Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0003424

Physical Location & Seq

Genomic Coordinates Forward (+)

21804516 .. 21806529

Gene Structure 2014 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00399790.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 477 bp

ATGGCGAGATGTGATTGTTCGATAGCGCTCAAGAGCTCCGGAGAGATACTAGCTCCGATTTCAAGCTCTCTGTCGTCCTTGAATATCTTGAATGCTCGCCAGAACTGCAGTTCGCGGTATAAATGGGAGATGAAACCCCAGCGGGTGTCTTCACCCCTGAAACTCAAGAAGACGTCGAATTTCCAACGGGGAGGTGATTCATCCCAAGCAAGAGATGGGGAGGCTCGAAATATTCCTTTCCAGTCGTGGAAAGATCGAAATCTTAGTACAGCGTGTTTCTGGAATTTCAAGATGCCAGACATTGCAGGAAGGGTCTGCATGCCCCCAGACAATCGGGTACACAGTAGTGTTTCCCTTCAAATTCATGGTATATGGCAGAGTACAATTGGGTACGGTCCCTATGCACCTCAGCTGCATTTGTCAAACTCAAAACCAGATGCTGAGAATGCATATGCTAGCTACCAAGCCCTTCTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCHC_3

Protein Analysis

158

Amino Acids

17.58

Weight (kDa)

9.48

Isoelectric Point (pI)

