Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0005098

Physical Location & Seq

Genomic Coordinates Forward (+)

49534323 .. 49535757

Gene Structure 1435 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0388600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1272 bp

ATGGATTTTTTTGGATCTCATACATGTATGTCTGCACTTAAGGATGATTTGGTAGCTGACTATATTCATAATGGGGCATGGAACTTTCCTTCTTTGCTTCAATTTCATTTTCCAGGCATATGTAAGTTAATTGATAATGTTCCTATTTCTATCGTTCCGGATATGCCTGATAAGTTGATTTGGGTTCCTTCATCTTCCGGAGAGCTAACAGCAAAAGAGGCATTCCATTTTCTTCGCCCACGCCTTCCACTCATGGATTGGGGTAAGCTCATATGGTCTACATTCATTATCCCTTGTATTTCTCTTCATTCTTGGAAAGTGTTGCGAGGTAGGGTGTTATCAGAGGATTTATTGCAGCGTCGAGGGATTGCTTTGACTTCTCGTTGTGTTCTTTGTGGTTTGGCTGGAGAGTCTCTACTGCATATATTTTTGAACTGTTCTTTTGCGGCATCATTATGGAATAGCTGGGCTTGTTTATTTGAGCTAAGTAACCTGCCACATACCTTAATTGATTTATTGCATTGGGGGTGTGTGGGACGTAGCCAGCAGCTCACCACTACCTTGTGGTTTATTTGGAAAGTGAGGAATAAAATGAGGCATGAGGATTGTACCATTGTTGTTGATGCAACACGTCAATTAATTATGGGGCACATGAAAGCATCTAGCAAATTAGCCTCAGGTTGTATGTCTAATCCTTTAACAGAGCTTCGGGTCTTGAAGAATTTTGGATTAAATTGTCGTTCTCGACGGGCTCCTAGGATTACTAAAGTTAATTGGCACCCTCCCATCGTGGGTTGGATTAAGATTAATACTGATGGTGCATGGCAAAGTGTTTCAGGGAGAGCGGGTTTTGGTGGAGTTTTTAGAGATTTCCATGGTTCATTCCTTGGTGCTTTTGCTTCTAACCTTGATATTCCTAGCTCTGTTGATACGGAGGTCATGGCAGTTATTCAAGCTATTGAGCTGGCTTGGGTTAGGGAATGGAAGCATATTTGGCTTGAGGTGGATTCAACACTTGTGCTCAATTTTCTTCGAGATCCTCATCTTGTTCCATGGCGTTTACGAGTGGCATGGGGTAATTGTTTGCATCGCATATCTCAGATGAACTTCCGATCTTCTCATATTTTCAGGGAAGGTAATCAAGTGGCAGATGCTCTTGCTAATATTGGTTTATCATTGTCTGCATTGACTTGGTGGGATGAGCCTCCTCATTTCATTCAGGACCAATGTCGACGAGATAAGCTTGGTCTCCCTAACTTTCGTTTTCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0001101 GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005886 GO:0006810 GO:0006811 GO:0006820 GO:0008150 GO:0008509 GO:0009705 GO:0009987 GO:0010035 GO:0010167 GO:0015075 GO:0015103 GO:0015112 GO:0015318 GO:0015698 GO:0015706 GO:0016020 GO:0022857 GO:0031090 GO:0034220 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051179 GO:0051234 GO:0051716 GO:0055085 GO:0070887 GO:0071229 GO:0071241 GO:0071249 GO:0071705 GO:0071944 GO:0098588 GO:0098656 GO:0098805 GO:1901698 GO:1901699 GO:1901700 GO:1901701 GO:1902170

KEGG Pathways

Metabolic & Signaling

ko00910 map00910

Pfam Domains

Protein Families

MFS_1

Protein Analysis

423

Amino Acids

48.23

Weight (kDa)

8.91

Isoelectric Point (pI)

40.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	70 - 153	1.3e-18	zinc-binding in reverse transcriptase
RVT_3	PF13456	270 - 388	1.3e-18	Reverse transcriptase-like

