Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0001626

Physical Location & Seq

Genomic Coordinates Reverse (-)

10387571 .. 10388801

Gene Structure 1231 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG120800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 543 bp

ATGAGGGCTGCCAAGGCTAAGGCGGGAGCAAGAGCCCTGAAACCTGTCGATGATGGGAGAGTTGGGAAACGAAAGGCTGCTGCTGCTCCAGTTGATAAGAGTAGCAAAGGAAAGGCCAAGCAGACAAAGAAGGCCAAGAAAGACCCCAACAAGCCTAAGAGGCCACCTAGTGCCTTTTTCGTGTTCCTTGGTCAGTTCAGGGAAGAGTTCAAGAAAAAGAACCCTAATGTGAAAGGGGTAGCAGCTGTTGGAAAAGCTGGAGGAGAAAAGTGGAGATCCCTTTCTGATGCTGAAAAAGCTCCATATGAAGCTGAGTCTGCAAAAGCAAAGACTGAGTATGAAAAGCAGCTGAAAATCTATGACAAAAAGCAGAGTGCACCTGATGATGGTGATGAAGAGTCAGAGAGGTCAAGATCTGAAGTGCATGATGAAGACGATGAGGCTAGTGGGGAGGTAGTCCTATATATACTACTTTTGCTTGGACTTCGGTTCTTCTTTCTTCTCATGGCAATACCCTTTATGTTAGTCATGAGAAGCGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000785 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003700 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006325 GO:0006333 GO:0006355 GO:0006996 GO:0008150 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0030527 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0060255 GO:0065007 GO:0071840 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03410 ko04140 ko04217 map03410 map04140 map04217

Pfam Domains

Protein Families

HMG_box

Protein Analysis

180

Amino Acids

19.9

Weight (kDa)

9.72

Isoelectric Point (pI)

44.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMG_box_2	PF09011	49 - 120	6e-15	HMG-box domain
HMG_box	PF00505	52 - 120	3.1e-22	HMG (high mobility group) box
HMG_WDHD1	PF24815	55 - 102	5e-11	WDHD1 HMG box

