Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001285

Physical Location & Seq

Genomic Coordinates Reverse (-)

3370539 .. 3374233

Gene Structure 3695 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00002820.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

ATGGACTTCGGCGGTGGTCGCAAGCGAGGCAGGCACGAAGCGGCGTCGTTTAACGGCAATGGCGGCTTCAAGAAATCCAAGCCAGAAATGGAGTCCTTTTCAACTGGTATAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGCACTTCTGGTTGCCCTTTTGGAGAGGGATGTCACTTCTTGCATTATGTTCCTGGTGGCGTCAAAGCTGTATCTCAGATGACTGGTAGCAACCCAACTCATCCACCTCCTCCCAGACATTCAGCAGCCCCACCATCATTTCCAGATGGTTCTTCTCCACCAGCTGTCAAGACACGGTTATGCAACAAATACAACACAGCTGAAGGTTGCAAGTTTGGAGATAAATGTCATTTTGCTCACGGTGAATATGAGCTTGGGAGGCCCACTGCTCAATCTTATGATGATCCTCGTGGTGGGGGAGCAATGCATGGAAGGATGGGAGGTCGGAATGAGCCTCCCCCACCAAGTCATGGAGGTGCAGGTAGATTTGGGGCCATTGCCAATGCTAAGATTAGTATTTGTCGTGTGACTGGAGCAAAGCTTTCTATAAGAGAGCATGAGTCAGATCCGAAGCTGAGGAACATTGAGCTTGAGGGTACTTTTGATCAGATTAAAGATGCCAGTGCCATGGTTCAAGATATTATTGTGAACGTGAGCTCAGCTGCTGGACCTCACATGAGAAATCCTTCTATGGGGGCTTCTCAAGGAAGTAGTAACTTCAAGACTAAGCTTTGCGAGAATTTTACTAAAGGTCAATGCACATTTGGTGACAGGTGCCACTTTGCACATGGGGCTGAAGAATTGCGCAGGGGAGGGATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

KH_1 zf-CCCH zf-CCCH_2

Protein Analysis

281

Amino Acids

29.86

Weight (kDa)

9.26

Isoelectric Point (pI)

41.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	105 - 130	2.1e-06	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	248 - 272	2.4e-08	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	251 - 271	1.4e-06	CCCH-type zinc finger