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: OG0005098)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12940
fragaria_vesca	FvH4_4g25770 FvH4_4g25780
malus_domestica	MD13G1096700.v1.1
prunus_persica	Prupe.1G249000_v2.0.a1
pyrus_communis	pycom13g08430
rosa_chinensis	RchiOBHm_Chr2g0144671 RchiOBHm_Chr4g0433231 RchiOBHm_Chr4g0433241
rosa_laevigata	RLG00000006772 RLG00000006773 RLG00000020099
rosa_multiflora	Rmu_sc0000957.1_g000005 Rmu_sc0001623.1_g000001 Rmu_ssc0000295.1_g000002
rosa_roxburghii	Rroxscaffold_5G00374770 Rroxscaffold_5G00374790
rosa_rugosa	Rorug02G0388600 Rorug04G0267000 Rorug04G0267100
rosa_samantha	Rh2BG450900 Rh2DG460900 Rh4AG321600 Rh4AG321800 Rh4BG328700 Rh4CG344100 Rh4DG325400 Rh4DG325900
rosa_wichuraiana	Rw2G036030 Rw4G027850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	501
AccB1I	GGYRCC	1 cut(s)	777
AccBSI	CCGCTC	1 cut(s)	845
AccI	GTMKAC	2 cut(s)	278, 1231
AccIII	TCCGGA	2 cut(s)	157, 197
AciI	CCGC	2 cut(s)	446, 845
AclWI	GGATC	2 cut(s)	22, 1031
AcsI	RAATTY	1 cut(s)	721
AfaI	GTAC	1 cut(s)	610
AfiI	CCNNNNNNNGG	1 cut(s)	791
AflII	CTTAAG	1 cut(s)	38
AflIII	ACRYGT	2 cut(s)	23, 629
AgsI	TTSAA	5 cut(s)	101, 433, 718, 953, 1011
AjiI	CACGTC	1 cut(s)	632
AjnI	CCWGG	1 cut(s)	112
Alw21I	GWGCWC	1 cut(s)	1023
Alw26I	GTCTC	2 cut(s)	417, 1253
AlwI	GGATC	2 cut(s)	22, 1031
Aor13HI	TCCGGA	2 cut(s)	157, 197
ApeKI	GCWGC	2 cut(s)	355, 547
ApoI	RAATTY	1 cut(s)	721
AseI	ATTAAT	2 cut(s)	638, 807
AspA2I	CCTAGG	1 cut(s)	755
AspS9I	GGNCC	1 cut(s)	1222
AsuHPI	GGTGA	1 cut(s)	544
AvaII	GGWCC	1 cut(s)	1222
AvrII	CCTAGG	1 cut(s)	755
AxyI	CCTNAGG	1 cut(s)	676
BaeGI	GKGCMC	1 cut(s)	651
BaeI	ACNNNNGTAYC	2 cut(s)	921, 954
BanI	GGYRCC	1 cut(s)	777
BanII	GRGCYC	1 cut(s)	754
Bbv12I	GWGCWC	1 cut(s)	1023
BbvI	GCAGC	2 cut(s)	367, 559
BccI	CCATC	2 cut(s)	794, 809
BciT130I	CCWGG	1 cut(s)	114
BcoDI	GTCTC	2 cut(s)	417, 1253
BfaI	CTAG	3 cut(s)	663, 756, 918
BfrI	CTTAAG	1 cut(s)	38
BfuAI	ACCTGC	1 cut(s)	501
BisI	GCNGC	3 cut(s)	356, 447, 548
BlnI	CCTAGG	1 cut(s)	755
BlsI	GCNGC	3 cut(s)	357, 448, 549
Bme1390I	CCNGG	1 cut(s)	114
Bme18I	GGWCC	1 cut(s)	1222
BmgBI	CACGTC	1 cut(s)	632
BmgT120I	GGNCC	1 cut(s)	1222
