCC	1 cut(s)	461
BshNI	GGYRCC	1 cut(s)	399
BshVI	ATCGAT	1 cut(s)	894
BslFI	GGGAC	1 cut(s)	492
BsmAI	GTCTC	3 cut(s)	696, 882, 1032
BsmFI	GGGAC	1 cut(s)	492
BsnI	GGCC	1 cut(s)	461
Bsp119I	TTCGAA	1 cut(s)	284
Bsp1286I	GDGCHC	1 cut(s)	387
Bsp143I	GATC	3 cut(s)	340, 583, 1243
BspANI	GGCC	1 cut(s)	461
BspCNI	CTCAG	1 cut(s)	1042
BspDI	ATCGAT	1 cut(s)	894
BspLI	GGNNCC	2 cut(s)	401, 1140
BspT104I	TTCGAA	1 cut(s)	284
BspT107I	GGYRCC	1 cut(s)	399
BsrDI	GCAATG	1 cut(s)	1159
BsrI	ACTGG	3 cut(s)	102, 712, 760
BssECI	CCNNGG	1 cut(s)	900
BssMI	GATC	3 cut(s)	340, 583, 1243
BssSI	CACGAG	2 cut(s)	275, 407
Bst2BI	CACGAG	2 cut(s)	275, 407
Bst4CI	ACNGT	1 cut(s)	472
Bst6I	CTCTTC	4 cut(s)	54, 141, 322, 432
BstBI	TTCGAA	1 cut(s)	284
BstC8I	GCNNGC	1 cut(s)	158
BstDEI	CTNAG	2 cut(s)	689, 1050
BstF5I	GGATG	2 cut(s)	1051, 1061
BstKTI	GATC	3 cut(s)	343, 586, 1246
BstMAI	GTCTC	3 cut(s)	696, 882, 1032
BstMBI	GATC	3 cut(s)	340, 583, 1243
BstPAI	GACNNNNGTC	1 cut(s)	484
BstV1I	GCAGC	1 cut(s)	217
Bsu15I	ATCGAT	1 cut(s)	894
BsuRI	GGCC	1 cut(s)	461
BsuTUI	ATCGAT	1 cut(s)	894
BtrI	CACGTC	1 cut(s)	190
BtsCI	GGATG	2 cut(s)	1051, 1061
BtsIMutI	CAGTG	4 cut(s)	95, 705, 940, 1191
Cac8I	GCNNGC	1 cut(s)	158
Cfr13I	GGNCC	1 cut(s)	459
ClaI	ATCGAT	1 cut(s)	894
CseI	GACGC	1 cut(s)	474
Csp6I	GTAC	1 cut(s)	592
CviAII	CATG	5 cut(s)	650, 776, 926, 1042, 1229
CviQI	GTAC	1 cut(s)	592
DdeI	CTNAG	2 cut(s)	689, 1050
DpnI	GATC	3 cut(s)	342, 585, 1245
DpnII	GATC	3 cut(s)	340, 583, 1243
Eam1104I	CTCTTC	4 cut(s)	54, 141, 322, 432
EarI	CTCTTC	4 cut(s)	54, 141, 322, 432
Eco24I	GRGCYC	1 cut(s)	387
Eco57I	CTGAAG	1 cut(s)	573
EcoO109I	RGGNCCY	1 cut(s)	459
EcoT38I	GRGCYC	1 cut(s)	387
FaeI	CATG	5 cut(s)	653, 779, 929, 1045, 1232
FalI	AAGNNNNNCTT	2 cut(s)	283, 315
FaqI	GGGAC	1 cut(s)	492
FatI	CATG	5 cut(s)	649, 775, 925, 1041, 1228
FbaI	TGATCA	2 cut(s)	583, 1243
FblI	GTMKAC	2 cut(s)	295, 959
Fnu4HI	GCNGC	1 cut(s)	231
FokI	GGATG	2 cut(s)	1058, 1068
FriOI	GRGCYC	1 cut(s)	387
Fsp4HI	GCNGC	1 cut(s)	231
GluI	GCNGC	1 cut(s)	231
HaeIII	GGCC	1 cut(s)	461
HgaI	GACGC	1 cut(s)	474
Hin1II	CATG	5 cut(s)	653, 779, 929, 1045, 1232
HindIII	AAGCTT	2 cut(s)	509, 1281
HinfI	GANTC	7 cut(s)	64, 371, 746, 803, 953, 1103, 1209
HphI	GGTGA	2 cut(s)	632, 725
Hpy166II	GTNNAC	3 cut(s)	296, 325, 960
Hpy188I	TCNGA	6 cut(s)	49, 133, 393, 553, 588, 1028
Hpy8I	GTNNAC	3 cut(s)	296, 325, 960