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

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

Orthologous Genes (Group: OG0001285)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G12130 AT3G12130 AT5G06770 AT5G06770 AT5G06770 AT5G06770 AT5G06770 AT5G06770
fragaria_vesca	FvH4_3g44210 FvH4_3g44210 FvH4_3g44210 FvH4_3g44210 FvH4_6g22430 FvH4_6g22430 FvH4_6g22430 FvH4_6g22430
malus_domestica	MD00G1203400.v1.1 MD00G1203500.v1.1 MD03G1016300.v1.1 MD11G1017100.v1.1 MD12G1059600.v1.1 MD14G1058500.v1.1
prunus_persica	Prupe.6G014800_v2.0.a1 Prupe.6G014800_v2.0.a1 Prupe.7G076300_v2.0.a1 Prupe.7G076300_v2.0.a1
pyrus_communis	pycom03g01400 pycom11g01200 pycom12g05140 pycom14g04730
rosa_chinensis	RchiOBHm_Chr3g0479791 RchiOBHm_Chr5g0080561
rosa_laevigata	RLG00000023536 RLG00000036868
rosa_multiflora	Rmu_co8493965.1_g000001 Rmu_sc0000359.1_g000003 Rmu_sc0004329.1_g000008
rosa_roxburghii	Rroxscaffold_1G00002820 Rroxscaffold_6G00401970
rosa_rugosa	Rorug03G0178900 Rorug03G0179000 Rorug05G0470100 Rorug05G0470200
rosa_samantha	Rh3AG229200 Rh3BG262400 Rh3CG259200 Rh3DG255400 Rh5AG523600 Rh5BG545700 Rh5CG568900 Rh5DG555800
rosa_wichuraiana	Rw0G002260 Rw0G015290 Rw0G019210 Rw5G048590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	830
Acc36I	ACCTGC	1 cut(s)	494
AccB1I	GGYRCC	1 cut(s)	798
AccB7I	CCANNNNNTGG	1 cut(s)	494
AciI	CCGC	3 cut(s)	12, 41, 63
AclWI	GGATC	2 cut(s)	422, 584
AcsI	RAATTY	1 cut(s)	763
AcuI	CTGAAG	2 cut(s)	366, 840
AcyI	GRCGYC	2 cut(s)	44, 204
AfaI	GTAC	1 cut(s)	622
AfiI	CCNNNNNNNGG	3 cut(s)	437, 494, 716
AgsI	TTSAA	4 cut(s)	70, 102, 659, 745
AjnI	CCWGG	1 cut(s)	196
AjuI	GAANNNNNNNTTGG	2 cut(s)	381, 413
Alw21I	GWGCWC	1 cut(s)	683
AlwI	GGATC	2 cut(s)	422, 584
AlwNI	CAGNNNCTG	1 cut(s)	689
AoxI	GGCC	2 cut(s)	404, 516
ApeKI	GCWGC	2 cut(s)	269, 686
ApoI	RAATTY	1 cut(s)	763
Asp700I	GAANNNNTTC	1 cut(s)	709
AspLEI	GCGC	1 cut(s)	831
AspS9I	GGNCC	3 cut(s)	405, 516, 692
AsuHPI	GGTGA	2 cut(s)	398, 803
AvaII	GGWCC	1 cut(s)	692
BanI	GGYRCC	1 cut(s)	798
BanII	GRGCYC	1 cut(s)	683
BauI	CACGAG	1 cut(s)	432
Bbv12I	GWGCWC	1 cut(s)	683
BbvCI	CCTCAGC	1 cut(s)	599
BbvI	GCAGC	2 cut(s)	281, 673
BccI	CCATC	3 cut(s)	284, 286, 454
BceAI	ACGGC	1 cut(s)	70
BciT130I	CCWGG	1 cut(s)	198
BclI	TGATCA	1 cut(s)	628
BfuAI	ACCTGC	1 cut(s)	494