BmiI	GGNNCC	3 cut(s)	186, 753, 779
BmrFI	CCNGG	1 cut(s)	114
BmsI	GCATC	5 cut(s)	458, 613, 668, 1096, 1141
BoxI	GACNNNNGTC	1 cut(s)	1227
BpmI	CTGGAG	1 cut(s)	426
BpuEI	CTTGAG	1 cut(s)	1019
BsaBI	GATNNNNATC	1 cut(s)	1041
BsaI	GGTCTC	1 cut(s)	1253
BsaJI	CCNNGG	4 cut(s)	755, 874, 886, 1052
BsaWI	WCCGGW	2 cut(s)	157, 197
BsaXI	ACNNNNNCTCC	2 cut(s)	832, 862
Bsc4I	CCNNNNNNNGG	1 cut(s)	791
Bse21I	CCTNAGG	1 cut(s)	676
Bse8I	GATNNNNATC	1 cut(s)	1041
BseAI	TCCGGA	2 cut(s)	157, 197
BseBI	CCWGG	1 cut(s)	114
BseDI	CCNNGG	4 cut(s)	755, 874, 886, 1052
BseGI	GGATG	2 cut(s)	49, 1204
BseJI	GATNNNNATC	1 cut(s)	1041
BseLI	CCNNNNNNNGG	1 cut(s)	791
BseMII	CTCAG	2 cut(s)	690, 1112
BseRI	GAGGAG	1 cut(s)	1197
BseSI	GKGCMC	1 cut(s)	651
BseXI	GCAGC	2 cut(s)	367, 559
BseYI	CCCAGC	1 cut(s)	465
BsgI	GTGCAG	1 cut(s)	18
BshNI	GGYRCC	1 cut(s)	777
BsiHKAI	GWGCWC	1 cut(s)	1023
BsiSI	CCGG	2 cut(s)	158, 198
BslFI	GGGAC	1 cut(s)	549
BslI	CCNNNNNNNGG	1 cut(s)	791
BsmAI	GTCTC	2 cut(s)	417, 1253
BsmFI	GGGAC	1 cut(s)	549
BsmI	GAATGC	1 cut(s)	221
Bso31I	GGTCTC	1 cut(s)	1253
Bsp1286I	GDGCHC	3 cut(s)	651, 754, 1023
Bsp13I	TCCGGA	2 cut(s)	157, 197
Bsp143I	GATC	3 cut(s)	14, 1036, 1112
Bsp19I	CCATGG	2 cut(s)	874, 1052
BspACI	CCGC	2 cut(s)	446, 845
BspCNI	CTCAG	2 cut(s)	689, 1111
BspEI	TCCGGA	2 cut(s)	157, 197
BspLI	GGNNCC	3 cut(s)	186, 753, 779
BspMI	ACCTGC	1 cut(s)	501
BspPI	GGATC	2 cut(s)	22, 1031
BspT107I	GGYRCC	1 cut(s)	777
BspTI	CTTAAG	1 cut(s)	38
BspTNI	GGTCTC	1 cut(s)	1253
BsrBI	CCGCTC	1 cut(s)	845
BssECI	CCNNGG	4 cut(s)	755, 874, 886, 1052
BssMI	GATC	3 cut(s)	14, 1036, 1112
BssT1I	CCWWGG	4 cut(s)	755, 874, 886, 1052
Bst2UI	CCWGG	1 cut(s)	114
Bst4CI	ACNGT	1 cut(s)	437
Bst6I	CTCTTC	1 cut(s)	309
BstAFI	CTTAAG	1 cut(s)	38
BstC8I	GCNNGC	2 cut(s)	545, 966
BstDEI	CTNAG	3 cut(s)	485, 676, 1098
BstDSI	CCRYGG	2 cut(s)	874, 1052
BstF5I	GGATG	2 cut(s)	49, 1204
BstKTI	GATC	3 cut(s)	17, 1039, 1115
BstMAI	GTCTC	2 cut(s)	417, 1253
BstMBI	GATC	3 cut(s)	14, 1036, 1112
BstMWI	GCNNNNNNNGC	2 cut(s)	218, 994
BstNI	CCWGG	1 cut(s)	114
BstNSI	RCATGY	1 cut(s)	27
BstPAI	GACNNNNGTC	1 cut(s)	1227
BstSCI	CCNGG	1 cut(s)	112
BstSLI	GKGCMC	1 cut(s)	651
BstV1I	GCAGC	2 cut(s)	367, 559
