Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0015672

Physical Location & Seq

Genomic Coordinates Reverse (-)

15565476 .. 15566781

Gene Structure 1306 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG177300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 519 bp

ATGGAGGAGCTAATCCGAATGGCTCAAATTGGCGAGCCTTTGTGGATGAATAGCATTGATGGATCAACCACTGTGCTCAATGAGGATGAGTACATTCGAACATGTCCTCGTGGAATTGTGCCGAAACAACCTGGATTCAAATGTGAAGCTTCGCGGGAGAGTGCTGTTGTCATTATGAACCGCAATAAACTTGTTGAGATTCTCATGGATGTGAATCAATGGTCAACTGGATTTTCGGCGATTGTATCAAGAGCTAAGACTCTGGATGTGCTATCAACTGATGTAGCCGGAAACTACAATGGAGCCTTGCAAGTGATAACAGCAGAATTTCAAGTACCATCTCCACTGGTTCCAACTGGTGAGAGTTATTTTGTGAGGTACTGTAAGCAGCATGCCGATGGCACTTGGGCAGTGGTTGATATCTCCTTGGAAAATCAACGCGGATATACATTTGCTTTGAAATCATGTTTAAGAAGACCTTCTGGTTGTCTCATCCAAGAAATGCCAAATGGAAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009908 GO:0009987 GO:0010026 GO:0010090 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032989 GO:0045595 GO:0045596 GO:0048367 GO:0048437 GO:0048468 GO:0048497 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0071840 GO:0080090 GO:0090558 GO:0090567 GO:0090626 GO:0090700 GO:0099402 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox START

Protein Analysis

172

Amino Acids

19.11

Weight (kDa)

5.23

Isoelectric Point (pI)

