Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002702

Physical Location & Seq

Genomic Coordinates Reverse (-)

12472545 .. 12473549

Gene Structure 1005 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00292060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGCAACGTGGTACCATGGCCGATCAGCTGTCCCCCGACCAGAAGTCAAAGTTCAAGGAGGCGTTCAGCCTTTTCGACAAGGACGGCGATGGCTCCATCACTACCAAAGAGCTCGGCACTGTGATGCGCTCACTTGGGCAGAACCCGACCGAAGAAGAGCTTCAAGATATGATCAACGAGGTTGATGCCGATGGAAGCGGTACCATGGAATGCCAAGAGTTCCTTGAACTGATGGCCAAAAAGATTAAGGGCACTGATTCCGATGAGGAGCTCAAGGAAGCGTTTCGGGTGTTTGATAAGGACCAGAATGGCTTTATTTCTGCCGCCGAGCTCCGTCATGTCCTGACGAATCTCGGCGAGAAGCTGACAGATGAGGAAATTGGTGAGATGGTTAGGGAGGCTGATTTGGATAGAGATGGACAAATCAACTATGAGGAGTTTGTCAAAGTTATGGTGGCCAAGAGAGGACGAAGCCGGAGCAGCGGGCACGGTAACATGAATTCTTCTTCAAGGGAACACAAGACTAAGAACGGCCGTACTAAACAGCGTATACGCCAATATATTTCTGCCTGTAGTGTAATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005856 GO:0005874 GO:0007154 GO:0007165 GO:0008150 GO:0009987 GO:0015630 GO:0019722 GO:0019932 GO:0023052 GO:0035556 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044430 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0065007 GO:0099080 GO:0099081 GO:0099512 GO:0099513

KEGG Pathways

Metabolic & Signaling

ko04014 ko04015 ko04016 ko04020 ko04022 ko04024 ko04070 ko04114 ko04218 ko04261 ko04270 ko04371 ko04626 ko04713 ko04720 ko04722 ko04728 ko04740 ko04744 ko04745 ko04750 ko04910 ko04912 ko04915 ko04916 ko04921 ko04922 ko04924 ko04925 ko04970 ko04971 ko05010 ko05031 ko05034 ko05133 ko05152 ko05167 ko05200 ko05214 ko05418 map04014 map04015 map04016 map04020 map04022 map04024 map04070 map04114 map04218 map04261 map04270 map04371 map04626 map04713 map04720 map04722 map04728 map04740 map04744 map04745 map04750 map04910 map04912 map04915 map04916 map04921 map04922 map04924 map04925 map04970 map04971 map05010 map05031 map05034 map05133 map05152 map05167 map05200 map05214 map05418

Pfam Domains

Protein Families

EF-hand_1

Protein Analysis

194

Amino Acids

21.87

Weight (kDa)

5.08

Isoelectric Point (pI)

