Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0003227

Physical Location & Seq

Genomic Coordinates Forward (+)

40296229 .. 40300913

Gene Structure 4685 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0333400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGCACGGTTAGCTGCACGAGCAAATGTGAAGTCGCTCTTCAATGGTGAGGGAGTCCCATCATCAGGATCCGGGTTGGACCCAAAAGACCCATTGAGCTGCATGTTCACTTTCTCATCATCGATCAAACCCCAAAACCGCAGGCTCAGCTCATTTGACTCCACTAGGCTTTACTCCTCCTCCAACTCTTCTTCCAACAAGACCAAGCGTCTCAAGGCCGAGGTTCGTTTGTTTTTCGGGGATGAGGAGGATGTTAAGGGTGACAACAAGGTTGGTGAGCATGCCCATCATGGTGGTGATGATGATGATGAGTTTGAGAGGGATGAGCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCATACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTCCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTACATACCGGCTGTTTTAAGGATTCCCCATTTACTGCAAGTTGTAAAGAGAAGAAGAATTAAGTGCAATCTTAGTCGTAAAAATATACTTTGTCGGGACAGTTTCACTTGTCAGTACTGTTCTTCACGTGAAAACTTGACTATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAGTGGGAAAATCTGGTTACTGCATGTGCAAAATGCAACTCGAAGAAAGGGCAGAAGACATTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCCAAGACTCCAAAAGACTATGACATACTTGCCATACCCCTAACAAGTGCGGCAGTAAAGATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCGAAGCCTTCTTCAATGCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000278 GO:0000281 GO:0000394 GO:0000910 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003824 GO:0003972 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0007049 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008356 GO:0008380 GO:0008452 GO:0009790 GO:0009791 GO:0009793 GO:0009966 GO:0009987 GO:0010069 GO:0010070 GO:0010154 GO:0010467 GO:0010646 GO:0010928 GO:0016070 GO:0016874 GO:0016886 GO:0022402 GO:0022414 GO:0023051 GO:0032501 GO:0032502 GO:0034470 GO:0034641 GO:0034660 GO:0042245 GO:0043170 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048316 GO:0048583 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051301 GO:0061458 GO:0061640 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1903047

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA_lig_CPD

Protein Analysis

293

Amino Acids

33.13

Weight (kDa)

9.03

Isoelectric Point (pI)

53.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HNH_5	PF14279	196 - 247	4.1e-17	HNH endonuclease
HNH	PF01844	196 - 237	1.9e-14	HNH endonuclease

