Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0002990

Physical Location & Seq

Genomic Coordinates Reverse (-)

35296812 .. 35300634

Gene Structure 3823 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0246100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGTCGCCTCAACAAAGAGATGCTCCTACACGGGTATGTGAATTAATATGCCCGCAAACCATGTGTTGGGAAGTGGAGAAGATCGAGAAGTGGTTCCCACCAGTGGACCGGGATTTAATCCTAACAATCCCACTTAGTCGAAGAGCTCCAAGAGATAGGTTAATTTGGCATTTTCATAATAAAGGCTTTTTCATCACAAGAAGTGCCTATTATGTTGCCCGAGACATGGCGTTGGGATTAGTACTTGCTCCTCCACGGGCTCCAGATGCATATGCTAAAATATGGTCAGCTATATGGAATGCCAAAGTCCCAAACAAGGTAGCTTTGCAGGTTTGGAGAGCATGTGAGAATATACTGCCCAATCGGATTTGTCTGAGTTCGAAAGGGTACATGGGTGATACAACCTGCCCAATGTGTGCAGGTGGGGGTGAAGAGAACATGCATGTCTTTGTTCGGTGCCATTATGCTCAAGAAGTGTGGAGAGCAGCTACTATCCCTATGCCTACTACCAGTATCACCGAGTTTAAGAATTGGCTATTATATTTGGTAAATAACGTTGGCAAGGAGACATTTGCAAAAGTCACGATGCTCATTTGGGGTATATGGAAGAATAGAAACACACAAGTTTGGGAAGGAAGTAAACAACATCCACATGATGTGGTACTGATGACCATAAGTTGGCCGGAAGATTTTGTGAAAGCTAATAGTGATGGAAAACAACAGTACACGCGAAGCAACAGCTGGAGCAAGCCACCAGAGGGTTGGCTCAAATGCAACATTGATGGGGCCTTCAAAGCACAATCGGGACAAAGTGGAGCGGGTTTTGTGTTTCGAGATTCAAGGGGGCAGTTTAGAGCAGCTACTGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016592 GO:0018130 GO:0019438 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0040034 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0050789 GO:0050793 GO:0051239 GO:0065007 GO:0070013 GO:0071704 GO:0090213 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med12

Protein Analysis

289

Amino Acids

33.03

Weight (kDa)

9.3

Isoelectric Point (pI)

54.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	92 - 160	2.9e-13	zinc-binding in reverse transcriptase