36.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AIF-1	PF21008	14 - 81	2.9e-07	Allograft inflammatory factor 1
EF-hand_7	PF13499	16 - 78	3.2e-16	EF-hand domain pair
EF-hand_1	PF00036	17 - 45	1.4e-08	EF hand domain
EF-hand_6	PF13405	17 - 46	7.8e-09	EF-hand domain
EF-hand_5	PF13202	19 - 42	9.9e-06	EF hand
EF-hand_9	PF14658	20 - 82	1.4e-09	EF-hand domain
EF-hand_8	PF13833	31 - 80	4.2e-08	EF-hand domain pair
EF-hand_1	PF00036	53 - 80	3e-06	EF hand domain
EF-hand_7	PF13499	89 - 151	9.8e-20	EF-hand domain pair
AIF-1	PF21008	89 - 155	3.4e-06	Allograft inflammatory factor 1
EF-hand_1	PF00036	90 - 117	1.1e-08	EF hand domain
EF-hand_6	PF13405	90 - 119	2.1e-09	EF-hand domain
EF-hand_5	PF13202	91 - 114	3.4e-06	EF hand
EF-hand_8	PF13833	103 - 152	7.6e-12	EF-hand domain pair
EF-hand_1	PF00036	126 - 152	2.3e-07	EF hand domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0002702)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12310 AT1G62820
fragaria_vesca	FvH4_5g00650 FvH4_7g20700
malus_domestica	MD03G1151100.v1.1 MD04G1079800.v1.1 MD06G1074600.v1.1 MD07G1265800.v1.1 MD11G1152700.v1.1 MD17G1283300.v1.1
prunus_persica	Prupe.5G079300_v2.0.a1
pyrus_communis	pycom06g05340
rosa_chinensis	RchiOBHm_Chr1g0364931 RchiOBHm_Chr3g0455101 RchiOBHm_Chr5g0045151 RchiOBHm_Chr6g0299731 RchiOBHm_Chr7g0201611
rosa_laevigata	RLG00000027458
rosa_multiflora	Rmu_sc0002502.1_g000006 Rmu_sc0002895.1_g000017 Rmu_sc0006410.1_g000028 Rmu_sc0007033.1_g000001 Rmu_sc0011159.1_g000005 Rmu_ssc0000112.1_g000026 Rmu_ssc0000304.1_g000001
rosa_roxburghii	Rroxscaffold_3G00255200 Rroxscaffold_4G00292060
rosa_rugosa	Rorug01G0318600 Rorug07G0065200
rosa_samantha	Rh1BG288500 Rh1CG305200 Rh1DG320100 Rh2CG069200 Rh7AG191700 Rh7BG194000 Rh7DG197000
rosa_wichuraiana	Rw1G029000 Rw5G028070 Rw7G016820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	2 cut(s)	11, 200
AccB1I	GGYRCC	2 cut(s)	11, 200
AccI	GTMKAC	1 cut(s)	550
AciI	CCGC	3 cut(s)	198, 324, 483
AcoI	YGGCCR	4 cut(s)	18, 234, 456, 532
AcsI	RAATTY	1 cut(s)	499
AfaI	GTAC	3 cut(s)	13, 202, 538
AgsI	TTSAA	4 cut(s)	55, 164, 227, 510
AhdI	GACNNNNNGTC	1 cut(s)	43
AluBI	AGCT	6 cut(s)	28, 112, 160, 271, 331, 364
AluI	AGCT	6 cut(s)	28, 112, 160, 271, 331, 364