BisI	GCNGC	4 cut(s)	42, 64, 270, 687
BlpI	GCTNAGC	1 cut(s)	682
BlsI	GCNGC	4 cut(s)	43, 65, 271, 688
Bme1390I	CCNGG	1 cut(s)	198
Bme18I	GGWCC	1 cut(s)	692
BmgT120I	GGNCC	3 cut(s)	405, 516, 692
BmiI	GGNNCC	2 cut(s)	517, 800
BmrFI	CCNGG	1 cut(s)	198
BmsI	GCATC	1 cut(s)	631
BpmI	CTGGAG	1 cut(s)	576
Bpu10I	CCTNAGC	1 cut(s)	599
Bpu1102I	GCTNAGC	1 cut(s)	682
BpuEI	CTTGAG	2 cut(s)	635, 711
BsaHI	GRCGYC	2 cut(s)	44, 204
BsaJI	CCNNGG	1 cut(s)	651
Bsc4I	CCNNNNNNNGG	3 cut(s)	437, 494, 716
Bse1I	ACTGG	4 cut(s)	109, 232, 559, 645
Bse3DI	GCAATG	3 cut(s)	64, 453, 519
BseBI	CCWGG	1 cut(s)	198
BseDI	CCNNGG	1 cut(s)	651
BseGI	GGATG	4 cut(s)	179, 244, 465, 846
BseLI	CCNNNNNNNGG	3 cut(s)	437, 494, 716
BseMI	GCAATG	3 cut(s)	64, 453, 519
BseMII	CTCAG	3 cut(s)	233, 590, 696
BseNI	ACTGG	4 cut(s)	109, 232, 559, 645
BseRI	GAGGAG	1 cut(s)	243
BseXI	GCAGC	2 cut(s)	281, 673
BsgI	GTGCAG	1 cut(s)	522
BshFI	GGCC	2 cut(s)	406, 518
BshNI	GGYRCC	1 cut(s)	798
BsiHKAI	GWGCWC	1 cut(s)	683
BslI	CCNNNNNNNGG	3 cut(s)	437, 494, 716
BsnI	GGCC	2 cut(s)	406, 518
Bsp1286I	GDGCHC	1 cut(s)	683
Bsp143I	GATC	3 cut(s)	427, 589, 628
Bsp1720I	GCTNAGC	1 cut(s)	682
Bsp19I	CCATGG	1 cut(s)	651
BspACI	CCGC	3 cut(s)	12, 41, 63
BspANI	GGCC	2 cut(s)	406, 518
BspCNI	CTCAG	3 cut(s)	232, 591, 695
BspLI	GGNNCC	2 cut(s)	517, 800
BspMI	ACCTGC	1 cut(s)	494
BspPI	GGATC	2 cut(s)	422, 584
BspT107I	GGYRCC	1 cut(s)	798
BsrDI	GCAATG	3 cut(s)	64, 453, 519
BsrI	ACTGG	4 cut(s)	109, 232, 559, 645
BssECI	CCNNGG	1 cut(s)	651
BssMI	GATC	3 cut(s)	427, 589, 628
BssNI	GRCGYC	2 cut(s)	44, 204
BssSI	CACGAG	1 cut(s)	432
BssT1I	CCWWGG	1 cut(s)	651
Bst2BI	CACGAG	1 cut(s)	432
Bst2UI	CCWGG	1 cut(s)	198
Bst4CI	ACNGT	2 cut(s)	321, 386
BstACI	GRCGYC	2 cut(s)	44, 204
BstC8I	GCNNGC	2 cut(s)	23, 32
BstDEI	CTNAG	5 cut(s)	219, 531, 599, 682, 750
BstDSI	CCRYGG	1 cut(s)	651
BstF5I	GGATG	4 cut(s)	179, 244, 465, 846
BstHHI	GCGC	1 cut(s)	831
BstKTI	GATC	3 cut(s)	430, 592, 631
BstMBI	GATC	3 cut(s)	427, 589, 628
BstMWI	GCNNNNNNNGC	6 cut(s)	18, 27, 31, 63, 403, 815
BstNI	CCWGG	1 cut(s)	198
BstSCI	CCNGG	1 cut(s)	196
BstV1I	GCAGC	2 cut(s)	281, 673
BstX2I	RGATCY	1 cut(s)	589
BstXI	CCANNNNNNTGG	1 cut(s)	652
BstYI	RGATCY	1 cut(s)	589
BsuRI	GGCC	2 cut(s)	406, 518
BtgI	CCRYGG	1 cut(s)	651
BtsCI	GGATG	4 cut(s)	179, 244, 465, 846
