Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000153

Physical Location & Seq

Genomic Coordinates Forward (+)

9958762 .. 9961792

Gene Structure 3031 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00226450.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 513 bp

ATGAACTCGCCTTTTATAGCGGTGATAGACGGGGAGGATTTGCGCCAAGAACTAGAGGCTTTGAAAGGGTATTCTCGGTTTTGGTGGGATCATTCTAAAGCTTTCAGCTTTTGTTTTCCCCGTGAAACCAAAAGAGTGAAAGCTTGCTTTGGCTATGAGGGTGAAGACCGATGGCACGTTACGGGGTGGCCACAATGGGTTGACAATGAGCTAAAAGACGAGGCCACGAGAATTAGACTTTCGAGAGGCTCTTTGTTCTTTTCTTCCGTATTTATCTCTGCTCACCGTGATATTAACGGGGATGTGGAGTCTCTTCGTCATGTAGTTCGAAGATGGAATCCTCACACGCATACCTTTGTTTGCGAGTGGGGAGAGTTTACCACTACTTTGGAGGACGTCTTCAACATTATGAGGCTTCCCATTTACGGTTCGGTCAACCCCCTTGGTTTTGATTTTGACTCGGAGAAGTTGCGGGTTCTTGTAGAAGGGGCCTCCGGGTGTCAAAGGATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006338 GO:0006355 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008283 GO:0009719 GO:0009725 GO:0009733 GO:0009735 GO:0009736 GO:0009739 GO:0009755 GO:0009787 GO:0009788 GO:0009889 GO:0009890 GO:0009892 GO:0009966 GO:0009968 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0010646 GO:0010648 GO:0016043 GO:0019219 GO:0019222 GO:0022622 GO:0023051 GO:0023052 GO:0023057 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045892 GO:0045934 GO:0048364 GO:0048519 GO:0048523 GO:0048580 GO:0048583 GO:0048585 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051252 GO:0051253 GO:0051276 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0071840 GO:0080090 GO:0097159 GO:0099402 GO:1901363 GO:1901419 GO:1901420 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:1905957 GO:1905958 GO:2000023 GO:2000026 GO:2000069 GO:2000112 GO:2000113 GO:2000280 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko05165 ko05203 map05165 map05203

Pfam Domains

Protein Families

CHDCT2 Chromo DUF1086 DUF1087 Helicase_C PHD SNF2_N

Protein Analysis

170

Amino Acids

19.9

Weight (kDa)

5.87

Isoelectric Point (pI)

41.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PMD	PF10536	94 - 144	7.8e-10	Plant mobile domain