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

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Orthologous Genes (Group: OG0003227)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07910 AT1G07910
fragaria_vesca	FvH4_3g33360 FvH4_3g33360 FvH4_3g33360 FvH4_3g33360 FvH4_3g33360 FvH4_3g33360 FvH4_3g33360 FvH4_3g33360 FvH4_4g02320
malus_domestica	MD03G1112400.v1.1 MD11G1129800.v1.1
prunus_persica	Prupe.6G094700_v2.0.a1
pyrus_communis	pycom11g10750 pycom11g10760
rosa_chinensis	RchiOBHm_Chr4g0389641 RchiOBHm_Chr5g0060751
rosa_laevigata	RLG00000009964 RLG00000035390
rosa_multiflora	Rmu_co8520825.1_g000001 Rmu_sc0006568.1_g000004 Rmu_sc0007419.1_g000006
rosa_roxburghii	Rroxscaffold_1G00019960 Rroxscaffold_5G00335630
rosa_rugosa	Rorug03G0324600 Rorug05G0333400
rosa_samantha	Rh4AG029200 Rh4BG022400 Rh4CG031200 Rh4DG022900 Rh5AG396400 Rh5BG408600 Rh5CG433200 Rh5DG423800
rosa_wichuraiana	Rw4G002180 Rw5G037370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	139, 425, 800
AclWI	GGATC	4 cut(s)	63, 76, 465, 478
AcsI	RAATTY	2 cut(s)	410, 747
AcvI	CACGTG	1 cut(s)	605
AdeI	CACNNNGTG	1 cut(s)	647
AfaI	GTAC	1 cut(s)	593
AfiI	CCNNNNNNNGG	1 cut(s)	65
AgsI	TTSAA	2 cut(s)	43, 873
AhdI	GACNNNNNGTC	1 cut(s)	207
AluBI	AGCT	5 cut(s)	14, 99, 150, 328, 739
AluI	AGCT	5 cut(s)	14, 99, 150, 328, 739
Alw26I	GTCTC	1 cut(s)	215
AlwI	GGATC	4 cut(s)	63, 76, 465, 478
AoxI	GGCC	2 cut(s)	216, 368
ApeKI	GCWGC	2 cut(s)	14, 99
ApoI	RAATTY	2 cut(s)	410, 747
ArsI	GACNNNNNNTTYG	2 cut(s)	17, 49
AseI	ATTAAT	1 cut(s)	375
AspS9I	GGNCC	1 cut(s)	79
AsuC2I	CCSGG	1 cut(s)	73
AsuHPI	GGTGA	4 cut(s)	59, 272, 287, 308
AvaII	GGWCC	1 cut(s)	79
BamHI	GGATCC	2 cut(s)	68, 470
BauI	CACGAG	2 cut(s)	18, 642
BbrPI	CACGTG	1 cut(s)	605
BbsI	GAAGAC	1 cut(s)	719
BbvI	GCAGC	1 cut(s)	86
BccI	CCATC	2 cut(s)	67, 294
BclI	TGATCA	1 cut(s)	445
BcnI	CCSGG	1 cut(s)	73
BcoDI	GTCTC	1 cut(s)	215
BfaI	CTAG	2 cut(s)	165, 434
BisI	GCNGC	3 cut(s)	15, 100, 801
BlpI	GCTNAGC	1 cut(s)	146
BlsI	GCNGC	3 cut(s)	16, 101, 802
BmcAI	AGTACT	1 cut(s)	593
Bme1390I	CCNGG	1 cut(s)	73
Bme18I	GGWCC	1 cut(s)	79
BmeRI	GACNNNNNGTC	1 cut(s)	207
BmgT120I	GGNCC	1 cut(s)	79
BmiI	GGNNCC	4 cut(s)	70, 81, 472, 848
BmrFI	CCNGG	1 cut(s)	73
BmsI	GCATC	1 cut(s)	801
BpiI	GAAGAC	1 cut(s)	719
BpmI	CTGGAG	1 cut(s)	819
Bpu1102I	GCTNAGC	1 cut(s)	146
BpuEI	CTTGAG	1 cut(s)	197
BpuMI	CCSGG	1 cut(s)	73
Bsa29I	ATCGAT	1 cut(s)	122
BsaAI	YACGTR	1 cut(s)	605
BsaJI	CCNNGG	1 cut(s)	219
BsaXI	ACNNNNNCTCC	2 cut(s)	164, 194
Bsc4I	CCNNNNNNNGG	1 cut(s)	65
Bse118I	RCCGGY	1 cut(s)	484
BseCI	ATCGAT	1 cut(s)	122
BseDI	CCNNGG	1 cut(s)	219
BseGI	GGATG	4 cut(s)	247, 256, 328, 433
BseLI	CCNNNNNNNGG	1 cut(s)	65
BseMII	CTCAG	1 cut(s)	160
BseRI	GAGGAG	3 cut(s)	166, 169, 260
BseXI	GCAGC	1 cut(s)	86
BshFI	GGCC	2 cut(s)	218, 370
BshVI	ATCGAT	1 cut(s)	122
BsiSI	CCGG	2 cut(s)	72, 485
BslFI	GGGAC	2 cut(s)	41, 587
BslI	CCNNNNNNNGG	1 cut(s)	65