BtsI	GCAGTG	1 cut(s)	408
BtsIMutI	CAGTG	2 cut(s)	408, 652
BveI	ACCTGC	1 cut(s)	494
Cac8I	GCNNGC	2 cut(s)	23, 32
CaiI	CAGNNNCTG	1 cut(s)	689
CfoI	GCGC	1 cut(s)	831
Cfr13I	GGNCC	3 cut(s)	405, 516, 692
CseI	GACGC	2 cut(s)	33, 193
Csp6I	GTAC	1 cut(s)	621
CviAII	CATG	7 cut(s)	129, 452, 494, 581, 652, 700, 812
CviQI	GTAC	1 cut(s)	621
DdeI	CTNAG	5 cut(s)	219, 531, 599, 682, 750
DpnI	GATC	3 cut(s)	429, 591, 630
DpnII	GATC	3 cut(s)	427, 589, 628
Ecl136II	GAGCTC	1 cut(s)	681
Eco130I	CCWWGG	1 cut(s)	651
Eco24I	GRGCYC	1 cut(s)	683
Eco47I	GGWCC	1 cut(s)	692
Eco53kI	GAGCTC	1 cut(s)	681
Eco57I	CTGAAG	2 cut(s)	366, 840
EcoICRI	GAGCTC	1 cut(s)	681
EcoRII	CCWGG	1 cut(s)	196
EcoT14I	CCWWGG	1 cut(s)	651
EcoT22I	ATGCAT	1 cut(s)	453
EcoT38I	GRGCYC	1 cut(s)	683
ErhI	CCWWGG	1 cut(s)	651
FaeI	CATG	7 cut(s)	132, 455, 497, 584, 655, 703, 815
FatI	CATG	7 cut(s)	128, 451, 493, 580, 651, 699, 811
FbaI	TGATCA	1 cut(s)	628
Fnu4HI	GCNGC	4 cut(s)	42, 64, 270, 687
FokI	GGATG	3 cut(s)	186, 231, 472
FriOI	GRGCYC	1 cut(s)	683
Fsp4HI	GCNGC	4 cut(s)	42, 64, 270, 687
FspI	TGCGCA	1 cut(s)	830
GlaI	GCGC	1 cut(s)	830
GluI	GCNGC	4 cut(s)	42, 64, 270, 687
GsuI	CTGGAG	1 cut(s)	576
HaeIII	GGCC	2 cut(s)	406, 518
HgaI	GACGC	2 cut(s)	33, 193
HhaI	GCGC	1 cut(s)	831
Hin1I	GRCGYC	2 cut(s)	44, 204
Hin1II	CATG	7 cut(s)	132, 455, 497, 584, 655, 703, 815
Hin6I	GCGC	1 cut(s)	829
HinP1I	GCGC	1 cut(s)	829
HindIII	AAGCTT	2 cut(s)	563, 752
HinfI	GANTC	2 cut(s)	92, 584
HphI	GGTGA	2 cut(s)	398, 803
Hpy166II	GTNNAC	1 cut(s)	673
Hpy188I	TCNGA	5 cut(s)	222, 471, 589, 594, 633
Hpy188III	TCNNGA	5 cut(s)	70, 287, 313, 659, 745
Hpy8I	GTNNAC	1 cut(s)	673
Hpy99I	CGWCG	1 cut(s)	49
HpyAV	CCTTC	3 cut(s)	341, 450, 720
HpyCH4III	ACNGT	2 cut(s)	321, 386
HpyCH4IV	ACGT	1 cut(s)	675
HpyCH4V	TGCA	8 cut(s)	132, 187, 327, 354, 451, 503, 783, 809
HpyF10VI	GCNNNNNNNGC	6 cut(s)	18, 27, 31, 63, 403, 815
HpyF3I	CTNAG	5 cut(s)	219, 531, 599, 682, 750
HpySE526I	ACGT	1 cut(s)	675
Hsp92I	GRCGYC	2 cut(s)	44, 204
Hsp92II	CATG	7 cut(s)	132, 455, 497, 584, 655, 703, 815
HspAI	GCGC	1 cut(s)	829
Ksp22I	TGATCA	1 cut(s)	628
Kzo9I	GATC	3 cut(s)	427, 589, 628
LmnI	GCTCC	2 cut(s)	443, 557
Lsp1109I	GCAGC	2 cut(s)	281, 673
LweI	GCATC	1 cut(s)	631
MaeII	ACGT	1 cut(s)	675
MaeIII	GTNAC	4 cut(s)	176, 550, 737, 791
MalI	GATC	3 cut(s)	429, 591, 630
