Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0008472

Physical Location & Seq

Genomic Coordinates Reverse (-)

8271977 .. 8273158

Gene Structure 1182 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0104300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1182 bp

ATGGTCAGAACCTCTTCCCTCACACCCAGAAGCAAATTCTTCATAAGAAAACACAGAAAATGGCCAGTCTCACCCTACAACACCAAATGGCACACCCTCTTCAATCAACACCAAGCACTACAAACCCTCAAACACTCCCCACTAAACCCACCCCAAAACCTTCTCTCCACACTCATCCACTCCTTCAAAACCTTCAACTCTGACCCAACCCCTGAAGCTTACAACTTTGTCCTCAAAACCCTAACTAAAACCTCACAACTGACCCACATCCCTTCTGTTCTTGACCGCCTTGAATCTGTAGAAAAATTCCACACACCCGAATCGATTTTCGCCAATCTGATTAGATTTTATGGCAGTGCCAATCGAATTGGGGATGCCATTGATGTTTTCTACAGGATTCCCAAGTTCAGGTGTGACCCTTCTGCGGTTTCACTCAATTCTTTGCTGTATGTGCTTTGTGGGAGTAGTGAAGGTCTTAAAATGGTGCCCCAGATTTTGTTGAACAGCCGAGCTATGGGGATTAGGCTTGAAGAGTCGAGCTTTCGGATTTTAATCACTGCATTGTGTGGAATTGGAAGGGTTGGGTATGCCATTGAGATAATGAAGTGCATGATCAGAAATGGGTATGATTTGGATGTAAAGATTTGCTCTTTGGTGCTGTCATCATTGTGTGAGCAAAAGGGTTTAGCTGGTTTGGAGGTTGTGGGTTTTTTGGAAGAAATGAAGAGAGTTGGGTTTTGTGCTGCGATGATGGACTATTCAAATGTGATTAGGTTTTTGGTGAAACAGGGGAAGGGTTTGGATGCTTTGAGGGTTTTGGGGAAGATGAAAGTGGAGGGAATGAAGCCTGATGTTGTTTGTTATACCATGGTTTTACATGGGGTTATTGCAGATGGGGATTACAAGAATGCGGATAAGGTGTTCGATGAATTGCTTGTGTTGGGTTTGGTTCCTGATGTTTATACGTACAATGTGTATATAAAGGGGTTGTGTAAGCAGAACAATGTGGAAGCTGGAATAAAGATGGTTACTTGTATGGAAGAGTTGGGGTGCAAGCCGAATTTGATTACTTATAACATGTTGTTGAAGGCGTTATGTAAGAATGGGGAGCTGGGTCGGGCGAAGGAGCTTGTGAGTGAGATGACCTTAAAAGGGTGTTGGGGTAAACTTGCAGACACATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0002376 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006952 GO:0006955 GO:0008150 GO:0008187 GO:0008266 GO:0009266 GO:0009409 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009631 GO:0009719 GO:0009725 GO:0009737 GO:0009892 GO:0009894 GO:0009895 GO:0009941 GO:0010033 GO:0010319 GO:0010468 GO:0010605 GO:0010608 GO:0016020 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0033993 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043489 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0045087 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0055035 GO:0060255 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:0097305 GO:1901363 GO:1901700 GO:1902369

KEGG Pathways

Metabolic & Signaling

ko05130 map05130

Pfam Domains

Protein Families

RRM_1

Protein Analysis

393

Amino Acids

44.1

Weight (kDa)

9.08

Isoelectric Point (pI)