60.41

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0003424)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28910 AT2G28910 AT2G28910
fragaria_vesca	FvH4_3g36111 FvH4_3g36111
malus_domestica	MD03G1093300.v1.1 MD11G1107700.v1.1 MD11G1108100.v1.1
prunus_persica	Prupe.6G077300_v2.0.a1
pyrus_communis	pycom03g07480 pycom11g08930
rosa_chinensis	RchiOBHm_Chr5g0064541 RchiOBHm_Chr5g0064551 RchiOBHm_Chr5g0064811 RchiOBHm_Chr5g0064841
rosa_laevigata	RLG00000001342 RLG00000035732 RLG00000035734 RLG00000035736
rosa_roxburghii	Rroxscaffold_1G00016450 Rroxscaffold_1G00016480 Rroxscaffold_6G00399790 Rroxscaffold_6G00400120
rosa_rugosa	Rorug05G0366000 Rorug05G0366100 Rorug05G0366500
rosa_samantha	Rh3CG275300 Rh3DG272600 Rh5AG424000 Rh5BG439400 Rh5CG462000 Rh5CG462100 Rh5DG452700 Rh5DG452900
rosa_wichuraiana	Rw5G039860 Rw5G039880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	176
AccII	CGCG	1 cut(s)	115
AccIII	TCCGGA	1 cut(s)	38
AciI	CCGC	2 cut(s)	115, 142
AcsI	RAATTY	3 cut(s)	178, 283, 360
AcyI	GRCGYC	1 cut(s)	173
AfaI	GTAC	4 cut(s)	268, 339, 382, 392
AfeI	AGCGCT	1 cut(s)	27
AgsI	TTSAA	5 cut(s)	63, 82, 91, 289, 359
AleI	CACNNNNGTG	1 cut(s)	345
AluBI	AGCT	5 cut(s)	36, 53, 66, 412, 459
AluI	AGCT	5 cut(s)	36, 53, 66, 412, 459
Alw21I	GWGCWC	1 cut(s)	38
AlwNI	CAGNNNCTG	1 cut(s)	440
Aor13HI	TCCGGA	1 cut(s)	38
Aor51HI	AGCGCT	1 cut(s)	27
ApeKI	GCWGC	1 cut(s)	412
ApoI	RAATTY	3 cut(s)	178, 283, 360
AspLEI	GCGC	1 cut(s)	28
AspS9I	GGNCC	1 cut(s)	395
AsuHPI	GGTGA	2 cut(s)	144, 206
AsuNHI	GCTAGC	1 cut(s)	455
AvaII	GGWCC	1 cut(s)	395
BanII	GRGCYC	1 cut(s)	38
BbsI	GAAGAC	2 cut(s)	141, 176
Bbv12I	GWGCWC	1 cut(s)	38
BbvCI	CCTCAGC	1 cut(s)	408
BbvI	GCAGC	1 cut(s)	399
BccI	CCATC	1 cut(s)	209
BfaI	CTAG	2 cut(s)	50, 456
BfmI	CTRYAG	1 cut(s)	106
BfoI	RGCGCY	1 cut(s)	29
BisI	GCNGC	1 cut(s)	413
BlsI	GCNGC	1 cut(s)	414
Bme18I	GGWCC	1 cut(s)	395
BmgT120I	GGNCC	1 cut(s)	395
BmiI	GGNNCC	1 cut(s)	397
BmsI	GCATC	2 cut(s)	282, 427
BmtI	GCTAGC	1 cut(s)	459
BpiI	GAAGAC	2 cut(s)	141, 176
Bpu10I	CCTNAGC	1 cut(s)	408
BpuEI	CTTGAG	2 cut(s)	14, 149
BsaBI	GATNNNNATC	1 cut(s)	258
BsaHI	GRCGYC	1 cut(s)	173
BsaWI	WCCGGW	1 cut(s)	38
Bse1I	ACTGG	1 cut(s)	241
Bse3DI	GCAATG	1 cut(s)	300
Bse8I	GATNNNNATC	1 cut(s)	258
BseAI	TCCGGA	1 cut(s)	38
BseGI	GGATG	1 cut(s)	200
BseJI	GATNNNNATC	1 cut(s)	258
BseMI	GCAATG	1 cut(s)	300
BseMII	CTCAG	2 cut(s)	422, 432
BseNI	ACTGG	1 cut(s)	241
BseXI	GCAGC	1 cut(s)	399
BseYI	CCCAGC	1 cut(s)	138
Bsh1236I	CGCG	1 cut(s)	115
BsiHKAI	GWGCWC	1 cut(s)	38