Alw21I	GWGCWC	3 cut(s)	114, 273, 333
AoxI	GGCC	4 cut(s)	18, 234, 456, 532
ApeKI	GCWGC	1 cut(s)	480
ApoI	RAATTY	1 cut(s)	499
Asp700I	GAANNNNTTC	2 cut(s)	159, 282
Asp718I	GGTACC	2 cut(s)	11, 200
AspLEI	GCGC	1 cut(s)	129
AspS9I	GGNCC	1 cut(s)	301
AsuHPI	GGTGA	1 cut(s)	395
AvaII	GGWCC	1 cut(s)	301
BaeGI	GKGCMC	2 cut(s)	254, 489
BalI	TGGCCA	2 cut(s)	236, 458
BanI	GGYRCC	2 cut(s)	11, 200
BanII	GRGCYC	3 cut(s)	114, 273, 333
Bbv12I	GWGCWC	3 cut(s)	114, 273, 333
BbvI	GCAGC	1 cut(s)	492
BccI	CCATC	6 cut(s)	83, 104, 185, 226, 382, 410
BceAI	ACGGC	3 cut(s)	100, 519, 547
BcgI	CGANNNNNNTGC	2 cut(s)	167, 201
BclI	TGATCA	1 cut(s)	171
BfmI	CTRYAG	1 cut(s)	571
BisI	GCNGC	2 cut(s)	324, 481
BlsI	GCNGC	2 cut(s)	325, 482
Bme18I	GGWCC	1 cut(s)	301
BmeRI	GACNNNNNGTC	1 cut(s)	43
BmgT120I	GGNCC	1 cut(s)	301
BmiI	GGNNCC	3 cut(s)	13, 94, 202
BmsI	GCATC	2 cut(s)	114, 175
BpuEI	CTTGAG	1 cut(s)	257
BsaJI	CCNNGG	2 cut(s)	15, 204
BseDI	CCNNGG	2 cut(s)	15, 204
BseRI	GAGGAG	2 cut(s)	281, 449
BseSI	GKGCMC	2 cut(s)	254, 489
BseX3I	CGGCCG	1 cut(s)	532
BseXI	GCAGC	1 cut(s)	492
Bsh1285I	CGRYCG	2 cut(s)	150, 535
BshFI	GGCC	4 cut(s)	20, 236, 458, 534
BshNI	GGYRCC	2 cut(s)	11, 200
BsiEI	CGRYCG	2 cut(s)	150, 535
BsiHKAI	GWGCWC	3 cut(s)	114, 273, 333
BsiSI	CCGG	1 cut(s)	475
BslFI	GGGAC	1 cut(s)	16
BsmFI	GGGAC	1 cut(s)	16
BsmI	GAATGC	1 cut(s)	215
BsnI	GGCC	4 cut(s)	20, 236, 458, 534
Bsp1286I	GDGCHC	5 cut(s)	114, 254, 273, 333, 489
Bsp143I	GATC	2 cut(s)	22, 171
Bsp19I	CCATGG	2 cut(s)	15, 204
BspACI	CCGC	3 cut(s)	198, 324, 483
BspANI	GGCC	4 cut(s)	20, 236, 458, 534
BspLI	GGNNCC	3 cut(s)	13, 94, 202
BspQI	GCTCTTC	1 cut(s)	150
BspT107I	GGYRCC	2 cut(s)	11, 200
BssECI	CCNNGG	2 cut(s)	15, 204
BssMI	GATC	2 cut(s)	22, 171
BssNAI	GTATAC	1 cut(s)	551
BssT1I	CCWWGG	2 cut(s)	15, 204
Bst1107I	GTATAC	1 cut(s)	551
Bst4CI	ACNGT	2 cut(s)	121, 491
Bst6I	CTCTTC	1 cut(s)	150
BstC8I	GCNNGC	1 cut(s)	485
BstDEI	CTNAG	1 cut(s)	525
BstDSI	CCRYGG	2 cut(s)	15, 204
BstHHI	GCGC	1 cut(s)	129
BstKTI	GATC	2 cut(s)	25, 174
BstMBI	GATC	2 cut(s)	22, 171
BstMCI	CGRYCG	2 cut(s)	150, 535
BstMWI	GCNNNNNNNGC	1 cut(s)	480
BstSFI	CTRYAG	1 cut(s)	571
BstSLI	GKGCMC	2 cut(s)	254, 489
BstV1I	GCAGC	1 cut(s)	492
BstZ17I	GTATAC	1 cut(s)	551
BstZI	CGGCCG	1 cut(s)	532
BsuRI	GGCC	4 cut(s)	20, 236, 458, 534