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

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Orthologous Genes (Group: OG0000153)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g25700 FvH4_2g11190 FvH4_2g11201 FvH4_2g16130 FvH4_3g40630 FvH4_4g02210 FvH4_4g14564 FvH4_6g24041 FvH4_6g24050 FvH4_6g24050
rosa_chinensis	RchiOBHm_Chr1g0348241 RchiOBHm_Chr2g0109211 RchiOBHm_Chr2g0144471 RchiOBHm_Chr2g0174771 RchiOBHm_Chr3g0495101 RchiOBHm_Chr5g0047301 RchiOBHm_Chr5g0062201
rosa_laevigata	RLG00000000570 RLG00000000571 RLG00000008718 RLG00000008719 RLG00000008835 RLG00000019314 RLG00000019316 RLG00000020979
rosa_multiflora	Rmu_co8024416.1_g000001 Rmu_co8152282.1_g000001 Rmu_sc0000103.1_g000058 Rmu_sc0000161.1_g000022 Rmu_sc0000517.1_g000009 Rmu_sc0000517.1_g000010 Rmu_sc0000571.1_g000024 Rmu_sc0000580.1_g000130 Rmu_sc0000744.1_g000130 Rmu_sc0000796.1_g000017 Rmu_sc0000800.1_g000021 Rmu_sc0000830.1_g000037 Rmu_sc0000830.1_g000038 Rmu_sc0000830.1_g000059 Rmu_sc0000958.1_g000012 Rmu_sc0001094.1_g000018 Rmu_sc0001163.1_g000004 Rmu_sc0001200.1_g000052 Rmu_sc0001339.1_g000005 Rmu_sc0001397.1_g000009 Rmu_sc0001563.1_g000043 Rmu_sc0001563.1_g000044 Rmu_sc0001570.1_g000001 Rmu_sc0001629.1_g000016 Rmu_sc0001763.1_g000006 Rmu_sc0002011.1_g000013 Rmu_sc0002012.1_g000012 Rmu_sc0002268.1_g000026 Rmu_sc0002268.1_g000027 Rmu_sc0002321.1_g000021 Rmu_sc0002722.1_g000002 Rmu_sc0003032.1_g000006 Rmu_sc0003185.1_g000008 Rmu_sc0003238.1_g000006 Rmu_sc0003275.1_g000037 Rmu_sc0003275.1_g000038 Rmu_sc0003441.1_g000042 Rmu_sc0003748.1_g000027 Rmu_sc0004229.1_g000011 Rmu_sc0004283.1_g000041 Rmu_sc0004283.1_g000042 Rmu_sc0004283.1_g000043 Rmu_sc0004841.1_g000026 Rmu_sc0004841.1_g000031 Rmu_sc0004877.1_g000001 Rmu_sc0005039.1_g000012 Rmu_sc0005584.1_g000019 Rmu_sc0005584.1_g000020 Rmu_sc0005584.1_g000021 Rmu_sc0005600.1_g000021 Rmu_sc0005914.1_g000004 Rmu_sc0006139.1_g000006 Rmu_sc0006638.1_g000001 Rmu_sc0007228.1_g000001 Rmu_sc0007300.1_g000008 Rmu_sc0007486.1_g000002 Rmu_sc0007737.1_g000007 Rmu_sc0008328.1_g000015 Rmu_sc0009064.1_g000002 Rmu_sc0009315.1_g000006 Rmu_sc0009472.1_g000009 Rmu_sc0009774.1_g000016 Rmu_sc0009858.1_g000010 Rmu_sc0009858.1_g000011 Rmu_sc0010489.1_g000001 Rmu_sc0010579.1_g000002 Rmu_sc0011511.1_g000002 Rmu_sc0013359.1_g000001 Rmu_sc0014367.1_g000005 Rmu_sc0015624.1_g000003 Rmu_sc0016756.1_g000001 Rmu_sc0021286.1_g000001 Rmu_sc0021693.1_g000001 Rmu_sc0022538.1_g000001 Rmu_sc0030983.1_g000001 Rmu_sc0037682.1_g000001 Rmu_sc0041059.1_g000001 Rmu_ssc0000003.1_g000013 Rmu_ssc0000003.1_g000015 Rmu_ssc0000388.1_g000018 Rmu_ssc0000409.1_g000013 Rmu_ssc0000409.1_g000015 Rmu_ssc0000476.1_g000003
rosa_roxburghii	Rroxscaffold_1G00017510 Rroxscaffold_1G00017520 Rroxscaffold_1G00017530 Rroxscaffold_1G00017990 Rroxscaffold_1G00031430 Rroxscaffold_1G00045790 Rroxscaffold_2G00108360 Rroxscaffold_2G00127910 Rroxscaffold_3G00218970 Rroxscaffold_3G00218980 Rroxscaffold_3G00218990 Rroxscaffold_3G00226450 Rroxscaffold_3G00226460 Rroxscaffold_3G00230570 Rroxscaffold_3G00230920 Rroxscaffold_4G00284360 Rroxscaffold_4G00292370 Rroxscaffold_4G00307090 Rroxscaffold_4G00319260 Rroxscaffold_4G00332580 Rroxscaffold_5G00341080 Rroxscaffold_5G00344620 Rroxscaffold_5G00358950 Rroxscaffold_5G00368600 Rroxscaffold_5G00368610 Rroxscaffold_5G00378350 Rroxscaffold_6G00388550 Rroxscaffold_6G00398560 Rroxscaffold_6G00398570 Rroxscaffold_7G00194900 Rroxscaffold_7G00194910 Rroxscaffold_7G00194920
rosa_rugosa	Rorug05G0347200 Rorug06G0064400 Rorug06G0064500 Rorug07G0190700 Rorug07G0190800 Rorug07G0276200 Rorug07G0344800 Rorug07G0344900
rosa_samantha	Rh1AG138000 Rh1AG138100 Rh1DG079100 Rh1DG264500 Rh1DG264600 Rh1DG275600 Rh1DG275700 Rh2AG474800 Rh2AG474900 Rh2AG557100 Rh2AG557200 Rh2AG567400 Rh2AG568000 Rh2AG568100 Rh3CG345000 Rh3CG351000 Rh3CG364300 Rh4AG186000 Rh5AG278000 Rh5DG280000 Rh5DG281700 Rh5DG447800 Rh7AG499400 Rh7BG470300 Rh7BG470400 Rh7DG197800 Rh7DG197900 Rh7DG198000 Rh7DG284800 Rh7DG311600 Rh7DG311700 Rh7DG329300 Rh7DG393300 Rh7DG393500 Rh7DG483800 Rh7DG483900
rosa_wichuraiana	Rw0G003510 Rw1G021670 Rw2G016920 Rw3G020700 Rw7G028090 Rw7G031160