Hpy99I	CGWCG	1 cut(s)	490
HpyAV	CCTTC	3 cut(s)	22, 106, 427
HpyCH4III	ACNGT	1 cut(s)	472
HpyCH4IV	ACGT	2 cut(s)	189, 1274
HpyCH4V	TGCA	4 cut(s)	88, 156, 243, 269
HpyF3I	CTNAG	2 cut(s)	689, 1050
HpySE526I	ACGT	2 cut(s)	189, 1274
Hsp92II	CATG	5 cut(s)	653, 779, 929, 1045, 1232
Ksp22I	TGATCA	2 cut(s)	583, 1243
Kzo9I	GATC	3 cut(s)	340, 583, 1243
LmnI	GCTCC	1 cut(s)	1144
LpnPI	CCDG	9 cut(s)	83, 142, 475, 666, 693, 714, 741, 1057, 1276
Lsp1109I	GCAGC	1 cut(s)	217
LweI	GCATC	4 cut(s)	75, 886, 1036, 1186
MaeII	ACGT	2 cut(s)	189, 1274
MaeIII	GTNAC	2 cut(s)	656, 935
MalI	GATC	3 cut(s)	342, 585, 1245
MboI	GATC	3 cut(s)	340, 583, 1243
MfeI	CAATTG	1 cut(s)	12
MhlI	GDGCHC	1 cut(s)	387
MluCI	AATT	8 cut(s)	12, 151, 264, 452, 667, 790, 853, 1266
MmeI	TCCRAC	1 cut(s)	1166
MroXI	GAANNNNTTC	1 cut(s)	544
MseI	TTAA	6 cut(s)	525, 609, 875, 881, 1031, 1175
MunI	CAATTG	1 cut(s)	12
NdeII	GATC	3 cut(s)	340, 583, 1243
NlaIII	CATG	5 cut(s)	653, 779, 929, 1045, 1232
NlaIV	GGNNCC	2 cut(s)	401, 1140
NmeAIII	GCCGAG	1 cut(s)	925
NmuCI	GTSAC	1 cut(s)	935
NspV	TTCGAA	1 cut(s)	284
PdmI	GAANNNNTTC	1 cut(s)	544
PfeI	GAWTC	7 cut(s)	64, 371, 746, 803, 953, 1103, 1209
PkrI	GCNGC	1 cut(s)	232
PshAI	GACNNNNGTC	1 cut(s)	484
PshBI	ATTAAT	1 cut(s)	609
PspN4I	GGNNCC	2 cut(s)	401, 1140
PspPI	GGNCC	1 cut(s)	459
RsaI	GTAC	1 cut(s)	593
RsaNI	GTAC	1 cut(s)	592
SaqAI	TTAA	6 cut(s)	525, 609, 875, 881, 1031, 1175
SatI	GCNGC	1 cut(s)	231
Sau3AI	GATC	3 cut(s)	340, 583, 1243
Sau96I	GGNCC	1 cut(s)	459
SduI	GDGCHC	1 cut(s)	387
SetI	ASST	7 cut(s)	192, 301, 513, 536, 1277, 1285, 1292
SfaNI	GCATC	4 cut(s)	75, 886, 1036, 1186
SfuI	TTCGAA	1 cut(s)	284
Sse9I	AATT	8 cut(s)	12, 151, 264, 452, 667, 790, 853, 1266
TaaI	ACNGT	1 cut(s)	472
TaiI	ACGT	2 cut(s)	192, 1277
TaqI	TCGA	4 cut(s)	284, 378, 600, 894
TasI	AATT	8 cut(s)	12, 151, 264, 452, 667, 790, 853, 1266
TatI	WGTACW	1 cut(s)	591
TfiI	GAWTC	7 cut(s)	64, 371, 746, 803, 953, 1103, 1209
Tru1I	TTAA	6 cut(s)	525, 609, 875, 881, 1031, 1175
Tru9I	TTAA	6 cut(s)	525, 609, 875, 881, 1031, 1175
TscAI	CASTG	4 cut(s)	102, 712, 940, 1198
TseFI	GTSAC	1 cut(s)	935
TseI	GCWGC	1 cut(s)	230
Tsp45I	GTSAC	1 cut(s)	935
TspDTI	ATGAA	6 cut(s)	531, 666, 792, 942, 1092, 1245
TspRI	CASTG	4 cut(s)	102, 712, 940, 1198
VspI	ATTAAT	1 cut(s)	609
XmiI	GTMKAC	2 cut(s)	295, 959
XmnI	GAANNNNTTC	1 cut(s)	544

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