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: OG0002990)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00450 AT4G00450 AT4G00450
fragaria_vesca	FvH4_7g14270 FvH4_7g14270 FvH4_7g14270
malus_domestica	MD01G1060600.v1.1 MD07G1137100.v1.1
prunus_persica	Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1 Prupe.2G170500_v2.0.a1
pyrus_communis	pycom01g09080 pycom07g13490
rosa_chinensis	RchiOBHm_Chr1g0355261
rosa_laevigata	RLG00000028166
rosa_multiflora	Rmu_sc0003115.1_g000044
rosa_roxburghii	Rroxscaffold_4G00300550
rosa_rugosa	Rorug01G0245800 Rorug01G0245900 Rorug01G0246000 Rorug01G0246100 Rorug01G0246200 Rorug01G0246200 Rorug01G0246200
rosa_samantha	Rh1AG258300 Rh1BG227900 Rh1CG242000 Rh1DG255700
rosa_wichuraiana	Rw1G022800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	410
Acc36I	ACCTGC	3 cut(s)	319, 410, 413
AccB1I	GGYRCC	1 cut(s)	456
AccB7I	CCANNNNNTGG	2 cut(s)	66, 678
AccBSI	CCGCTC	1 cut(s)	818
AccII	CGCG	1 cut(s)	730
AciI	CCGC	2 cut(s)	53, 818
AclI	AACGTT	1 cut(s)	555
AcoI	YGGCCR	1 cut(s)	680
AfaI	GTAC	4 cut(s)	243, 389, 663, 725
AfiI	CCNNNNNNNGG	6 cut(s)	66, 103, 226, 316, 678, 758
AgsI	TTSAA	2 cut(s)	793, 840
AluBI	AGCT	7 cut(s)	146, 290, 323, 488, 701, 741, 860
AluI	AGCT	7 cut(s)	146, 290, 323, 488, 701, 741, 860
Alw21I	GWGCWC	1 cut(s)	148
Alw26I	GTCTC	2 cut(s)	216, 560
AlwNI	CAGNNNCTG	1 cut(s)	863
Ama87I	CYCGRG	1 cut(s)	219
AoxI	GGCC	2 cut(s)	680, 786
ApeKI	GCWGC	2 cut(s)	485, 857
AseI	ATTAAT	1 cut(s)	44
Asp700I	GAANNNNTTC	1 cut(s)	92
AspS9I	GGNCC	2 cut(s)	106, 786
AsuC2I	CCSGG	1 cut(s)	110
AsuHPI	GGTGA	3 cut(s)	407, 440, 508
AsuII	TTCGAA	1 cut(s)	380
AvaI	CYCGRG	1 cut(s)	219
AvaII	GGWCC	1 cut(s)	106
BaeI	ACNNNNGTAYC	2 cut(s)	379, 412
BanI	GGYRCC	1 cut(s)	456
BanII	GRGCYC	2 cut(s)	148, 262
Bbv12I	GWGCWC	1 cut(s)	148
BbvI	GCAGC	1 cut(s)	497
BccI	CCATC	2 cut(s)	704, 776
BcnI	CCSGG	1 cut(s)	110
BcoDI	GTCTC	2 cut(s)	216, 560
BfuAI	ACCTGC	3 cut(s)	319, 410, 413
BisI	GCNGC	2 cut(s)	486, 858
BlsI	GCNGC	2 cut(s)	487, 859
BmcAI	AGTACT	1 cut(s)	243
Bme1390I	CCNGG	1 cut(s)	110
Bme18I	GGWCC	1 cut(s)	106
BmeT110I	CYCGRG	1 cut(s)	219
BmgT120I	GGNCC	2 cut(s)	106, 786
BmiI	GGNNCC	4 cut(s)	95, 261, 458, 787
BmrFI	CCNGG	1 cut(s)	110