BsiSI	CCGG	1 cut(s)	39
BslFI	GGGAC	1 cut(s)	381
BsmFI	GGGAC	1 cut(s)	381
BsmI	GAATGC	2 cut(s)	97, 451
Bsp1286I	GDGCHC	1 cut(s)	38
Bsp13I	TCCGGA	1 cut(s)	38
Bsp143I	GATC	1 cut(s)	253
BspACI	CCGC	2 cut(s)	115, 142
BspCNI	CTCAG	2 cut(s)	421, 433
BspEI	TCCGGA	1 cut(s)	38
BspFNI	CGCG	1 cut(s)	115
BspLI	GGNNCC	1 cut(s)	397
BspMAI	CTGCAG	1 cut(s)	110
BspOI	GCTAGC	1 cut(s)	459
BsrDI	GCAATG	1 cut(s)	300
BsrI	ACTGG	1 cut(s)	241
BssMI	GATC	1 cut(s)	253
BssNI	GRCGYC	1 cut(s)	173
Bst4CI	ACNGT	2 cut(s)	344, 395
BstACI	GRCGYC	1 cut(s)	173
BstC8I	GCNNGC	3 cut(s)	97, 320, 457
BstDEI	CTNAG	3 cut(s)	263, 408, 441
BstF5I	GGATG	1 cut(s)	200
BstFNI	CGCG	1 cut(s)	115
BstH2I	RGCGCY	1 cut(s)	29
BstHHI	GCGC	1 cut(s)	28
BstKTI	GATC	1 cut(s)	256
BstMBI	GATC	1 cut(s)	253
BstMWI	GCNNNNNNNGC	2 cut(s)	105, 446
BstNSI	RCATGY	1 cut(s)	322
BstSFI	CTRYAG	1 cut(s)	106
BstUI	CGCG	1 cut(s)	115
BstV1I	GCAGC	1 cut(s)	399
BstV2I	GAAGAC	2 cut(s)	141, 176
BtsCI	GGATG	1 cut(s)	200
Cac8I	GCNNGC	3 cut(s)	97, 320, 457
CaiI	CAGNNNCTG	1 cut(s)	440
CfoI	GCGC	1 cut(s)	28
Cfr13I	GGNCC	1 cut(s)	395
Csp6I	GTAC	4 cut(s)	267, 338, 381, 391
CviAII	CATG	2 cut(s)	319, 365
CviJI	RGCY	7 cut(s)	36, 53, 66, 224, 412, 459, 467
CviKI_1	RGCY	7 cut(s)	36, 53, 66, 224, 412, 459, 467
CviQI	GTAC	4 cut(s)	267, 338, 381, 391
DdeI	CTNAG	3 cut(s)	263, 408, 441
DpnI	GATC	1 cut(s)	255
DpnII	GATC	1 cut(s)	253
Ecl136II	GAGCTC	1 cut(s)	36
Eco24I	GRGCYC	1 cut(s)	38
Eco47I	GGWCC	1 cut(s)	395
Eco47III	AGCGCT	1 cut(s)	27
Eco53kI	GAGCTC	1 cut(s)	36
EcoICRI	GAGCTC	1 cut(s)	36
EcoT22I	ATGCAT	1 cut(s)	451
EcoT38I	GRGCYC	1 cut(s)	38
FaeI	CATG	2 cut(s)	322, 368
FaiI	YATR	8 cut(s)	120, 320, 366, 371, 373, 402, 451, 453
FaqI	GGGAC	1 cut(s)	381
FatI	CATG	2 cut(s)	318, 364
FauI	CCCGC	1 cut(s)	135
FauNDI	CATATG	1 cut(s)	451
Fnu4HI	GCNGC	1 cut(s)	413
FokI	GGATG	1 cut(s)	187
FriOI	GRGCYC	1 cut(s)	38
Fsp4HI	GCNGC	1 cut(s)	413
FspBI	CTAG	2 cut(s)	50, 456
GlaI	GCGC	1 cut(s)	27
GluI	GCNGC	1 cut(s)	413
GsaI	CCCAGC	1 cut(s)	142
HaeII	RGCGCY	1 cut(s)	29
HapII	CCGG	1 cut(s)	39
HhaI	GCGC	1 cut(s)	28
Hin1I	GRCGYC	1 cut(s)	173
Hin1II	CATG	2 cut(s)	322, 368
Hin6I	GCGC	1 cut(s)	26
HinP1I	GCGC	1 cut(s)	26
HinfI	GANTC	1 cut(s)	197
HpaII	CCGG	1 cut(s)	39
HphI	GGTGA	2 cut(s)	144, 206
Hpy166II	GTNNAC	1 cut(s)	340
Hpy188I	TCNGA	1 cut(s)	57
Hpy188III	TCNNGA	6 cut(s)	31, 39, 88, 166, 280, 289
Hpy8I	GTNNAC	1 cut(s)	340
Hpy99I	CGWCG	1 cut(s)	178
HpyAV	CCTTC	2 cut(s)	303, 365
HpyCH4III	ACNGT	2 cut(s)	344, 395
HpyCH4IV	ACGT	1 cut(s)	173
