Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001626

Physical Location & Seq

Genomic Coordinates Reverse (-)

10386698 .. 10389836

Gene Structure 3139 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG127300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGAGGGCTGCCAAGGCTAAGGCGGGAGCAAGAGCCCTGAAACCTGTCGATGATGGGAGAGTTGGGAAACGAAAGGCTGCTGCTGCTCCAGTTGATAAGAGTAGCAAAGGAAAGGCCAAGCAGACAAAGAAGGCCAAGAAAGACCCCAACAAGCCTAAGAGGCCACCTAGTGCCTTTTTCGTGTTCCTGTATGTATCTCCTTCTCAGTACTTTAGGAAGTGGTATCGTTTGATATTGTGCTACTTTTGTGTAGATTTTCTAATTATTCTATTTCATGTCAGTGGTCAGTTCAGGGAAGAGTTCAAGAAAAAGAACCCTAATGTGAAAGGGGTAGCAGCTGTTGGAAAAGCTGGAGGAGAAAAGTGGAGATCCCTTTCTGATGCTGAAAAAGCTCCATATGAAGCTGAGTCTGCAAAAGCAAAGACTGAGTATGAAAAGCAGCTGAAAATCTATGACAAAAAGCAGAGTGCACCTGATGATGGTGATGAAGAGTCAGAGAGGTCAAGATCTGAAGTGCATGATGAAGACGATGAGGCTAGTGGGGAGGAGGCGCAGCCAAAAGCGGAGGAAGCAGAGGAGGAAGAGGTGGATGACGAAGATGAAGGGGAGGACGAGGGTGAAGAAGAGGAAGATGACGACTGA

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

213

Amino Acids

23.95

Weight (kDa)

5.11

Isoelectric Point (pI)