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	399
AciI	CCGC	2 cut(s)	20, 472
AclWI	GGATC	1 cut(s)	96
AcoI	YGGCCR	1 cut(s)	188
AcyI	GRCGYC	1 cut(s)	396
AfiI	CCNNNNNNNGG	1 cut(s)	425
AgsI	TTSAA	2 cut(s)	64, 403
AluBI	AGCT	4 cut(s)	101, 108, 143, 211
AluI	AGCT	4 cut(s)	101, 108, 143, 211
Alw26I	GTCTC	1 cut(s)	315
AlwI	GGATC	1 cut(s)	96
AoxI	GGCC	3 cut(s)	188, 222, 489
AspLEI	GCGC	1 cut(s)	45
AspS9I	GGNCC	1 cut(s)	489
AsuC2I	CCSGG	1 cut(s)	496
AsuHPI	GGTGA	3 cut(s)	34, 173, 275
AsuII	TTCGAA	1 cut(s)	328
BalI	TGGCCA	1 cut(s)	190
BauI	CACGAG	1 cut(s)	226
BbsI	GAAGAC	2 cut(s)	171, 391
BccI	CCATC	2 cut(s)	165, 327
BcnI	CCSGG	1 cut(s)	496
BcoDI	GTCTC	1 cut(s)	315
BfaI	CTAG	1 cut(s)	53
Bme1390I	CCNGG	1 cut(s)	496
BmgT120I	GGNCC	1 cut(s)	489
BmiI	GGNNCC	1 cut(s)	490
BmrFI	CCNGG	1 cut(s)	496
BpiI	GAAGAC	2 cut(s)	171, 391
Bpu14I	TTCGAA	1 cut(s)	328
BpuMI	CCSGG	1 cut(s)	496
BsaHI	GRCGYC	1 cut(s)	396
BsaJI	CCNNGG	1 cut(s)	442
Bsc4I	CCNNNNNNNGG	1 cut(s)	425
BseDI	CCNNGG	1 cut(s)	442
BseGI	GGATG	2 cut(s)	307, 513
BseLI	CCNNNNNNNGG	1 cut(s)	425
BshFI	GGCC	3 cut(s)	190, 224, 491
BsiSI	CCGG	1 cut(s)	495
BslI	CCNNNNNNNGG	1 cut(s)	425
BsmAI	GTCTC	1 cut(s)	315
BsnI	GGCC	3 cut(s)	190, 224, 491
Bsp119I	TTCGAA	1 cut(s)	328
Bsp143I	GATC	1 cut(s)	88
BspACI	CCGC	2 cut(s)	20, 472
BspANI	GGCC	3 cut(s)	190, 224, 491
BspLI	GGNNCC	1 cut(s)	490
BspPI	GGATC	1 cut(s)	96
BspT104I	TTCGAA	1 cut(s)	328
BssECI	CCNNGG	1 cut(s)	442
BssMI	GATC	1 cut(s)	88
BssNI	GRCGYC	1 cut(s)	396
BssSI	CACGAG	1 cut(s)	226
BssT1I	CCWWGG	1 cut(s)	442
Bst2BI	CACGAG	1 cut(s)	226
Bst4CI	ACNGT	2 cut(s)	287, 428
Bst6I	CTCTTC	1 cut(s)	318
BstACI	GRCGYC	1 cut(s)	396
BstBI	TTCGAA	1 cut(s)	328
BstC8I	GCNNGC	1 cut(s)	145
BstF5I	GGATG	2 cut(s)	307, 513
BstHHI	GCGC	1 cut(s)	45
BstKTI	GATC	1 cut(s)	91
BstMAI	GTCTC	1 cut(s)	315
BstMBI	GATC	1 cut(s)	88
BstSCI	CCNGG	1 cut(s)	494
BstV2I	GAAGAC	2 cut(s)	171, 391
BstXI	CCANNNNNNTGG	1 cut(s)	388
BsuRI	GGCC	3 cut(s)	190, 224, 491
BtsCI	GGATG	2 cut(s)	307, 513
Cac8I	GCNNGC	1 cut(s)	145
CfoI	GCGC	1 cut(s)	45
Cfr13I	GGNCC	1 cut(s)	489
CviAII	CATG	1 cut(s)	320
DpnI	GATC	1 cut(s)	90
DpnII	GATC	1 cut(s)	88
EaeI	YGGCCR	1 cut(s)	188
Eam1104I	CTCTTC	1 cut(s)	318
EarI	CTCTTC	1 cut(s)	318
Eco130I	CCWWGG	1 cut(s)	442
EcoO109I	RGGNCCY	1 cut(s)	489
EcoT14I	CCWWGG	1 cut(s)	442
ErhI	CCWWGG	1 cut(s)	442
FaeI	CATG	1 cut(s)	323