MboI	GATC	3 cut(s)	427, 589, 628
MboII	GAAGA	2 cut(s)	288, 833
MflI	RGATCY	1 cut(s)	589
MhlI	GDGCHC	1 cut(s)	683
MluCI	AATT	2 cut(s)	763, 824
MlyI	GAGTC	2 cut(s)	101, 593
MmeI	TCCRAC	1 cut(s)	449
Mph1103I	ATGCAT	1 cut(s)	453
MroXI	GAANNNNTTC	1 cut(s)	709
MseI	TTAA	2 cut(s)	51, 636
MslI	CAYNNNNRTG	2 cut(s)	322, 498
MspA1I	CMGCKG	3 cut(s)	308, 344, 686
MspR9I	CCNGG	1 cut(s)	198
MvaI	CCWGG	1 cut(s)	198
MwoI	GCNNNNNNNGC	6 cut(s)	18, 27, 31, 63, 403, 815
NcoI	CCATGG	1 cut(s)	651
NdeII	GATC	3 cut(s)	427, 589, 628
NlaIII	CATG	7 cut(s)	132, 455, 497, 584, 655, 703, 815
NlaIV	GGNNCC	2 cut(s)	517, 800
NmuCI	GTSAC	3 cut(s)	176, 550, 791
NsbI	TGCGCA	1 cut(s)	830
NsiI	ATGCAT	1 cut(s)	453
PdmI	GAANNNNTTC	1 cut(s)	709
PflMI	CCANNNNNTGG	1 cut(s)	494
PkrI	GCNGC	4 cut(s)	43, 65, 271, 688
PleI	GAGTC	2 cut(s)	100, 592
PpsI	GAGTC	2 cut(s)	100, 592
Psp124BI	GAGCTC	1 cut(s)	683
Psp6I	CCWGG	1 cut(s)	196
PspGI	CCWGG	1 cut(s)	196
PspN4I	GGNNCC	2 cut(s)	517, 800
PspPI	GGNCC	3 cut(s)	405, 516, 692
PstNI	CAGNNNCTG	1 cut(s)	689
PsuI	RGATCY	1 cut(s)	589
PvuII	CAGCTG	3 cut(s)	308, 344, 686
RsaI	GTAC	1 cut(s)	622
RsaNI	GTAC	1 cut(s)	621
RseI	CAYNNNNRTG	2 cut(s)	322, 498
SacI	GAGCTC	1 cut(s)	683
SaqAI	TTAA	2 cut(s)	51, 636
SatI	GCNGC	4 cut(s)	42, 64, 270, 687
Sau3AI	GATC	3 cut(s)	427, 589, 628
Sau96I	GGNCC	3 cut(s)	405, 516, 692
SchI	GAGTC	2 cut(s)	101, 593
ScrFI	CCNGG	1 cut(s)	198
SduI	GDGCHC	1 cut(s)	683
SfaNI	GCATC	1 cut(s)	631
SinI	GGWCC	1 cut(s)	692
SmiMI	CAYNNNNRTG	2 cut(s)	322, 498
SmlI	CTYRAG	2 cut(s)	614, 726
SmoI	CTYRAG	2 cut(s)	614, 726
Sse9I	AATT	2 cut(s)	763, 824
SsiI	CCGC	3 cut(s)	12, 41, 63
SstI	GAGCTC	1 cut(s)	683
StyD4I	CCNGG	1 cut(s)	196
StyI	CCWWGG	1 cut(s)	651
TaaI	ACNGT	2 cut(s)	321, 386
TaiI	ACGT	1 cut(s)	678
TaqI	TCGA	1 cut(s)	122
TasI	AATT	2 cut(s)	763, 824
TauI	GCSGC	2 cut(s)	44, 66
Tru1I	TTAA	2 cut(s)	51, 636
Tru9I	TTAA	2 cut(s)	51, 636
TscAI	CASTG	2 cut(s)	415, 652
TseFI	GTSAC	3 cut(s)	176, 550, 791
TseI	GCWGC	2 cut(s)	269, 686
Tsp45I	GTSAC	3 cut(s)	176, 550, 791
TspRI	CASTG	2 cut(s)	415, 652
Van91I	CCANNNNNTGG	1 cut(s)	494
VpaK11BI	GGWCC	1 cut(s)	692
XapI	RAATTY	1 cut(s)	763
XcmI	CCANNNNNNNNNTGG	2 cut(s)	85, 809
XmnI	GAANNNNTTC	1 cut(s)	709
Zsp2I	ATGCAT	1 cut(s)	453

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