30.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	238 - 292	1.1e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	253 - 294	2.1e-07	PPR repeat family
PPR_3	PF13812	279 - 328	5.6e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	283 - 332	1.4e-13	PPR repeat family
PPR_3	PF13812	306 - 367	3.6e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	315 - 347	2.4e-07	PPR repeat
PPR_2	PF13041	318 - 367	1.8e-15	PPR repeat family
PPR_1	PF12854	350 - 382	2.7e-12	PPR repeat
PPR_2	PF13041	353 - 386	5.9e-07	PPR repeat family
PPR	PF01535	356 - 386	1.9e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0008472)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37220 AT3G53460 AT3G53460 AT3G53460 AT3G53460
fragaria_vesca	FvH4_6g16030
malus_domestica	MD04G1096600.v1.1 MD12G1117600.v1.1
prunus_persica	Prupe.6G235900_v2.0.a1
pyrus_communis	pycom12g11630
rosa_chinensis	RchiOBHm_Chr3g0469771
rosa_laevigata	RLG00000004588 RLG00000024322
rosa_multiflora	Rmu_sc0004112.1_g000018 Rmu_sc0010644.1_g000006
rosa_roxburghii	Rroxscaffold_5G00378910 Rroxscaffold_6G00411500
rosa_rugosa	Rorug03G0104300
rosa_samantha	Rh3AG153400 Rh3BG177500 Rh3CG168300 Rh3DG198100
rosa_wichuraiana	Rw3G014460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1074
AccB1I	GGYRCC	1 cut(s)	484
AciI	CCGC	3 cut(s)	286, 425, 911
AcoI	YGGCCR	1 cut(s)	62
AcsI	RAATTY	3 cut(s)	35, 305, 1060
AcuI	CTGAAG	1 cut(s)	234
AfaI	GTAC	1 cut(s)	968
AfiI	CCNNNNNNNGG	4 cut(s)	408, 424, 514, 1152
AflIII	ACRYGT	1 cut(s)	1077
AgsI	TTSAA	8 cut(s)	103, 187, 196, 293, 502, 530, 762, 1087
AloI	GAACNNNNNNTCC	2 cut(s)	905, 937
AluBI	AGCT	7 cut(s)	218, 512, 540, 689, 1013, 1111, 1129
AluI	AGCT	7 cut(s)	218, 512, 540, 689, 1013, 1111, 1129
Alw26I	GTCTC	1 cut(s)	73
AoxI	GGCC	1 cut(s)	62
ApeKI	GCWGC	1 cut(s)	743
ApoI	RAATTY	3 cut(s)	35, 305, 1060
Asp700I	GAANNNNTTC	1 cut(s)	13
AsuHPI	GGTGA	2 cut(s)	63, 793
BaeGI	GKGCMC	1 cut(s)	489
BalI	TGGCCA	1 cut(s)	64
BanI	GGYRCC	1 cut(s)	484
BbvI	GCAGC	1 cut(s)	730
BccI	CCATC	3 cut(s)	745, 887, 1018
BclI	TGATCA	1 cut(s)	612
BcoDI	GTCTC	1 cut(s)	73
BfmI	CTRYAG	2 cut(s)	297, 391
BisI	GCNGC	1 cut(s)	744
BlsI	GCNGC	1 cut(s)	745
BmiI	GGNNCC	2 cut(s)	486, 951
BmsI	GCATC	2 cut(s)	364, 793
Bsa29I	ATCGAT	1 cut(s)	323
BsaAI	YACGTR	1 cut(s)	966
BsaBI	GATNNNNATC	1 cut(s)	551
BsaJI	CCNNGG	1 cut(s)	867
BsaXI	ACNNNNNCTCC	2 cut(s)	149, 179
Bsc4I	CCNNNNNNNGG	4 cut(s)	408, 424, 514, 1152
Bse1I	ACTGG	1 cut(s)	65
Bse8I	GATNNNNATC	1 cut(s)	551
BseCI	ATCGAT	1 cut(s)	323
BseDI	CCNNGG	1 cut(s)	867
BseGI	GGATG	5 cut(s)	174, 267, 379, 640, 808
BseJI	GATNNNNATC	1 cut(s)	551
BseLI	CCNNNNNNNGG	4 cut(s)	408, 424, 514, 1152
BseNI	ACTGG	1 cut(s)	65
BseSI	GKGCMC	1 cut(s)	489
BseXI	GCAGC	1 cut(s)	730
BseYI	CCCAGC	1 cut(s)	1111
BshFI	GGCC	1 cut(s)	64