BsmAI	GTCTC	1 cut(s)	215
BsmBI	CGTCTC	1 cut(s)	215
BsmFI	GGGAC	2 cut(s)	41, 587
BsnI	GGCC	2 cut(s)	218, 370
Bsp143I	GATC	4 cut(s)	68, 123, 445, 470
Bsp1720I	GCTNAGC	1 cut(s)	146
BspACI	CCGC	3 cut(s)	139, 425, 800
BspANI	GGCC	2 cut(s)	218, 370
BspCNI	CTCAG	1 cut(s)	159
BspDI	ATCGAT	1 cut(s)	122
BspLI	GGNNCC	4 cut(s)	70, 81, 472, 848
BspPI	GGATC	4 cut(s)	63, 76, 465, 478
BspQI	GCTCTTC	1 cut(s)	44
BsrFI	RCCGGY	1 cut(s)	484
BssAI	RCCGGY	1 cut(s)	484
BssECI	CCNNGG	1 cut(s)	219
BssMI	GATC	4 cut(s)	68, 123, 445, 470
BssSI	CACGAG	2 cut(s)	18, 642
Bst2BI	CACGAG	2 cut(s)	18, 642
Bst4CI	ACNGT	4 cut(s)	9, 454, 578, 596
Bst6I	CTCTTC	3 cut(s)	44, 193, 834
BstBAI	YACGTR	1 cut(s)	605
BstC8I	GCNNGC	2 cut(s)	143, 282
BstDEI	CTNAG	2 cut(s)	146, 548
BstF5I	GGATG	4 cut(s)	247, 256, 328, 433
BstKTI	GATC	4 cut(s)	71, 126, 448, 473
BstMAI	GTCTC	1 cut(s)	215
BstMBI	GATC	4 cut(s)	68, 123, 445, 470
BstMWI	GCNNNNNNNGC	3 cut(s)	11, 20, 147
BstNSI	RCATGY	4 cut(s)	106, 284, 684, 732
BstSCI	CCNGG	1 cut(s)	71
BstV1I	GCAGC	1 cut(s)	86
BstV2I	GAAGAC	1 cut(s)	719
BstX2I	RGATCY	2 cut(s)	68, 470
BstXI	CCANNNNNNTGG	2 cut(s)	293, 843
BstYI	RGATCY	2 cut(s)	68, 470
Bsu15I	ATCGAT	1 cut(s)	122
BsuRI	GGCC	2 cut(s)	218, 370
BsuTUI	ATCGAT	1 cut(s)	122
BtsCI	GGATG	4 cut(s)	247, 256, 328, 433
Cac8I	GCNNGC	2 cut(s)	143, 282
Cfr10I	RCCGGY	1 cut(s)	484
Cfr13I	GGNCC	1 cut(s)	79
ClaI	ATCGAT	1 cut(s)	122
CseI	GACGC	1 cut(s)	197
Csp6I	GTAC	1 cut(s)	592
CspCI	CAANNNNNGTGG	2 cut(s)	360, 395
CviAII	CATG	8 cut(s)	103, 281, 290, 415, 626, 681, 729, 879
CviQI	GTAC	1 cut(s)	592
DdeI	CTNAG	2 cut(s)	146, 548
DpnI	GATC	4 cut(s)	70, 125, 447, 472
DpnII	GATC	4 cut(s)	68, 123, 445, 470
DraIII	CACNNNGTG	1 cut(s)	647
DriI	GACNNNNNGTC	1 cut(s)	207
Eam1104I	CTCTTC	3 cut(s)	44, 193, 834
Eam1105I	GACNNNNNGTC	1 cut(s)	207
EarI	CTCTTC	3 cut(s)	44, 193, 834
EciI	GGCGGA	1 cut(s)	440
Eco32I	GATATC	1 cut(s)	358
Eco47I	GGWCC	1 cut(s)	79
Eco72I	CACGTG	1 cut(s)	605
EcoRI	GAATTC	1 cut(s)	410
EcoRV	GATATC	1 cut(s)	358
Esp3I	CGTCTC	1 cut(s)	215
FaeI	CATG	8 cut(s)	106, 284, 293, 418, 629, 684, 732, 882
FalI	AAGNNNNNCTT	2 cut(s)	23, 55
FaqI	GGGAC	2 cut(s)	41, 587
FatI	CATG	8 cut(s)	102, 280, 289, 414, 625, 680, 728, 878
FbaI	TGATCA	1 cut(s)	445
Fnu4HI	GCNGC	3 cut(s)	15, 100, 801
FokI	GGATG	4 cut(s)	254, 263, 335, 440
Fsp4HI	GCNGC	3 cut(s)	15, 100, 801
FspBI	CTAG	2 cut(s)	165, 434
GluI	GCNGC	3 cut(s)	15, 100, 801
GsuI	CTGGAG	1 cut(s)	819
HaeIII	GGCC	2 cut(s)	218, 370
HapII	CCGG	2 cut(s)	72, 485
HgaI	GACGC	1 cut(s)	197
Hin1II	CATG	8 cut(s)	106, 284, 293, 418, 629, 684, 732, 882
HinfI	GANTC	4 cut(s)	54, 158, 499, 757
HpaII	CCGG	2 cut(s)	72, 485
HphI	GGTGA	4 cut(s)	59, 272, 287, 308
Hpy166II	GTNNAC	1 cut(s)	108
Hpy188I	TCNGA	2 cut(s)	341, 450
Hpy188III	TCNNGA	3 cut(s)	66, 572, 836
Hpy8I	GTNNAC	1 cut(s)	108
HpyAV	CCTTC	2 cut(s)	484, 876
HpyCH4III	ACNGT	4 cut(s)	9, 454, 578, 596