BtgI	CCRYGG	2 cut(s)	15, 204
BtgZI	GCGATG	1 cut(s)	102
BtsIMutI	CAGTG	2 cut(s)	117, 252
Cac8I	GCNNGC	1 cut(s)	485
CfoI	GCGC	1 cut(s)	129
Cfr13I	GGNCC	1 cut(s)	301
Csp6I	GTAC	3 cut(s)	12, 201, 537
CviAII	CATG	4 cut(s)	16, 205, 338, 496
CviQI	GTAC	3 cut(s)	12, 201, 537
DdeI	CTNAG	1 cut(s)	525
DpnI	GATC	2 cut(s)	24, 173
DpnII	GATC	2 cut(s)	22, 171
DriI	GACNNNNNGTC	1 cut(s)	43
EaeI	YGGCCR	4 cut(s)	18, 234, 456, 532
EagI	CGGCCG	1 cut(s)	532
Eam1104I	CTCTTC	1 cut(s)	150
Eam1105I	GACNNNNNGTC	1 cut(s)	43
EarI	CTCTTC	1 cut(s)	150
Ecl136II	GAGCTC	3 cut(s)	112, 271, 331
EclXI	CGGCCG	1 cut(s)	532
Eco130I	CCWWGG	2 cut(s)	15, 204
Eco24I	GRGCYC	3 cut(s)	114, 273, 333
Eco47I	GGWCC	1 cut(s)	301
Eco52I	CGGCCG	1 cut(s)	532
Eco53kI	GAGCTC	3 cut(s)	112, 271, 331
EcoICRI	GAGCTC	3 cut(s)	112, 271, 331
EcoRI	GAATTC	1 cut(s)	499
EcoT14I	CCWWGG	2 cut(s)	15, 204
EcoT38I	GRGCYC	3 cut(s)	114, 273, 333
ErhI	CCWWGG	2 cut(s)	15, 204
FaeI	CATG	4 cut(s)	19, 208, 341, 499
FaiI	YATR	9 cut(s)	17, 170, 206, 339, 432, 452, 497, 551, 561
FalI	AAGNNNNNCTT	4 cut(s)	144, 176, 207, 239
FaqI	GGGAC	1 cut(s)	16
FatI	CATG	4 cut(s)	15, 204, 337, 495
FauI	CCCGC	1 cut(s)	476
FbaI	TGATCA	1 cut(s)	171
FblI	GTMKAC	1 cut(s)	550
Fnu4HI	GCNGC	2 cut(s)	324, 481
FriOI	GRGCYC	3 cut(s)	114, 273, 333
Fsp4HI	GCNGC	2 cut(s)	324, 481
GlaI	GCGC	1 cut(s)	128
GluI	GCNGC	2 cut(s)	324, 481
HaeIII	GGCC	4 cut(s)	20, 236, 458, 534
HapII	CCGG	1 cut(s)	475
HhaI	GCGC	1 cut(s)	129
Hin1II	CATG	4 cut(s)	19, 208, 341, 499
Hin6I	GCGC	1 cut(s)	127
HinP1I	GCGC	1 cut(s)	127
HinfI	GANTC	2 cut(s)	257, 349
HpaII	CCGG	1 cut(s)	475
HphI	GGTGA	1 cut(s)	395
Hpy166II	GTNNAC	1 cut(s)	551
Hpy188I	TCNGA	1 cut(s)	262
Hpy188III	TCNNGA	2 cut(s)	164, 343
Hpy8I	GTNNAC	1 cut(s)	551
HpyCH4III	ACNGT	2 cut(s)	121, 491
HpyCH4IV	ACGT	1 cut(s)	7
HpyCH4V	TGCA	1 cut(s)	4
HpyF10VI	GCNNNNNNNGC	1 cut(s)	480
HpyF3I	CTNAG	1 cut(s)	525
HpySE526I	ACGT	1 cut(s)	7
Hsp92II	CATG	4 cut(s)	19, 208, 341, 499
HspAI	GCGC	1 cut(s)	127
KpnI	GGTACC	2 cut(s)	15, 204
Ksp22I	TGATCA	1 cut(s)	171
Kzo9I	GATC	2 cut(s)	22, 171
LguI	GCTCTTC	1 cut(s)	150
LmnI	GCTCC	4 cut(s)	98, 268, 336, 477
LpnPI	CCDG	4 cut(s)	53, 317, 356, 488
Lsp1109I	GCAGC	1 cut(s)	492
LweI	GCATC	2 cut(s)	114, 175
MaeII	ACGT	1 cut(s)	7