BstX2I	RGATCY	2 cut(s)	14, 1036
BstYI	RGATCY	2 cut(s)	14, 1036
Bsu36I	CCTNAGG	1 cut(s)	676
BtgI	CCRYGG	2 cut(s)	874, 1052
BtgZI	GCGATG	1 cut(s)	1073
BtrI	CACGTC	1 cut(s)	632
BtsCI	GGATG	2 cut(s)	49, 1204
BveI	ACCTGC	1 cut(s)	501
Cac8I	GCNNGC	2 cut(s)	545, 966
Cfr13I	GGNCC	1 cut(s)	1222
CseI	GACGC	1 cut(s)	347
Csp6I	GTAC	1 cut(s)	609
CviQI	GTAC	1 cut(s)	609
DdeI	CTNAG	3 cut(s)	485, 676, 1098
DpnI	GATC	3 cut(s)	16, 1038, 1114
DpnII	GATC	3 cut(s)	14, 1036, 1112
Eam1104I	CTCTTC	1 cut(s)	309
EarI	CTCTTC	1 cut(s)	309
Eco130I	CCWWGG	4 cut(s)	755, 874, 886, 1052
Eco24I	GRGCYC	1 cut(s)	754
Eco31I	GGTCTC	1 cut(s)	1253
Eco47I	GGWCC	1 cut(s)	1222
Eco81I	CCTNAGG	1 cut(s)	676
EcoRII	CCWGG	1 cut(s)	112
EcoT14I	CCWWGG	4 cut(s)	755, 874, 886, 1052
EcoT38I	GRGCYC	1 cut(s)	754
ErhI	CCWWGG	4 cut(s)	755, 874, 886, 1052
FaqI	GGGAC	1 cut(s)	549
FauI	CCCGC	1 cut(s)	838
FauNDI	CATATG	2 cut(s)	119, 272
FblI	GTMKAC	2 cut(s)	278, 1231
Fnu4HI	GCNGC	3 cut(s)	356, 447, 548
FokI	GGATG	2 cut(s)	56, 1211
FriOI	GRGCYC	1 cut(s)	754
Fsp4HI	GCNGC	3 cut(s)	356, 447, 548
FspBI	CTAG	3 cut(s)	663, 756, 918
GluI	GCNGC	3 cut(s)	356, 447, 548
GsaI	CCCAGC	1 cut(s)	469
GsuI	CTGGAG	1 cut(s)	426
HapII	CCGG	2 cut(s)	158, 198
HgaI	GACGC	1 cut(s)	347
HincII	GTYRAC	1 cut(s)	1232
HindII	GTYRAC	1 cut(s)	1232
HindIII	AAGCTT	1 cut(s)	1241
HinfI	GANTC	2 cut(s)	410, 1007
HpaII	CCGG	2 cut(s)	158, 198
HphI	GGTGA	1 cut(s)	544
Hpy166II	GTNNAC	3 cut(s)	279, 1061, 1232
Hpy188I	TCNGA	3 cut(s)	343, 1101, 1112
Hpy188III	TCNNGA	6 cut(s)	158, 198, 715, 744, 1034, 1220
Hpy8I	GTNNAC	3 cut(s)	279, 1061, 1232
Hpy99I	CGWCG	3 cut(s)	363, 750, 1236
HpyAV	CCTTC	4 cut(s)	99, 198, 254, 1127
HpyCH4III	ACNGT	1 cut(s)	437
HpyCH4IV	ACGT	2 cut(s)	538, 631
HpyCH4V	TGCA	8 cut(s)	35, 355, 421, 520, 626, 821, 1087, 1184
HpyF10VI	GCNNNNNNNGC	2 cut(s)	218, 994
HpyF3I	CTNAG	3 cut(s)	485, 676, 1098
HpySE526I	ACGT	2 cut(s)	538, 631
Kpn2I	TCCGGA	2 cut(s)	157, 197
Kzo9I	GATC	3 cut(s)	14, 1036, 1112
LmnI	GCTCC	1 cut(s)	757
Lsp1109I	GCAGC	2 cut(s)	367, 559
LweI	GCATC	5 cut(s)	458, 613, 668, 1096, 1141
MaeI	CTAG	3 cut(s)	663, 756, 918
MaeII	ACGT	2 cut(s)	538, 631
MaeIII	GTNAC	1 cut(s)	488
MalI	GATC	3 cut(s)	16, 1038, 1114