38.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
START	PF01852	1 - 171	6.6e-29	START 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: OG0015672)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g43300
malus_domestica	MD17G1095100.v1.1
rosa_chinensis	RchiOBHm_Chr3g0470751
rosa_laevigata	RLG00000024245
rosa_multiflora	Rmu_sc0002790.1_g000010 Rmu_sc0006168.1_g000005 Rmu_sc0006168.1_g000012 Rmu_sc0006168.1_g000014
rosa_roxburghii	Rroxscaffold_6G00410600
rosa_samantha	Rh3AG162000 Rh3BG186900 Rh3BG187100 Rh3CG177100 Rh3CG177300 Rh3DG188600 Rh3DG188700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	154, 441
AciI	CCGC	3 cut(s)	154, 181, 441
AclWI	GGATC	1 cut(s)	70
AcsI	RAATTY	1 cut(s)	326
AfaI	GTAC	3 cut(s)	92, 336, 380
AflIII	ACRYGT	1 cut(s)	101
AgsI	TTSAA	3 cut(s)	139, 332, 460
AjnI	CCWGG	1 cut(s)	130
AluBI	AGCT	3 cut(s)	10, 149, 254
AluI	AGCT	3 cut(s)	10, 149, 254
Alw21I	GWGCWC	1 cut(s)	78
Alw26I	GTCTC	1 cut(s)	494
AlwI	GGATC	1 cut(s)	70
ApeKI	GCWGC	1 cut(s)	388
ApoI	RAATTY	1 cut(s)	326
Asp700I	GAANNNNTTC	1 cut(s)	478
AsuHPI	GGTGA	1 cut(s)	371
AsuII	TTCGAA	1 cut(s)	97
BauI	CACGAG	1 cut(s)	108
BbsI	GAAGAC	1 cut(s)	481
Bbv12I	GWGCWC	1 cut(s)	78
BbvI	GCAGC	1 cut(s)	400
BccI	CCATC	3 cut(s)	53, 346, 392
BciT130I	CCWGG	1 cut(s)	132
BcoDI	GTCTC	1 cut(s)	494
BisI	GCNGC	1 cut(s)	389
BlsI	GCNGC	1 cut(s)	390
Bme1390I	CCNGG	1 cut(s)	132
BmiI	GGNNCC	2 cut(s)	304, 351
BmrFI	CCNGG	1 cut(s)	132
BpiI	GAAGAC	1 cut(s)	481
Bpu14I	TTCGAA	1 cut(s)	97
BsaBI	GATNNNNATC	1 cut(s)	213
BsaJI	CCNNGG	1 cut(s)	426
Bse1I	ACTGG	3 cut(s)	232, 351, 361
Bse8I	GATNNNNATC	1 cut(s)	213
BseBI	CCWGG	1 cut(s)	132
BseDI	CCNNGG	1 cut(s)	426
BseGI	GGATG	5 cut(s)	51, 91, 214, 271, 492
BseJI	GATNNNNATC	1 cut(s)	213
BseNI	ACTGG	3 cut(s)	232, 351, 361
BseRI	GAGGAG	1 cut(s)	20
BseXI	GCAGC	1 cut(s)	400
Bsh1236I	CGCG	2 cut(s)	154, 441
BsiHKAI	GWGCWC	1 cut(s)	78
BsiSI	CCGG	1 cut(s)	288
BsmAI	GTCTC	1 cut(s)	494
Bsp119I	TTCGAA	1 cut(s)	97
Bsp1286I	GDGCHC	1 cut(s)	78
Bsp143I	GATC	1 cut(s)	62
BspACI	CCGC	3 cut(s)	154, 181, 441
BspFNI	CGCG	2 cut(s)	154, 441
BspLI	GGNNCC	2 cut(s)	304, 351
BspPI	GGATC	1 cut(s)	70
BspT104I	TTCGAA	1 cut(s)	97
BsrI	ACTGG	3 cut(s)	232, 351, 361
BssECI	CCNNGG	1 cut(s)	426
BssMI	GATC	1 cut(s)	62
BssSI	CACGAG	1 cut(s)	108
BssT1I	CCWWGG	1 cut(s)	426
Bst2BI	CACGAG	1 cut(s)	108
Bst2UI	CCWGG	1 cut(s)	132
Bst4CI	ACNGT	2 cut(s)	73, 383
BstBI	TTCGAA	1 cut(s)	97
BstC8I	GCNNGC	2 cut(s)	35, 393
BstDEI	CTNAG	1 cut(s)	255
BstF5I	GGATG	5 cut(s)	51, 91, 214, 271, 492
BstFNI	CGCG	2 cut(s)	154, 441
BstKTI	GATC	1 cut(s)	65
BstMAI	GTCTC	1 cut(s)	494
BstMBI	GATC	1 cut(s)	62
BstNI	CCWGG	1 cut(s)	132
BstNSI	RCATGY	2 cut(s)	105, 395
BstSCI	CCNGG	1 cut(s)	130
BstUI	CGCG	2 cut(s)	154, 441
BstV1I	GCAGC	1 cut(s)	400
BstV2I	GAAGAC	1 cut(s)	481
BtsCI	GGATG	5 cut(s)	51, 91, 214, 271, 492
BtsI	GCAGTG	1 cut(s)	417
BtsIMutI	CAGTG	3 cut(s)	69, 344, 417
Cac8I	GCNNGC	2 cut(s)	35, 393
Csp6I	GTAC	3 cut(s)	91, 335, 379
CviAII	CATG	4 cut(s)	102, 205, 392, 465
CviJI	RGCY	7 cut(s)	10, 23, 37, 149, 254, 287, 305