51.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMG_box	PF00505	94 - 151	2.4e-14	HMG (high mobility group) box
HMG_WDHD1	PF24815	97 - 133	4.1e-07	WDHD1 HMG box
HMG_box_2	PF09011	98 - 151	1.1e-07	HMG-box domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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, 563
AclWI	GGATC	1 cut(s)	363
AcuI	CTGAAG	1 cut(s)	531
AdeI	CACNNNGTG	1 cut(s)	170
AfaI	GTAC	1 cut(s)	209
AfiI	CCNNNNNNNGG	1 cut(s)	479
AgsI	TTSAA	1 cut(s)	304
AluBI	AGCT	5 cut(s)	338, 350, 392, 404, 442
AluI	AGCT	5 cut(s)	338, 350, 392, 404, 442
Alw21I	GWGCWC	1 cut(s)	472
Alw44I	GTGCAC	1 cut(s)	468
AlwI	GGATC	1 cut(s)	363
AoxI	GGCC	3 cut(s)	114, 132, 161
ApaLI	GTGCAC	1 cut(s)	468
ApeKI	GCWGC	7 cut(s)	8, 77, 80, 83, 335, 439, 553
AspLEI	GCGC	1 cut(s)	553
AsuHPI	GGTGA	2 cut(s)	494, 629
BaeGI	GKGCMC	1 cut(s)	472
BanII	GRGCYC	1 cut(s)	37
BbsI	GAAGAC	1 cut(s)	531
Bbv12I	GWGCWC	1 cut(s)	472
BbvI	GCAGC	6 cut(s)	64, 67, 70, 347, 451, 565
BccI	CCATC	2 cut(s)	47, 473
BfaI	CTAG	2 cut(s)	168, 537
BglI	GCCNNNNNGGC	1 cut(s)	160
BglII	AGATCT	1 cut(s)	506
BisI	GCNGC	7 cut(s)	9, 78, 81, 84, 336, 440, 554
BlsI	GCNGC	7 cut(s)	10, 79, 82, 85, 337, 441, 555
BmcAI	AGTACT	1 cut(s)	209
BmsI	GCATC	1 cut(s)	370
BpiI	GAAGAC	1 cut(s)	531
BpmI	CTGGAG	2 cut(s)	72, 372
Bpu10I	CCTNAGC	1 cut(s)	18
BsaJI	CCNNGG	1 cut(s)	12
Bsc4I	CCNNNNNNNGG	1 cut(s)	479
Bse1I	ACTGG	1 cut(s)	89
BseDI	CCNNGG	1 cut(s)	12
BseGI	GGATG	1 cut(s)	595
BseLI	CCNNNNNNNGG	1 cut(s)	479
BseMII	CTCAG	3 cut(s)	218, 396, 417
BseNI	ACTGG	1 cut(s)	89
BseRI	GAGGAG	3 cut(s)	369, 560, 590
BseSI	GKGCMC	1 cut(s)	472
BseXI	GCAGC	6 cut(s)	64, 67, 70, 347, 451, 565
BshFI	GGCC	3 cut(s)	116, 134, 163
BsiHKAI	GWGCWC	1 cut(s)	472
BslI	CCNNNNNNNGG	1 cut(s)	479
BsnI	GGCC	3 cut(s)	116, 134, 163
Bsp1286I	GDGCHC	2 cut(s)	37, 472
Bsp143I	GATC	2 cut(s)	368, 506
BspACI	CCGC	2 cut(s)	23, 563
BspANI	GGCC	3 cut(s)	116, 134, 163
BspCNI	CTCAG	3 cut(s)	217, 397, 418
BspPI	GGATC	1 cut(s)	363
BsrI	ACTGG	1 cut(s)	89
BssECI	CCNNGG	1 cut(s)	12
BssMI	GATC	2 cut(s)	368, 506
BssT1I	CCWWGG	1 cut(s)	12
Bst6I	CTCTTC	4 cut(s)	291, 483, 576, 618
BstDEI	CTNAG	5 cut(s)	18, 156, 204, 405, 426
BstF5I	GGATG	1 cut(s)	595
BstHHI	GCGC	1 cut(s)	553
BstKTI	GATC	2 cut(s)	371, 509
BstMBI	GATC	2 cut(s)	368, 506
BstMWI	GCNNNNNNNGC	6 cut(s)	14, 83, 160, 389, 410, 569
BstSLI	GKGCMC	1 cut(s)	472
BstV1I	GCAGC	6 cut(s)	64, 67, 70, 347, 451, 565
BstV2I	GAAGAC	1 cut(s)	531
BstX2I	RGATCY	2 cut(s)	368, 506
BstYI	RGATCY	2 cut(s)	368, 506
BsuRI	GGCC	3 cut(s)	116, 134, 163
BtsCI	GGATG	1 cut(s)	595
BtsIMutI	CAGTG	1 cut(s)	286
CfoI	GCGC	1 cut(s)	553
Csp6I	GTAC	1 cut(s)	208
CviAII	CATG	2 cut(s)	275, 518
CviQI	GTAC	1 cut(s)	208
DdeI	CTNAG	5 cut(s)	18, 156, 204, 405, 426
DpnI	GATC	2 cut(s)	370, 508
DpnII	GATC	2 cut(s)	368, 506
DraIII	CACNNNGTG	1 cut(s)	170