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001626)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51880 AT3G51880 AT3G51880 AT3G51880 AT3G51880
fragaria_vesca	FvH4_6g11530 FvH4_6g11530 FvH4_6g11530 FvH4_6g11530 FvH4_7g24360 FvH4_7g24360 FvH4_7g24360
malus_domestica	MD01G1132900.v1.1 MD07G1220600.v1.1
prunus_persica	Prupe.2G249000_v2.0.a1 Prupe.2G249000_v2.0.a1 Prupe.6G276300_v2.0.a1 Prupe.6G276300_v2.0.a1 Prupe.6G276300_v2.0.a1 Prupe.6G276300_v2.0.a1
pyrus_communis	pycom01g16950 pycom07g19960
rosa_chinensis	RchiOBHm_Chr1g0370021 RchiOBHm_Chr3g0463231
rosa_laevigata	RLG00000024799
rosa_multiflora	Rmu_co8427781.1_g000001 Rmu_sc0005056.1_g000014 Rmu_sc0008079.1_g000019 Rmu_sc0022743.1_g000005 Rmu_sc0022743.1_g000006
rosa_roxburghii	Rroxscaffold_4G00286860 Rroxscaffold_4G00287170 Rroxscaffold_6G00416770
rosa_rugosa	Rorug01G0353500 Rorug03G0062700 Rorug03G0062700 Rorug03G0062700 Rorug03G0062800 Rorug03G0062800
rosa_samantha	Rh1AG362200 Rh1BG325400 Rh1CG338700 Rh1DG355900 Rh3AG120800 Rh3BG125300 Rh3CG127300 Rh3DG126500
rosa_wichuraiana	Rw1G031870 Rw3G010260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	23
AclWI	GGATC	1 cut(s)	270
AcuI	CTGAAG	1 cut(s)	438
AdeI	CACNNNGTG	1 cut(s)	170
AfiI	CCNNNNNNNGG	1 cut(s)	386
AgsI	TTSAA	1 cut(s)	211
AluBI	AGCT	5 cut(s)	245, 257, 299, 311, 349
AluI	AGCT	5 cut(s)	245, 257, 299, 311, 349
Alw21I	GWGCWC	1 cut(s)	379
Alw44I	GTGCAC	1 cut(s)	375
AlwI	GGATC	1 cut(s)	270
AoxI	GGCC	3 cut(s)	114, 132, 161
ApaLI	GTGCAC	1 cut(s)	375
ApeKI	GCWGC	6 cut(s)	8, 77, 80, 83, 242, 346
AspLEI	GCGC	1 cut(s)	539
AsuHPI	GGTGA	1 cut(s)	401
BaeGI	GKGCMC	1 cut(s)	379
BanII	GRGCYC	1 cut(s)	37
BbsI	GAAGAC	1 cut(s)	438
Bbv12I	GWGCWC	1 cut(s)	379
BbvI	GCAGC	5 cut(s)	64, 67, 70, 254, 358
BccI	CCATC	2 cut(s)	47, 380
BfaI	CTAG	2 cut(s)	168, 444
BglI	GCCNNNNNGGC	1 cut(s)	160
BglII	AGATCT	1 cut(s)	413
BisI	GCNGC	6 cut(s)	9, 78, 81, 84, 243, 347
BlsI	GCNGC	6 cut(s)	10, 79, 82, 85, 244, 348
BmsI	GCATC	1 cut(s)	277
BpiI	GAAGAC	1 cut(s)	438
BpmI	CTGGAG	2 cut(s)	72, 279
Bpu10I	CCTNAGC	1 cut(s)	18
BsaJI	CCNNGG	2 cut(s)	12, 187
Bsc4I	CCNNNNNNNGG	1 cut(s)	386
Bse1I	ACTGG	1 cut(s)	89
BseDI	CCNNGG	2 cut(s)	12, 187
BseLI	CCNNNNNNNGG	1 cut(s)	386
BseMII	CTCAG	2 cut(s)	303, 324
BseNI	ACTGG	1 cut(s)	89
BseRI	GAGGAG	1 cut(s)	276
BseSI	GKGCMC	1 cut(s)	379
BseXI	GCAGC	5 cut(s)	64, 67, 70, 254, 358
BshFI	GGCC	3 cut(s)	116, 134, 163
BsiHKAI	GWGCWC	1 cut(s)	379
BslI	CCNNNNNNNGG	1 cut(s)	386
BsnI	GGCC	3 cut(s)	116, 134, 163
Bsp1286I	GDGCHC	2 cut(s)	37, 379
Bsp143I	GATC	2 cut(s)	275, 413
BspACI	CCGC	1 cut(s)	23
BspANI	GGCC	3 cut(s)	116, 134, 163
BspCNI	CTCAG	2 cut(s)	304, 325
BspHI	TCATGA	1 cut(s)	528
BspPI	GGATC	1 cut(s)	270
BsrI	ACTGG	1 cut(s)	89
BssECI	CCNNGG	2 cut(s)	12, 187
BssMI	GATC	2 cut(s)	275, 413
BssT1I	CCWWGG	2 cut(s)	12, 187
Bst6I	CTCTTC	2 cut(s)	198, 390
BstDEI	CTNAG	4 cut(s)	18, 156, 312, 333
BstHHI	GCGC	1 cut(s)	539
BstKTI	GATC	2 cut(s)	278, 416