BmsI	GCATC	3 cut(s)	10, 256, 576
BpmI	CTGGAG	2 cut(s)	246, 763
Bpu14I	TTCGAA	1 cut(s)	380
BpuEI	CTTGAG	1 cut(s)	453
BpuMI	CCSGG	1 cut(s)	110
BsaJI	CCNNGG	1 cut(s)	254
BsaXI	ACNNNNNCTCC	2 cut(s)	328, 358
Bsc4I	CCNNNNNNNGG	6 cut(s)	66, 103, 226, 316, 678, 758
Bse1I	ACTGG	2 cut(s)	101, 510
BseDI	CCNNGG	1 cut(s)	254
BseGI	GGATG	1 cut(s)	646
BseLI	CCNNNNNNNGG	6 cut(s)	66, 103, 226, 316, 678, 758
BseMII	CTCAG	1 cut(s)	365
BseNI	ACTGG	2 cut(s)	101, 510
BseRI	GAGGAG	1 cut(s)	240
BseXI	GCAGC	1 cut(s)	497
BsgI	GTGCAG	1 cut(s)	438
Bsh1236I	CGCG	1 cut(s)	730
BshFI	GGCC	2 cut(s)	682, 788
BshNI	GGYRCC	1 cut(s)	456
BsiHKAI	GWGCWC	1 cut(s)	148
BsiHKCI	CYCGRG	1 cut(s)	219
BsiSI	CCGG	2 cut(s)	109, 683
BslFI	GGGAC	2 cut(s)	293, 819
BslI	CCNNNNNNNGG	6 cut(s)	66, 103, 226, 316, 678, 758
BsmAI	GTCTC	2 cut(s)	216, 560
BsmFI	GGGAC	2 cut(s)	293, 819
BsmI	GAATGC	1 cut(s)	304
BsnI	GGCC	2 cut(s)	682, 788
BsoBI	CYCGRG	1 cut(s)	219
Bsp119I	TTCGAA	1 cut(s)	380
Bsp1286I	GDGCHC	2 cut(s)	148, 262
Bsp143I	GATC	1 cut(s)	81
BspACI	CCGC	2 cut(s)	53, 818
BspANI	GGCC	2 cut(s)	682, 788
BspCNI	CTCAG	1 cut(s)	366
BspFNI	CGCG	1 cut(s)	730
BspLI	GGNNCC	4 cut(s)	95, 261, 458, 787
BspMI	ACCTGC	3 cut(s)	319, 410, 413
BspQI	GCTCTTC	1 cut(s)	136
BspT104I	TTCGAA	1 cut(s)	380
BspT107I	GGYRCC	1 cut(s)	456
BsrBI	CCGCTC	1 cut(s)	818
BsrI	ACTGG	2 cut(s)	101, 510
BssECI	CCNNGG	1 cut(s)	254
BssMI	GATC	1 cut(s)	81
Bst4CI	ACNGT	1 cut(s)	723
Bst6I	CTCTTC	2 cut(s)	136, 426
BstAPI	GCANNNNNTGC	1 cut(s)	863
BstBI	TTCGAA	1 cut(s)	380
BstC8I	GCNNGC	2 cut(s)	53, 749
BstDEI	CTNAG	2 cut(s)	134, 374
BstDSI	CCRYGG	1 cut(s)	254
BstF5I	GGATG	1 cut(s)	646
BstFNI	CGCG	1 cut(s)	730
BstKTI	GATC	1 cut(s)	84
BstMAI	GTCTC	2 cut(s)	216, 560
BstMBI	GATC	1 cut(s)	81
BstMWI	GCNNNNNNNGC	3 cut(s)	266, 794, 863
BstNSI	RCATGY	3 cut(s)	345, 442, 446
BstSCI	CCNGG	1 cut(s)	108
BstUI	CGCG	1 cut(s)	730
BstV1I	GCAGC	1 cut(s)	497
BstXI	CCANNNNNNTGG	1 cut(s)	762
BsuRI	GGCC	2 cut(s)	682, 788
BtgI	CCRYGG	1 cut(s)	254
BtsCI	GGATG	1 cut(s)	646
BtsIMutI	CAGTG	1 cut(s)	108
BveI	ACCTGC	3 cut(s)	319, 410, 413
Cac8I	GCNNGC	2 cut(s)	53, 749
CaiI	CAGNNNCTG	1 cut(s)	863
Cfr13I	GGNCC	2 cut(s)	106, 786
Csp6I	GTAC	4 cut(s)	242, 388, 662, 724