HpyCH4IV	ACGT	2 cut(s)	394, 604
HpyCH4V	TGCA	8 cut(s)	17, 102, 514, 543, 641, 680, 686, 693
HpyF10VI	GCNNNNNNNGC	3 cut(s)	11, 20, 147
HpyF3I	CTNAG	2 cut(s)	146, 548
HpySE526I	ACGT	2 cut(s)	394, 604
Hsp92II	CATG	8 cut(s)	106, 284, 293, 418, 629, 684, 732, 882
Ksp22I	TGATCA	1 cut(s)	445
Kzo9I	GATC	4 cut(s)	68, 123, 445, 470
LguI	GCTCTTC	1 cut(s)	44
LmnI	GCTCC	1 cut(s)	852
Lsp1109I	GCAGC	1 cut(s)	86
LweI	GCATC	1 cut(s)	801
MaeI	CTAG	2 cut(s)	165, 434
MaeII	ACGT	2 cut(s)	394, 604
MaeIII	GTNAC	2 cut(s)	260, 673
MalI	GATC	4 cut(s)	70, 125, 447, 472
MboI	GATC	4 cut(s)	68, 123, 445, 470
MfeI	CAATTG	1 cut(s)	636
MflI	RGATCY	2 cut(s)	68, 470
MluCI	AATT	6 cut(s)	372, 410, 457, 534, 636, 747
MlyI	GAGTC	3 cut(s)	63, 152, 751
MmeI	TCCRAC	3 cut(s)	57, 207, 219
MseI	TTAA	5 cut(s)	255, 375, 456, 494, 537
MslI	CAYNNNNRTG	2 cut(s)	291, 294
MspI	CCGG	2 cut(s)	72, 485
MspR9I	CCNGG	1 cut(s)	73
MunI	CAATTG	1 cut(s)	636
MwoI	GCNNNNNNNGC	3 cut(s)	11, 20, 147
NciI	CCSGG	1 cut(s)	73
NdeII	GATC	4 cut(s)	68, 123, 445, 470
NlaIII	CATG	8 cut(s)	106, 284, 293, 418, 629, 684, 732, 882
NlaIV	GGNNCC	4 cut(s)	70, 81, 472, 848
NmeAIII	GCCGAG	1 cut(s)	244
NmuCI	GTSAC	1 cut(s)	260
NspI	RCATGY	4 cut(s)	106, 284, 684, 732
PaeI	GCATGC	1 cut(s)	284
PciSI	GCTCTTC	1 cut(s)	44
PfeI	GAWTC	1 cut(s)	499
PkrI	GCNGC	3 cut(s)	16, 101, 802
PleI	GAGTC	3 cut(s)	62, 152, 751
PmaCI	CACGTG	1 cut(s)	605
PmlI	CACGTG	1 cut(s)	605
PpsI	GAGTC	3 cut(s)	62, 152, 751
Ppu21I	YACGTR	1 cut(s)	605
PshBI	ATTAAT	1 cut(s)	375
PspCI	CACGTG	1 cut(s)	605
PspN4I	GGNNCC	4 cut(s)	70, 81, 472, 848
PspPI	GGNCC	1 cut(s)	79
PsuI	RGATCY	2 cut(s)	68, 470
RsaI	GTAC	1 cut(s)	593
RsaNI	GTAC	1 cut(s)	592
RseI	CAYNNNNRTG	2 cut(s)	291, 294
SapI	GCTCTTC	1 cut(s)	44
SaqAI	TTAA	5 cut(s)	255, 375, 456, 494, 537
SatI	GCNGC	3 cut(s)	15, 100, 801
Sau3AI	GATC	4 cut(s)	68, 123, 445, 470
Sau96I	GGNCC	1 cut(s)	79
ScaI	AGTACT	1 cut(s)	593
SchI	GAGTC	3 cut(s)	63, 152, 751
ScrFI	CCNGG	1 cut(s)	73
SfaNI	GCATC	1 cut(s)	801
SinI	GGWCC	1 cut(s)	79
SmiMI	CAYNNNNRTG	2 cut(s)	291, 294
SmlI	CTYRAG	1 cut(s)	212
SmoI	CTYRAG	1 cut(s)	212
SphI	GCATGC	1 cut(s)	284
Sse9I	AATT	6 cut(s)	372, 410, 457, 534, 636, 747
SsiI	CCGC	3 cut(s)	139, 425, 800
SspMI	CTAG	2 cut(s)	165, 434
StyD4I	CCNGG	1 cut(s)	71
TaaI	ACNGT	4 cut(s)	9, 454, 578, 596
TaiI	ACGT	2 cut(s)	397, 607
TaqI	TCGA	3 cut(s)	122, 698, 860
TasI	AATT	6 cut(s)	372, 410, 457, 534, 636, 747
TatI	WGTACW	1 cut(s)	591
TauI	GCSGC	1 cut(s)	803
TfiI	GAWTC	1 cut(s)	499
Tru1I	TTAA	5 cut(s)	255, 375, 456, 494, 537
Tru9I	TTAA	5 cut(s)	255, 375, 456, 494, 537
TseFI	GTSAC	1 cut(s)	260
TseI	GCWGC	2 cut(s)	14, 99
Tsp45I	GTSAC	1 cut(s)	260
TspDTI	ATGAA	3 cut(s)	403, 749, 758
VpaK11BI	GGWCC	1 cut(s)	79
VspI	ATTAAT	1 cut(s)	375
XapI	RAATTY	2 cut(s)	410, 747
XceI	RCATGY	4 cut(s)	106, 284, 684, 732
XspI	CTAG	2 cut(s)	165, 434
ZrmI	AGTACT	1 cut(s)	593

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