MbiI	CCGCTC	1 cut(s)	845
MboI	GATC	3 cut(s)	14, 1036, 1112
MboII	GAAGA	6 cut(s)	186, 224, 296, 730, 1022, 1107
MflI	RGATCY	2 cut(s)	14, 1036
MhlI	GDGCHC	3 cut(s)	651, 754, 1023
MlyI	GAGTC	1 cut(s)	419
MmeI	TCCRAC	1 cut(s)	776
MroI	TCCGGA	2 cut(s)	157, 197
MslI	CAYNNNNRTG	1 cut(s)	454
MspCI	CTTAAG	1 cut(s)	38
MspI	CCGG	2 cut(s)	158, 198
MspR9I	CCNGG	1 cut(s)	114
Mva1269I	GAATGC	1 cut(s)	221
MvaI	CCWGG	1 cut(s)	114
MwoI	GCNNNNNNNGC	2 cut(s)	218, 994
NcoI	CCATGG	2 cut(s)	874, 1052
NdeI	CATATG	2 cut(s)	119, 272
NdeII	GATC	3 cut(s)	14, 1036, 1112
NlaIV	GGNNCC	3 cut(s)	186, 753, 779
NspI	RCATGY	1 cut(s)	27
PciI	ACATGT	1 cut(s)	23
PctI	GAATGC	1 cut(s)	221
PfeI	GAWTC	1 cut(s)	1007
PkrI	GCNGC	3 cut(s)	357, 448, 549
PleI	GAGTC	1 cut(s)	418
PpsI	GAGTC	1 cut(s)	418
PscI	ACATGT	1 cut(s)	23
PshAI	GACNNNNGTC	1 cut(s)	1227
PshBI	ATTAAT	2 cut(s)	638, 807
Psp6I	CCWGG	1 cut(s)	112
PspFI	CCCAGC	1 cut(s)	465
PspGI	CCWGG	1 cut(s)	112
PspN4I	GGNNCC	3 cut(s)	186, 753, 779
PspPI	GGNCC	1 cut(s)	1222
PsuI	RGATCY	2 cut(s)	14, 1036
RsaI	GTAC	1 cut(s)	610
RsaNI	GTAC	1 cut(s)	609
RseI	CAYNNNNRTG	1 cut(s)	454
SalI	GTCGAC	1 cut(s)	1230
SatI	GCNGC	3 cut(s)	356, 447, 548
Sau3AI	GATC	3 cut(s)	14, 1036, 1112
Sau96I	GGNCC	1 cut(s)	1222
SchI	GAGTC	1 cut(s)	419
ScrFI	CCNGG	1 cut(s)	114
SduI	GDGCHC	3 cut(s)	651, 754, 1023
SfaNI	GCATC	5 cut(s)	458, 613, 668, 1096, 1141
SinI	GGWCC	1 cut(s)	1222
SmiMI	CAYNNNNRTG	1 cut(s)	454
SmlI	CTYRAG	2 cut(s)	38, 998
SmoI	CTYRAG	2 cut(s)	38, 998
SsiI	CCGC	2 cut(s)	446, 845
SspI	AATATT	1 cut(s)	1165
SspMI	CTAG	3 cut(s)	663, 756, 918
StyD4I	CCNGG	1 cut(s)	112
StyI	CCWWGG	4 cut(s)	755, 874, 886, 1052
TaaI	ACNGT	1 cut(s)	437
TaiI	ACGT	2 cut(s)	541, 634
TaqI	TCGA	4 cut(s)	361, 745, 1033, 1231
TauI	GCSGC	1 cut(s)	449
TfiI	GAWTC	1 cut(s)	1007
TseI	GCWGC	2 cut(s)	355, 547
TspGWI	ACGGA	1 cut(s)	947
Vha464I	CTTAAG	1 cut(s)	38
VpaK11BI	GGWCC	1 cut(s)	1222
VspI	ATTAAT	2 cut(s)	638, 807
XapI	RAATTY	1 cut(s)	721
XceI	RCATGY	1 cut(s)	27
XcmI	CCANNNNNNNNNTGG	1 cut(s)	255
XmaJI	CCTAGG	1 cut(s)	755
XmiI	GTMKAC	2 cut(s)	278, 1231
XspI	CTAG	3 cut(s)	663, 756, 918

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