BstMBI	GATC	2 cut(s)	275, 413
BstMWI	GCNNNNNNNGC	5 cut(s)	14, 83, 160, 296, 317
BstSLI	GKGCMC	1 cut(s)	379
BstV1I	GCAGC	5 cut(s)	64, 67, 70, 254, 358
BstV2I	GAAGAC	1 cut(s)	438
BstX2I	RGATCY	2 cut(s)	275, 413
BstYI	RGATCY	2 cut(s)	275, 413
BsuRI	GGCC	3 cut(s)	116, 134, 163
CciI	TCATGA	1 cut(s)	528
CfoI	GCGC	1 cut(s)	539
CviAII	CATG	3 cut(s)	425, 505, 529
DdeI	CTNAG	4 cut(s)	18, 156, 312, 333
DpnI	GATC	2 cut(s)	277, 415
DpnII	GATC	2 cut(s)	275, 413
DraIII	CACNNNGTG	1 cut(s)	170
Eam1104I	CTCTTC	2 cut(s)	198, 390
EarI	CTCTTC	2 cut(s)	198, 390
Eco130I	CCWWGG	2 cut(s)	12, 187
Eco24I	GRGCYC	1 cut(s)	37
Eco57I	CTGAAG	1 cut(s)	438
EcoT14I	CCWWGG	2 cut(s)	12, 187
EcoT38I	GRGCYC	1 cut(s)	37
ErhI	CCWWGG	2 cut(s)	12, 187
FaeI	CATG	3 cut(s)	428, 508, 532
FatI	CATG	3 cut(s)	424, 504, 528
FauI	CCCGC	1 cut(s)	16
FauNDI	CATATG	1 cut(s)	304
Fnu4HI	GCNGC	6 cut(s)	9, 78, 81, 84, 243, 347
FriOI	GRGCYC	1 cut(s)	37
Fsp4HI	GCNGC	6 cut(s)	9, 78, 81, 84, 243, 347
FspBI	CTAG	2 cut(s)	168, 444
GlaI	GCGC	1 cut(s)	538
GluI	GCNGC	6 cut(s)	9, 78, 81, 84, 243, 347
GsuI	CTGGAG	2 cut(s)	72, 279
HaeIII	GGCC	3 cut(s)	116, 134, 163
HhaI	GCGC	1 cut(s)	539
Hin1II	CATG	3 cut(s)	428, 508, 532
Hin6I	GCGC	1 cut(s)	537
HinP1I	GCGC	1 cut(s)	537
HinfI	GANTC	2 cut(s)	314, 398
HphI	GGTGA	1 cut(s)	401
Hpy166II	GTNNAC	1 cut(s)	377
Hpy188I	TCNGA	3 cut(s)	286, 403, 418
Hpy188III	TCNNGA	3 cut(s)	211, 411, 529
Hpy8I	GTNNAC	1 cut(s)	377
HpyAV	CCTTC	1 cut(s)	124
HpyCH4V	TGCA	3 cut(s)	320, 377, 424
HpyF10VI	GCNNNNNNNGC	5 cut(s)	14, 83, 160, 296, 317
HpyF3I	CTNAG	4 cut(s)	18, 156, 312, 333
Hsp92II	CATG	3 cut(s)	428, 508, 532
HspAI	GCGC	1 cut(s)	537
Kzo9I	GATC	2 cut(s)	275, 413
LmnI	GCTCC	3 cut(s)	26, 91, 304
LpnPI	CCDG	6 cut(s)	50, 57, 102, 184, 243, 393
Lsp1109I	GCAGC	5 cut(s)	64, 67, 70, 254, 358
LweI	GCATC	1 cut(s)	277
MaeI	CTAG	2 cut(s)	168, 444
MalI	GATC	2 cut(s)	277, 415
MboI	GATC	2 cut(s)	275, 413
MboII	GAAGA	5 cut(s)	215, 407, 443, 484, 491
MflI	RGATCY	2 cut(s)	275, 413
MhlI	GDGCHC	2 cut(s)	37, 379
MlyI	GAGTC	2 cut(s)	323, 407
MmeI	TCCRAC	1 cut(s)	229
MnlI	CCTC	5 cut(s)	153, 254, 399, 433, 445
MspA1I	CMGCKG	2 cut(s)	245, 349
MwoI	GCNNNNNNNGC	5 cut(s)	14, 83, 160, 296, 317
NdeI	CATATG	1 cut(s)	304
NdeII	GATC	2 cut(s)	275, 413
NlaIII	CATG	3 cut(s)	428, 508, 532
PagI	TCATGA	1 cut(s)	528
PkrI	GCNGC	6 cut(s)	10, 79, 82, 85, 244, 348
PleI	GAGTC	2 cut(s)	322, 406
PpsI	GAGTC	2 cut(s)	322, 406
PsuI	RGATCY	2 cut(s)	275, 413
PvuII	CAGCTG	2 cut(s)	245, 349
SatI	GCNGC	6 cut(s)	9, 78, 81, 84, 243, 347
Sau3AI	GATC	2 cut(s)	275, 413
SchI	GAGTC	2 cut(s)	323, 407
SduI	GDGCHC	2 cut(s)	37, 379
SfaNI	GCATC	1 cut(s)	277
SsiI	CCGC	1 cut(s)	23
SspMI	CTAG	2 cut(s)	168, 444
StyI	CCWWGG	2 cut(s)	12, 187
TaqI	TCGA	1 cut(s)	48
TseI	GCWGC	6 cut(s)	8, 77, 80, 83, 242, 346
TspDTI	ATGAA	4 cut(s)	321, 354, 408, 444
VneI	GTGCAC	1 cut(s)	375
XspI	CTAG	2 cut(s)	168, 444

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