CviKI_1	RGCY	7 cut(s)	10, 23, 37, 149, 254, 287, 305
CviQI	GTAC	3 cut(s)	91, 335, 379
DdeI	CTNAG	1 cut(s)	255
DpnI	GATC	1 cut(s)	64
DpnII	GATC	1 cut(s)	62
Eco130I	CCWWGG	1 cut(s)	426
Eco32I	GATATC	1 cut(s)	421
EcoRII	CCWGG	1 cut(s)	130
EcoRV	GATATC	1 cut(s)	421
EcoT14I	CCWWGG	1 cut(s)	426
ErhI	CCWWGG	1 cut(s)	426
FaeI	CATG	4 cut(s)	105, 208, 395, 468
FaiI	YATR	6 cut(s)	103, 176, 206, 393, 447, 466
FalI	AAGNNNNNCTT	2 cut(s)	463, 495
FatI	CATG	4 cut(s)	101, 204, 391, 464
FauI	CCCGC	1 cut(s)	147
Fnu4HI	GCNGC	1 cut(s)	389
FokI	GGATG	5 cut(s)	58, 98, 221, 278, 479
Fsp4HI	GCNGC	1 cut(s)	389
GluI	GCNGC	1 cut(s)	389
HapII	CCGG	1 cut(s)	288
Hin1II	CATG	4 cut(s)	105, 208, 395, 468
HincII	GTYRAC	1 cut(s)	225
HindII	GTYRAC	1 cut(s)	225
HindIII	AAGCTT	1 cut(s)	147
HinfI	GANTC	4 cut(s)	135, 199, 214, 259
HpaII	CCGG	1 cut(s)	288
HphI	GGTGA	1 cut(s)	371
Hpy166II	GTNNAC	1 cut(s)	225
Hpy188I	TCNGA	1 cut(s)	17
Hpy188III	TCNNGA	2 cut(s)	249, 263
Hpy8I	GTNNAC	1 cut(s)	225
HpyAV	CCTTC	1 cut(s)	489
HpyCH4III	ACNGT	2 cut(s)	73, 383
HpyCH4V	TGCA	1 cut(s)	310
HpyF3I	CTNAG	1 cut(s)	255
Hsp92II	CATG	4 cut(s)	105, 208, 395, 468
Kzo9I	GATC	1 cut(s)	62
LmnI	GCTCC	2 cut(s)	7, 302
LpnPI	CCDG	8 cut(s)	117, 144, 213, 248, 301, 332, 342, 468
Lsp1109I	GCAGC	1 cut(s)	400
MalI	GATC	1 cut(s)	64
MboI	GATC	1 cut(s)	62
MboII	GAAGA	1 cut(s)	486
MhlI	GDGCHC	1 cut(s)	78
MluCI	AATT	3 cut(s)	27, 114, 326
MlyI	GAGTC	1 cut(s)	253
MmeI	TCCRAC	1 cut(s)	377
MnlI	CCTC	3 cut(s)	76, 117, 369
MroXI	GAANNNNTTC	1 cut(s)	478
MseI	TTAA	1 cut(s)	470
MslI	CAYNNNNRTG	2 cut(s)	209, 396
MspI	CCGG	1 cut(s)	288
MspR9I	CCNGG	1 cut(s)	132
MvaI	CCWGG	1 cut(s)	132
MvnI	CGCG	2 cut(s)	154, 441
NdeII	GATC	1 cut(s)	62
NlaIII	CATG	4 cut(s)	105, 208, 395, 468
NlaIV	GGNNCC	2 cut(s)	304, 351
NspI	RCATGY	2 cut(s)	105, 395
NspV	TTCGAA	1 cut(s)	97
PaeI	GCATGC	1 cut(s)	395
PciI	ACATGT	1 cut(s)	101
PdmI	GAANNNNTTC	1 cut(s)	478
PfeI	GAWTC	3 cut(s)	135, 199, 214
PkrI	GCNGC	1 cut(s)	390
PleI	GAGTC	1 cut(s)	253
PpsI	GAGTC	1 cut(s)	253
PscI	ACATGT	1 cut(s)	101
Psp6I	CCWGG	1 cut(s)	130
PspGI	CCWGG	1 cut(s)	130
PspN4I	GGNNCC	2 cut(s)	304, 351
RsaI	GTAC	3 cut(s)	92, 336, 380
RsaNI	GTAC	3 cut(s)	91, 335, 379
RseI	CAYNNNNRTG	2 cut(s)	209, 396
SaqAI	TTAA	1 cut(s)	470
SatI	GCNGC	1 cut(s)	389
Sau3AI	GATC	1 cut(s)	62
SchI	GAGTC	1 cut(s)	253
ScrFI	CCNGG	1 cut(s)	132
SduI	GDGCHC	1 cut(s)	78
SetI	ASST	6 cut(s)	12, 133, 151, 256, 380, 481
SfuI	TTCGAA	1 cut(s)	97
SmiMI	CAYNNNNRTG	2 cut(s)	209, 396
SphI	GCATGC	1 cut(s)	395
Sse9I	AATT	3 cut(s)	27, 114, 326
SsiI	CCGC	3 cut(s)	154, 181, 441
StyD4I	CCNGG	1 cut(s)	130
StyI	CCWWGG	1 cut(s)	426
TaaI	ACNGT	2 cut(s)	73, 383
TaqI	TCGA	1 cut(s)	97
TasI	AATT	3 cut(s)	27, 114, 326
TatI	WGTACW	1 cut(s)	90
TfiI	GAWTC	3 cut(s)	135, 199, 214
Tru1I	TTAA	1 cut(s)	470
Tru9I	TTAA	1 cut(s)	470
TscAI	CASTG	3 cut(s)	76, 351, 417
TseI	GCWGC	1 cut(s)	388
TspDTI	ATGAA	2 cut(s)	62, 191
TspRI	CASTG	3 cut(s)	76, 351, 417
XapI	RAATTY	1 cut(s)	326
XceI	RCATGY	2 cut(s)	105, 395
XmnI	GAANNNNTTC	1 cut(s)	478

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