FaiI	YATR	5 cut(s)	17, 156, 321, 351, 410
FatI	CATG	1 cut(s)	319
FauI	CCCGC	1 cut(s)	465
FokI	GGATG	1 cut(s)	314
FspBI	CTAG	1 cut(s)	53
GlaI	GCGC	1 cut(s)	44
HaeIII	GGCC	3 cut(s)	190, 224, 491
HapII	CCGG	1 cut(s)	495
HhaI	GCGC	1 cut(s)	45
Hin1I	GRCGYC	1 cut(s)	396
Hin1II	CATG	1 cut(s)	323
Hin6I	GCGC	1 cut(s)	43
HinP1I	GCGC	1 cut(s)	43
HincII	GTYRAC	2 cut(s)	202, 436
HindII	GTYRAC	2 cut(s)	202, 436
HindIII	AAGCTT	2 cut(s)	99, 141
HinfI	GANTC	3 cut(s)	308, 337, 458
HpaII	CCGG	1 cut(s)	495
HphI	GGTGA	3 cut(s)	34, 173, 275
Hpy166II	GTNNAC	3 cut(s)	202, 378, 436
Hpy188I	TCNGA	1 cut(s)	463
Hpy188III	TCNNGA	1 cut(s)	243
Hpy8I	GTNNAC	3 cut(s)	202, 378, 436
HpyAV	CCTTC	1 cut(s)	479
HpyCH4III	ACNGT	2 cut(s)	287, 428
HpyCH4IV	ACGT	2 cut(s)	177, 396
HpySE526I	ACGT	2 cut(s)	177, 396
Hsp92I	GRCGYC	1 cut(s)	396
Hsp92II	CATG	1 cut(s)	323
HspAI	GCGC	1 cut(s)	43
Kzo9I	GATC	1 cut(s)	88
LpnPI	CCDG	1 cut(s)	508
MaeI	CTAG	1 cut(s)	53
MaeII	ACGT	2 cut(s)	177, 396
MaeIII	GTNAC	1 cut(s)	178
MalI	GATC	1 cut(s)	90
MboI	GATC	1 cut(s)	88
MboII	GAAGA	5 cut(s)	176, 255, 305, 342, 391
MlsI	TGGCCA	1 cut(s)	190
MluCI	AATT	1 cut(s)	231
MluNI	TGGCCA	1 cut(s)	190
MlyI	GAGTC	2 cut(s)	317, 452
MnlI	CCTC	9 cut(s)	28, 49, 151, 214, 239, 351, 385, 405, 502
Mox20I	TGGCCA	1 cut(s)	190
MscI	TGGCCA	1 cut(s)	190
MseI	TTAA	1 cut(s)	294
Msp20I	TGGCCA	1 cut(s)	190
MspI	CCGG	1 cut(s)	495
MspR9I	CCNGG	1 cut(s)	496
NciI	CCSGG	1 cut(s)	496
NdeII	GATC	1 cut(s)	88
NlaIII	CATG	1 cut(s)	323
NlaIV	GGNNCC	1 cut(s)	490
NspV	TTCGAA	1 cut(s)	328
PfeI	GAWTC	1 cut(s)	337
PleI	GAGTC	2 cut(s)	316, 452
PpsI	GAGTC	2 cut(s)	316, 452
PspN4I	GGNNCC	1 cut(s)	490
PspPI	GGNCC	1 cut(s)	489
SaqAI	TTAA	1 cut(s)	294
Sau3AI	GATC	1 cut(s)	88
Sau96I	GGNCC	1 cut(s)	489
SchI	GAGTC	2 cut(s)	317, 452
ScrFI	CCNGG	1 cut(s)	496
SetI	ASST	7 cut(s)	103, 110, 145, 180, 213, 356, 399
SfuI	TTCGAA	1 cut(s)	328
Sse9I	AATT	1 cut(s)	231
SsiI	CCGC	2 cut(s)	20, 472
SspMI	CTAG	1 cut(s)	53
StyD4I	CCNGG	1 cut(s)	494
StyI	CCWWGG	1 cut(s)	442
TaaI	ACNGT	2 cut(s)	287, 428
TaiI	ACGT	2 cut(s)	180, 399
TaqI	TCGA	2 cut(s)	242, 328
TaqII	GACCGA	2 cut(s)	183, 421
TasI	AATT	1 cut(s)	231
TfiI	GAWTC	1 cut(s)	337
Tru1I	TTAA	1 cut(s)	294
Tru9I	TTAA	1 cut(s)	294
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	1 cut(s)	256
XspI	CTAG	1 cut(s)	53
ZraI	GACGTC	1 cut(s)	397

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