Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001626

Physical Location & Seq

Genomic Coordinates Forward (+)

38655979 .. 38659048

Gene Structure 3070 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00416770.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGAGGGCTGCCAAGGCTAAGGCGGGAGCAAGAGCCCTGAAACCTGTCGATGATGGGAGAGTTGGGAAACGAAAGGCTGCTGCTGCTCCGGTTGATAAGAGTAGCAAAGGAAAGGCCAAGCAGACAAAGAAGGCCAAGAAAGACCCCAACAAGCCTAAGAGGCCACCTAGTGCCTTTTTCGTGTTCCTTGGTCAGTTCAGGGAAGAGTTCAAGAAAAAGAACCCTAATGTGAAAGGCGTAGCAGCCGTTGGAAAAGCTGGAGGAGAAAAGTGGAGATCCCTGTCTGATGCTGAAAAAGCTCCATATGAAGCTGAGTCTGCAAAAGCAAAGACTGAGTATGAAAAGCAGCTGAAAATCTATGACAAAAAGCAGAGTGCACCTGATGATGGTGATGAAGAGTCAGAGAGGTCAAGATCTGAAGTGCATGATGAAGACGATGAGGCTAGTGGGGAGGAGGCGCAGCCAAAAGCGGAGGAAGCAGAGGAGGAAGAGGTGGATGACGAAGATGAAGGGGAGGACGAGGGTGAAGAAGAGGAAGATGACGACTGA

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

182

Amino Acids

20.04

Weight (kDa)

4.92

Isoelectric Point (pI)

55.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMG_box_2	PF09011	49 - 120	6.2e-15	HMG-box domain
HMG_box	PF00505	52 - 120	3.2e-22	HMG (high mobility group) box
HMG_WDHD1	PF24815	55 - 102	5.1e-11	WDHD1 HMG box