CspCI	CAANNNNNGTGG	2 cut(s)	458, 493
CviAII	CATG	7 cut(s)	61, 226, 342, 391, 439, 443, 653
CviQI	GTAC	4 cut(s)	242, 388, 662, 724
DdeI	CTNAG	2 cut(s)	134, 374
DpnI	GATC	1 cut(s)	83
DpnII	GATC	1 cut(s)	81
EaeI	YGGCCR	1 cut(s)	680
Eam1104I	CTCTTC	2 cut(s)	136, 426
EarI	CTCTTC	2 cut(s)	136, 426
Ecl136II	GAGCTC	1 cut(s)	146
Eco24I	GRGCYC	2 cut(s)	148, 262
Eco47I	GGWCC	1 cut(s)	106
Eco53kI	GAGCTC	1 cut(s)	146
Eco88I	CYCGRG	1 cut(s)	219
EcoICRI	GAGCTC	1 cut(s)	146
EcoO109I	RGGNCCY	1 cut(s)	786
EcoT22I	ATGCAT	2 cut(s)	271, 444
EcoT38I	GRGCYC	2 cut(s)	148, 262
FaeI	CATG	7 cut(s)	64, 229, 345, 394, 442, 446, 656
FaqI	GGGAC	2 cut(s)	293, 819
FatI	CATG	7 cut(s)	60, 225, 341, 390, 438, 442, 652
FauI	CCCGC	2 cut(s)	60, 811
FauNDI	CATATG	1 cut(s)	271
Fnu4HI	GCNGC	2 cut(s)	486, 858
FokI	GGATG	1 cut(s)	633
FriOI	GRGCYC	2 cut(s)	148, 262
Fsp4HI	GCNGC	2 cut(s)	486, 858
GluI	GCNGC	2 cut(s)	486, 858
GsuI	CTGGAG	2 cut(s)	246, 763
HaeIII	GGCC	2 cut(s)	682, 788
HapII	CCGG	2 cut(s)	109, 683
Hin1II	CATG	7 cut(s)	64, 229, 345, 394, 442, 446, 656
HinfI	GANTC	1 cut(s)	836
HpaII	CCGG	2 cut(s)	109, 683
HphI	GGTGA	3 cut(s)	407, 440, 508
Hpy166II	GTNNAC	3 cut(s)	106, 641, 726
Hpy188I	TCNGA	2 cut(s)	366, 375
Hpy188III	TCNNGA	6 cut(s)	85, 263, 470, 583, 804, 833
Hpy8I	GTNNAC	3 cut(s)	106, 641, 726
HpyAV	CCTTC	2 cut(s)	626, 799
HpyCH4III	ACNGT	1 cut(s)	723
HpyCH4IV	ACGT	1 cut(s)	555
HpyCH4V	TGCA	6 cut(s)	269, 328, 419, 442, 575, 774
HpyF10VI	GCNNNNNNNGC	3 cut(s)	266, 794, 863
HpyF3I	CTNAG	2 cut(s)	134, 374
HpySE526I	ACGT	1 cut(s)	555
Hsp92II	CATG	7 cut(s)	64, 229, 345, 394, 442, 446, 656
Kzo9I	GATC	1 cut(s)	81
LguI	GCTCTTC	1 cut(s)	136
LmnI	GCTCC	6 cut(s)	28, 151, 253, 265, 744, 815
Lsp1109I	GCAGC	1 cut(s)	497
LweI	GCATC	3 cut(s)	10, 256, 576
MaeII	ACGT	1 cut(s)	555
MaeIII	GTNAC	1 cut(s)	580
MalI	GATC	1 cut(s)	83
MbiI	CCGCTC	1 cut(s)	818
MboI	GATC	1 cut(s)	81
MboII	GAAGA	5 cut(s)	91, 153, 443, 619, 698
MhlI	GDGCHC	2 cut(s)	148, 262
MluCI	AATT	3 cut(s)	41, 162, 529
MnlI	CCTC	3 cut(s)	18, 261, 751
Mph1103I	ATGCAT	2 cut(s)	271, 444
MroXI	GAANNNNTTC	1 cut(s)	92
MseI	TTAA	4 cut(s)	44, 116, 161, 525
MslI	CAYNNNNRTG	2 cut(s)	34, 651
MspA1I	CMGCKG	1 cut(s)	741