HpyCH4V	TGCA	6 cut(s)	108, 305, 318, 404, 415, 449
HpyF10VI	GCNNNNNNNGC	2 cut(s)	105, 446
HpyF3I	CTNAG	3 cut(s)	263, 408, 441
HpySE526I	ACGT	1 cut(s)	173
Hsp92I	GRCGYC	1 cut(s)	173
Hsp92II	CATG	2 cut(s)	322, 368
HspAI	GCGC	1 cut(s)	26
Kpn2I	TCCGGA	1 cut(s)	38
Kzo9I	GATC	1 cut(s)	253
LmnI	GCTCC	2 cut(s)	41, 58
Lsp1109I	GCAGC	1 cut(s)	399
LweI	GCATC	2 cut(s)	282, 427
MaeI	CTAG	2 cut(s)	50, 456
MaeII	ACGT	1 cut(s)	173
MalI	GATC	1 cut(s)	255
MboI	GATC	1 cut(s)	253
MboII	GAAGA	2 cut(s)	141, 181
MfeI	CAATTG	1 cut(s)	384
MhlI	GDGCHC	1 cut(s)	38
MluCI	AATT	4 cut(s)	178, 283, 360, 384
MmeI	TCCRAC	1 cut(s)	208
MnlI	CCTC	3 cut(s)	185, 214, 417
Mph1103I	ATGCAT	1 cut(s)	451
MroI	TCCGGA	1 cut(s)	38
MslI	CAYNNNNRTG	1 cut(s)	345
MspA1I	CMGCKG	2 cut(s)	142, 412
MspI	CCGG	1 cut(s)	39
MunI	CAATTG	1 cut(s)	384
Mva1269I	GAATGC	2 cut(s)	97, 451
MvnI	CGCG	1 cut(s)	115
MwoI	GCNNNNNNNGC	2 cut(s)	105, 446
NdeI	CATATG	1 cut(s)	451
NdeII	GATC	1 cut(s)	253
NheI	GCTAGC	1 cut(s)	455
NlaIII	CATG	2 cut(s)	322, 368
NlaIV	GGNNCC	1 cut(s)	397
NsiI	ATGCAT	1 cut(s)	451
NspI	RCATGY	1 cut(s)	322
OliI	CACNNNNGTG	1 cut(s)	345
PaeI	GCATGC	1 cut(s)	322
PctI	GAATGC	2 cut(s)	97, 451
PfeI	GAWTC	1 cut(s)	197
PkrI	GCNGC	1 cut(s)	414
Psp124BI	GAGCTC	1 cut(s)	38
PspFI	CCCAGC	1 cut(s)	138
PspN4I	GGNNCC	1 cut(s)	397
PspPI	GGNCC	1 cut(s)	395
PstI	CTGCAG	1 cut(s)	110
PstNI	CAGNNNCTG	1 cut(s)	440
PvuII	CAGCTG	1 cut(s)	412
RsaI	GTAC	4 cut(s)	268, 339, 382, 392
RsaNI	GTAC	4 cut(s)	267, 338, 381, 391
RseI	CAYNNNNRTG	1 cut(s)	345
SacI	GAGCTC	1 cut(s)	38
SatI	GCNGC	1 cut(s)	413
Sau3AI	GATC	1 cut(s)	253
Sau96I	GGNCC	1 cut(s)	395
SduI	GDGCHC	1 cut(s)	38
SetI	ASST	8 cut(s)	38, 55, 68, 176, 196, 409, 414, 461
SfaNI	GCATC	2 cut(s)	282, 427
SfcI	CTRYAG	1 cut(s)	106
SinI	GGWCC	1 cut(s)	395
SmiMI	CAYNNNNRTG	1 cut(s)	345
SmlI	CTYRAG	2 cut(s)	29, 164
SmoI	CTYRAG	2 cut(s)	29, 164
SphI	GCATGC	1 cut(s)	322
Sse9I	AATT	4 cut(s)	178, 283, 360, 384
SsiI	CCGC	2 cut(s)	115, 142
SspI	AATATT	1 cut(s)	232
SspMI	CTAG	2 cut(s)	50, 456
SstI	GAGCTC	1 cut(s)	38
TaaI	ACNGT	2 cut(s)	344, 395
TaiI	ACGT	1 cut(s)	176
TaqI	TCGA	4 cut(s)	20, 176, 226, 256
TasI	AATT	4 cut(s)	178, 283, 360, 384
TatI	WGTACW	2 cut(s)	266, 380
TfiI	GAWTC	1 cut(s)	197
TseI	GCWGC	1 cut(s)	412
TspDTI	ATGAA	3 cut(s)	146, 189, 353
VpaK11BI	GGWCC	1 cut(s)	395
XapI	RAATTY	3 cut(s)	178, 283, 360
XceI	RCATGY	1 cut(s)	322
XcmI	CCANNNNNNNNNTGG	1 cut(s)	212
XspI	CTAG	2 cut(s)	50, 456
ZraI	GACGTC	1 cut(s)	174
Zsp2I	ATGCAT	1 cut(s)	451

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