MaeIII	GTNAC	1 cut(s)	491
MalI	GATC	2 cut(s)	24, 173
MboI	GATC	2 cut(s)	22, 171
MboII	GAAGA	4 cut(s)	164, 167, 495, 498
MhlI	GDGCHC	5 cut(s)	114, 254, 273, 333, 489
MlsI	TGGCCA	2 cut(s)	236, 458
MluCI	AATT	2 cut(s)	378, 499
MluNI	TGGCCA	2 cut(s)	236, 458
MnlI	CCTC	7 cut(s)	52, 172, 259, 367, 391, 427, 458
Mox20I	TGGCCA	2 cut(s)	236, 458
MroXI	GAANNNNTTC	2 cut(s)	159, 282
MscI	TGGCCA	2 cut(s)	236, 458
MseI	TTAA	1 cut(s)	246
MslI	CAYNNNNRTG	1 cut(s)	122
Msp20I	TGGCCA	2 cut(s)	236, 458
MspA1I	CMGCKG	2 cut(s)	28, 483
MspI	CCGG	1 cut(s)	475
Mva1269I	GAATGC	1 cut(s)	215
MwoI	GCNNNNNNNGC	1 cut(s)	480
NcoI	CCATGG	2 cut(s)	15, 204
NdeII	GATC	2 cut(s)	22, 171
NlaIII	CATG	4 cut(s)	19, 208, 341, 499
NlaIV	GGNNCC	3 cut(s)	13, 94, 202
NmeAIII	GCCGAG	3 cut(s)	93, 333, 352
PciSI	GCTCTTC	1 cut(s)	150
PctI	GAATGC	1 cut(s)	215
PdmI	GAANNNNTTC	2 cut(s)	159, 282
PfeI	GAWTC	2 cut(s)	257, 349
PkrI	GCNGC	2 cut(s)	325, 482
Psp124BI	GAGCTC	3 cut(s)	114, 273, 333
PspN4I	GGNNCC	3 cut(s)	13, 94, 202
PspPI	GGNCC	1 cut(s)	301
PvuII	CAGCTG	1 cut(s)	28
RsaI	GTAC	3 cut(s)	13, 202, 538
RsaNI	GTAC	3 cut(s)	12, 201, 537
RseI	CAYNNNNRTG	1 cut(s)	122
SacI	GAGCTC	3 cut(s)	114, 273, 333
SapI	GCTCTTC	1 cut(s)	150
SaqAI	TTAA	1 cut(s)	246
SatI	GCNGC	2 cut(s)	324, 481
Sau3AI	GATC	2 cut(s)	22, 171
Sau96I	GGNCC	1 cut(s)	301
SduI	GDGCHC	5 cut(s)	114, 254, 273, 333, 489
SetI	ASST	8 cut(s)	10, 30, 114, 162, 183, 273, 333, 366
SfaNI	GCATC	2 cut(s)	114, 175
SfcI	CTRYAG	1 cut(s)	571
SinI	GGWCC	1 cut(s)	301
SmiMI	CAYNNNNRTG	1 cut(s)	122
SmlI	CTYRAG	1 cut(s)	272
SmoI	CTYRAG	1 cut(s)	272
Sse9I	AATT	2 cut(s)	378, 499
SsiI	CCGC	3 cut(s)	198, 324, 483
SstI	GAGCTC	3 cut(s)	114, 273, 333
StyI	CCWWGG	2 cut(s)	15, 204
TaaI	ACNGT	2 cut(s)	121, 491
TaiI	ACGT	1 cut(s)	10
TaqI	TCGA	1 cut(s)	75
TaqII	GACCGA	1 cut(s)	164
TasI	AATT	2 cut(s)	378, 499
TauI	GCSGC	1 cut(s)	326
TfiI	GAWTC	2 cut(s)	257, 349
Tru1I	TTAA	1 cut(s)	246
Tru9I	TTAA	1 cut(s)	246
TscAI	CASTG	2 cut(s)	124, 259
TseI	GCWGC	1 cut(s)	480
TspDTI	ATGAA	1 cut(s)	512
TspGWI	ACGGA	1 cut(s)	323
TspRI	CASTG	2 cut(s)	124, 259
VpaK11BI	GGWCC	1 cut(s)	301
XapI	RAATTY	1 cut(s)	499
XmiI	GTMKAC	1 cut(s)	550
XmnI	GAANNNNTTC	2 cut(s)	159, 282

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