Eam1104I	CTCTTC	4 cut(s)	291, 483, 576, 618
EarI	CTCTTC	4 cut(s)	291, 483, 576, 618
Eco130I	CCWWGG	1 cut(s)	12
Eco24I	GRGCYC	1 cut(s)	37
Eco57I	CTGAAG	1 cut(s)	531
EcoT14I	CCWWGG	1 cut(s)	12
EcoT38I	GRGCYC	1 cut(s)	37
ErhI	CCWWGG	1 cut(s)	12
FaeI	CATG	2 cut(s)	278, 521
FaiI	YATR	7 cut(s)	192, 276, 397, 399, 432, 453, 519
FatI	CATG	2 cut(s)	274, 517
FauI	CCCGC	1 cut(s)	16
FauNDI	CATATG	1 cut(s)	397
Fnu4HI	GCNGC	7 cut(s)	9, 78, 81, 84, 336, 440, 554
FokI	GGATG	1 cut(s)	602
FriOI	GRGCYC	1 cut(s)	37
Fsp4HI	GCNGC	7 cut(s)	9, 78, 81, 84, 336, 440, 554
FspBI	CTAG	2 cut(s)	168, 537
GlaI	GCGC	1 cut(s)	552
GluI	GCNGC	7 cut(s)	9, 78, 81, 84, 336, 440, 554
GsuI	CTGGAG	2 cut(s)	72, 372
HaeIII	GGCC	3 cut(s)	116, 134, 163
HhaI	GCGC	1 cut(s)	553
Hin1II	CATG	2 cut(s)	278, 521
Hin6I	GCGC	1 cut(s)	551
HinP1I	GCGC	1 cut(s)	551
HinfI	GANTC	2 cut(s)	407, 491
HphI	GGTGA	2 cut(s)	494, 629
Hpy166II	GTNNAC	1 cut(s)	470
Hpy188I	TCNGA	3 cut(s)	379, 496, 511
Hpy188III	TCNNGA	2 cut(s)	304, 504
Hpy8I	GTNNAC	1 cut(s)	470
HpyAV	CCTTC	3 cut(s)	124, 210, 596
HpyCH4V	TGCA	3 cut(s)	413, 470, 517
HpyF10VI	GCNNNNNNNGC	6 cut(s)	14, 83, 160, 389, 410, 569
HpyF3I	CTNAG	5 cut(s)	18, 156, 204, 405, 426
Hsp92II	CATG	2 cut(s)	278, 521
HspAI	GCGC	1 cut(s)	551
Kzo9I	GATC	2 cut(s)	368, 506
LmnI	GCTCC	3 cut(s)	26, 91, 397
LpnPI	CCDG	7 cut(s)	50, 57, 102, 200, 277, 336, 486
Lsp1109I	GCAGC	6 cut(s)	64, 67, 70, 347, 451, 565
LweI	GCATC	1 cut(s)	370
MaeI	CTAG	2 cut(s)	168, 537
MalI	GATC	2 cut(s)	370, 508
MboI	GATC	2 cut(s)	368, 506
MboII	GAAGA	8 cut(s)	308, 500, 536, 593, 608, 632, 635, 641
MflI	RGATCY	2 cut(s)	368, 506
MhlI	GDGCHC	2 cut(s)	37, 472
MluCI	AATT	1 cut(s)	261
MlyI	GAGTC	2 cut(s)	416, 500
MmeI	TCCRAC	1 cut(s)	322
MslI	CAYNNNNRTG	1 cut(s)	279
MspA1I	CMGCKG	2 cut(s)	338, 442
MwoI	GCNNNNNNNGC	6 cut(s)	14, 83, 160, 389, 410, 569
NdeI	CATATG	1 cut(s)	397
NdeII	GATC	2 cut(s)	368, 506
NlaIII	CATG	2 cut(s)	278, 521
PkrI	GCNGC	7 cut(s)	10, 79, 82, 85, 337, 441, 555
PleI	GAGTC	2 cut(s)	415, 499
PpsI	GAGTC	2 cut(s)	415, 499
PsuI	RGATCY	2 cut(s)	368, 506
PvuII	CAGCTG	2 cut(s)	338, 442
RsaI	GTAC	1 cut(s)	209
RsaNI	GTAC	1 cut(s)	208
RseI	CAYNNNNRTG	1 cut(s)	279
SatI	GCNGC	7 cut(s)	9, 78, 81, 84, 336, 440, 554
Sau3AI	GATC	2 cut(s)	368, 506
ScaI	AGTACT	1 cut(s)	209
SchI	GAGTC	2 cut(s)	416, 500
SduI	GDGCHC	2 cut(s)	37, 472
SfaNI	GCATC	1 cut(s)	370
SmiMI	CAYNNNNRTG	1 cut(s)	279
Sse9I	AATT	1 cut(s)	261
SsiI	CCGC	2 cut(s)	23, 563
SspMI	CTAG	2 cut(s)	168, 537
StyI	CCWWGG	1 cut(s)	12
TaqI	TCGA	1 cut(s)	48
TasI	AATT	1 cut(s)	261
TatI	WGTACW	1 cut(s)	207
TscAI	CASTG	1 cut(s)	286
TseI	GCWGC	7 cut(s)	8, 77, 80, 83, 335, 439, 553
TspDTI	ATGAA	6 cut(s)	263, 414, 447, 501, 537, 615
TspRI	CASTG	1 cut(s)	286
VneI	GTGCAC	1 cut(s)	468
XspI	CTAG	2 cut(s)	168, 537
ZrmI	AGTACT	1 cut(s)	209

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