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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	2 cut(s)	23, 470
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	4 cut(s)	257, 299, 311, 349
AluI	AGCT	4 cut(s)	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	7 cut(s)	8, 77, 80, 83, 242, 346, 460
AspLEI	GCGC	1 cut(s)	460
AsuHPI	GGTGA	2 cut(s)	401, 536
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	6 cut(s)	64, 67, 70, 254, 358, 472
BccI	CCATC	2 cut(s)	47, 380
BceAI	ACGGC	1 cut(s)	230
BfaI	CTAG	2 cut(s)	168, 444
BglI	GCCNNNNNGGC	1 cut(s)	160
BglII	AGATCT	1 cut(s)	413
BisI	GCNGC	7 cut(s)	9, 78, 81, 84, 243, 347, 461
BlsI	GCNGC	7 cut(s)	10, 79, 82, 85, 244, 348, 462
BmsI	GCATC	1 cut(s)	277
BpiI	GAAGAC	1 cut(s)	438
BpmI	CTGGAG	1 cut(s)	279
Bpu10I	CCTNAGC	1 cut(s)	18
BsaJI	CCNNGG	2 cut(s)	12, 187
BsaWI	WCCGGW	1 cut(s)	88
Bsc4I	CCNNNNNNNGG	1 cut(s)	386
BseDI	CCNNGG	2 cut(s)	12, 187
BseGI	GGATG	1 cut(s)	502
BseLI	CCNNNNNNNGG	1 cut(s)	386
BseMII	CTCAG	2 cut(s)	303, 324
BseRI	GAGGAG	3 cut(s)	276, 467, 497
BseSI	GKGCMC	1 cut(s)	379
BseXI	GCAGC	6 cut(s)	64, 67, 70, 254, 358, 472
BshFI	GGCC	3 cut(s)	116, 134, 163
BsiHKAI	GWGCWC	1 cut(s)	379
BsiSI	CCGG	1 cut(s)	89
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	2 cut(s)	23, 470
BspANI	GGCC	3 cut(s)	116, 134, 163
BspCNI	CTCAG	2 cut(s)	304, 325
BspPI	GGATC	1 cut(s)	270
BssECI	CCNNGG	2 cut(s)	12, 187
BssMI	GATC	2 cut(s)	275, 413
BssT1I	CCWWGG	2 cut(s)	12, 187
Bst6I	CTCTTC	4 cut(s)	198, 390, 483, 525
BstDEI	CTNAG	4 cut(s)	18, 156, 312, 333
BstF5I	GGATG	1 cut(s)	502
BstHHI	GCGC	1 cut(s)	460
BstKTI	GATC	2 cut(s)	278, 416
BstMBI	GATC	2 cut(s)	275, 413
BstMWI	GCNNNNNNNGC	6 cut(s)	14, 83, 160, 296, 317, 476
BstSLI	GKGCMC	1 cut(s)	379
BstV1I	GCAGC	6 cut(s)	64, 67, 70, 254, 358, 472
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
BtsCI	GGATG	1 cut(s)	502
CfoI	GCGC	1 cut(s)	460
CviAII	CATG	1 cut(s)	425
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	4 cut(s)	198, 390, 483, 525
EarI	CTCTTC	4 cut(s)	198, 390, 483, 525
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	1 cut(s)	428
FaiI	YATR	5 cut(s)	304, 306, 339, 360, 426
FatI	CATG	1 cut(s)	424
FauI	CCCGC	1 cut(s)	16
FauNDI	CATATG	1 cut(s)	304
Fnu4HI	GCNGC	7 cut(s)	9, 78, 81, 84, 243, 347, 461
FokI	GGATG	1 cut(s)	509
FriOI	GRGCYC	1 cut(s)	37
Fsp4HI	GCNGC	7 cut(s)	9, 78, 81, 84, 243, 347, 461
FspBI	CTAG	2 cut(s)	168, 444
GlaI	GCGC	1 cut(s)	459
GluI	GCNGC	7 cut(s)	9, 78, 81, 84, 243, 347, 461
GsuI	CTGGAG	1 cut(s)	279
HaeIII	GGCC	3 cut(s)	116, 134, 163
HapII	CCGG	1 cut(s)	89
HhaI	GCGC	1 cut(s)	460
Hin1II	CATG	1 cut(s)	428
Hin6I	GCGC	1 cut(s)	458
HinP1I	GCGC	1 cut(s)	458
HinfI	GANTC	2 cut(s)	314, 398
HpaII	CCGG	1 cut(s)	89
HphI	GGTGA	2 cut(s)	401, 536
Hpy166II	GTNNAC	1 cut(s)	377
Hpy188I	TCNGA	3 cut(s)	286, 403, 418
Hpy188III	TCNNGA	2 cut(s)	211, 411
Hpy8I	GTNNAC	1 cut(s)	377
HpyAV	CCTTC	2 cut(s)	124, 503
HpyCH4V	TGCA	3 cut(s)	320, 377, 424
HpyF10VI	GCNNNNNNNGC	6 cut(s)	14, 83, 160, 296, 317, 476
HpyF3I	CTNAG	4 cut(s)	18, 156, 312, 333
Hsp92II	CATG	1 cut(s)	428
HspAI	GCGC	1 cut(s)	458
Kzo9I	GATC	2 cut(s)	275, 413
LmnI	GCTCC	3 cut(s)	26, 91, 304
LpnPI	CCDG	7 cut(s)	50, 57, 102, 184, 243, 293, 393
Lsp1109I	GCAGC	6 cut(s)	64, 67, 70, 254, 358, 472
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	8 cut(s)	215, 407, 443, 500, 515, 539, 542, 548
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
MspA1I	CMGCKG	1 cut(s)	349
MspI	CCGG	1 cut(s)	89
MwoI	GCNNNNNNNGC	6 cut(s)	14, 83, 160, 296, 317, 476
NdeI	CATATG	1 cut(s)	304
NdeII	GATC	2 cut(s)	275, 413
NlaIII	CATG	1 cut(s)	428
PkrI	GCNGC	7 cut(s)	10, 79, 82, 85, 244, 348, 462
PleI	GAGTC	2 cut(s)	322, 406
PpsI	GAGTC	2 cut(s)	322, 406
PsuI	RGATCY	2 cut(s)	275, 413
PvuII	CAGCTG	1 cut(s)	349
SatI	GCNGC	7 cut(s)	9, 78, 81, 84, 243, 347, 461
Sau3AI	GATC	2 cut(s)	275, 413
SchI	GAGTC	2 cut(s)	323, 407
SduI	GDGCHC	2 cut(s)	37, 379
SetI	ASST	9 cut(s)	46, 169, 259, 301, 313, 351, 382, 410, 495
SfaNI	GCATC	1 cut(s)	277
SsiI	CCGC	2 cut(s)	23, 470
SspMI	CTAG	2 cut(s)	168, 444
StyI	CCWWGG	2 cut(s)	12, 187
TaqI	TCGA	1 cut(s)	48
TseI	GCWGC	7 cut(s)	8, 77, 80, 83, 242, 346, 460
TspDTI	ATGAA	5 cut(s)	321, 354, 408, 444, 522
VneI	GTGCAC	1 cut(s)	375
XspI	CTAG	2 cut(s)	168, 444

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