MspI	CCGG	2 cut(s)	109, 683
MspR9I	CCNGG	1 cut(s)	110
Mva1269I	GAATGC	1 cut(s)	304
MvnI	CGCG	1 cut(s)	730
MwoI	GCNNNNNNNGC	3 cut(s)	266, 794, 863
NciI	CCSGG	1 cut(s)	110
NdeI	CATATG	1 cut(s)	271
NdeII	GATC	1 cut(s)	81
NlaIII	CATG	7 cut(s)	64, 229, 345, 394, 442, 446, 656
NlaIV	GGNNCC	4 cut(s)	95, 261, 458, 787
NmuCI	GTSAC	1 cut(s)	580
NsiI	ATGCAT	2 cut(s)	271, 444
NspI	RCATGY	3 cut(s)	345, 442, 446
NspV	TTCGAA	1 cut(s)	380
PaqCI	CACCTGC	1 cut(s)	410
PciSI	GCTCTTC	1 cut(s)	136
PctI	GAATGC	1 cut(s)	304
PdmI	GAANNNNTTC	1 cut(s)	92
PfeI	GAWTC	1 cut(s)	836
PflMI	CCANNNNNTGG	2 cut(s)	66, 678
PkrI	GCNGC	2 cut(s)	487, 859
PshBI	ATTAAT	1 cut(s)	44
Psp124BI	GAGCTC	1 cut(s)	148
Psp1406I	AACGTT	1 cut(s)	555
PspN4I	GGNNCC	4 cut(s)	95, 261, 458, 787
PspPI	GGNCC	2 cut(s)	106, 786
PstNI	CAGNNNCTG	1 cut(s)	863
PvuII	CAGCTG	1 cut(s)	741
RsaI	GTAC	4 cut(s)	243, 389, 663, 725
RsaNI	GTAC	4 cut(s)	242, 388, 662, 724
RseI	CAYNNNNRTG	2 cut(s)	34, 651
SacI	GAGCTC	1 cut(s)	148
SapI	GCTCTTC	1 cut(s)	136
SaqAI	TTAA	4 cut(s)	44, 116, 161, 525
SatI	GCNGC	2 cut(s)	486, 858
Sau3AI	GATC	1 cut(s)	81
Sau96I	GGNCC	2 cut(s)	106, 786
ScaI	AGTACT	1 cut(s)	243
ScrFI	CCNGG	1 cut(s)	110
SduI	GDGCHC	2 cut(s)	148, 262
SfaNI	GCATC	3 cut(s)	10, 256, 576
SfuI	TTCGAA	1 cut(s)	380
SinI	GGWCC	1 cut(s)	106
SmiMI	CAYNNNNRTG	2 cut(s)	34, 651
SmlI	CTYRAG	1 cut(s)	468
SmoI	CTYRAG	1 cut(s)	468
Sse9I	AATT	3 cut(s)	41, 162, 529
SsiI	CCGC	2 cut(s)	53, 818
SstI	GAGCTC	1 cut(s)	148
StyD4I	CCNGG	1 cut(s)	108
TaaI	ACNGT	1 cut(s)	723
TaiI	ACGT	1 cut(s)	558
TaqI	TCGA	4 cut(s)	84, 139, 380, 832
TasI	AATT	3 cut(s)	41, 162, 529
TatI	WGTACW	2 cut(s)	241, 723
TfiI	GAWTC	1 cut(s)	836
Tru1I	TTAA	4 cut(s)	44, 116, 161, 525
Tru9I	TTAA	4 cut(s)	44, 116, 161, 525
TscAI	CASTG	1 cut(s)	108
TseFI	GTSAC	1 cut(s)	580
TseI	GCWGC	2 cut(s)	485, 857
Tsp45I	GTSAC	1 cut(s)	580
TspDTI	ATGAA	2 cut(s)	164, 181
TspRI	CASTG	1 cut(s)	108
Van91I	CCANNNNNTGG	2 cut(s)	66, 678
VpaK11BI	GGWCC	1 cut(s)	106
VspI	ATTAAT	1 cut(s)	44
XceI	RCATGY	3 cut(s)	345, 442, 446
XcmI	CCANNNNNNNNNTGG	1 cut(s)	759
XmnI	GAANNNNTTC	1 cut(s)	92
ZrmI	AGTACT	1 cut(s)	243
Zsp2I	ATGCAT	2 cut(s)	271, 444

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