BshNI	GGYRCC	1 cut(s)	484
BshVI	ATCGAT	1 cut(s)	323
BslI	CCNNNNNNNGG	4 cut(s)	408, 424, 514, 1152
BsmAI	GTCTC	1 cut(s)	73
BsmI	GAATGC	1 cut(s)	913
BsnI	GGCC	1 cut(s)	64
Bsp1286I	GDGCHC	1 cut(s)	489
Bsp143I	GATC	1 cut(s)	612
Bsp19I	CCATGG	1 cut(s)	867
BspACI	CCGC	3 cut(s)	286, 425, 911
BspANI	GGCC	1 cut(s)	64
BspDI	ATCGAT	1 cut(s)	323
BspLI	GGNNCC	2 cut(s)	486, 951
BspT107I	GGYRCC	1 cut(s)	484
BsrI	ACTGG	1 cut(s)	65
BssECI	CCNNGG	1 cut(s)	867
BssMI	GATC	1 cut(s)	612
BssT1I	CCWWGG	1 cut(s)	867
Bst6I	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
BstBAI	YACGTR	1 cut(s)	966
BstC8I	GCNNGC	1 cut(s)	1055
BstDSI	CCRYGG	1 cut(s)	867
BstF5I	GGATG	5 cut(s)	174, 267, 379, 640, 808
BstKTI	GATC	1 cut(s)	615
BstMAI	GTCTC	1 cut(s)	73
BstMBI	GATC	1 cut(s)	612
BstMWI	GCNNNNNNNGC	1 cut(s)	451
BstNSI	RCATGY	1 cut(s)	1081
BstSFI	CTRYAG	2 cut(s)	297, 391
BstSLI	GKGCMC	1 cut(s)	489
BstSNI	TACGTA	1 cut(s)	966
BstV1I	GCAGC	1 cut(s)	730
Bsu15I	ATCGAT	1 cut(s)	323
BsuRI	GGCC	1 cut(s)	64
BsuTUI	ATCGAT	1 cut(s)	323
BtgI	CCRYGG	1 cut(s)	867
BtgZI	GCGATG	1 cut(s)	761
BtsCI	GGATG	5 cut(s)	174, 267, 379, 640, 808
BtsI	GCAGTG	2 cut(s)	361, 555
BtsIMutI	CAGTG	2 cut(s)	361, 555
Cac8I	GCNNGC	1 cut(s)	1055
ClaI	ATCGAT	1 cut(s)	323
Csp6I	GTAC	1 cut(s)	967
CviAII	CATG	4 cut(s)	610, 868, 878, 1078
CviQI	GTAC	1 cut(s)	967
DpnI	GATC	1 cut(s)	614
DpnII	GATC	1 cut(s)	612
EaeI	YGGCCR	1 cut(s)	62
Eam1104I	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
EarI	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
Eco105I	TACGTA	1 cut(s)	966
Eco130I	CCWWGG	1 cut(s)	867
Eco57I	CTGAAG	1 cut(s)	234
EcoT14I	CCWWGG	1 cut(s)	867
ErhI	CCWWGG	1 cut(s)	867
FaeI	CATG	4 cut(s)	613, 871, 881, 1081
FatI	CATG	4 cut(s)	609, 867, 877, 1077
FbaI	TGATCA	1 cut(s)	612
Fnu4HI	GCNGC	1 cut(s)	744
FokI	GGATG	5 cut(s)	161, 254, 386, 647, 815
Fsp4HI	GCNGC	1 cut(s)	744
GluI	GCNGC	1 cut(s)	744
GsaI	CCCAGC	1 cut(s)	1115
HaeIII	GGCC	1 cut(s)	64
Hin1II	CATG	4 cut(s)	613, 871, 881, 1081
HindIII	AAGCTT	1 cut(s)	216
HinfI	GANTC	4 cut(s)	293, 320, 397, 533
HphI	GGTGA	2 cut(s)	63, 793
Hpy166II	GTNNAC	1 cut(s)	1166
Hpy188I	TCNGA	5 cut(s)	8, 202, 339, 546, 617
Hpy188III	TCNNGA	2 cut(s)	281, 953
Hpy8I	GTNNAC	1 cut(s)	1166
HpyCH4IV	ACGT	1 cut(s)	965
HpyCH4V	TGCA	5 cut(s)	560, 609, 890, 1053, 1172
HpyF10VI	GCNNNNNNNGC	1 cut(s)	451
HpySE526I	ACGT	1 cut(s)	965
Hsp92II	CATG	4 cut(s)	613, 871, 881, 1081
Ksp22I	TGATCA	1 cut(s)	612
Kzo9I	GATC	1 cut(s)	612
LmnI	GCTCC	2 cut(s)	1108, 1126
Lsp1109I	GCAGC	1 cut(s)	730
LweI	GCATC	2 cut(s)	364, 793
MaeII	ACGT	1 cut(s)	965
MaeIII	GTNAC	2 cut(s)	413, 1027
MalI	GATC	1 cut(s)	614
MboI	GATC	1 cut(s)	612
MboII	GAAGA	8 cut(s)	6, 31, 91, 542, 728, 736, 835, 1052
MhlI	GDGCHC	1 cut(s)	489
MlsI	TGGCCA	1 cut(s)	64
MluCI	AATT	7 cut(s)	35, 305, 366, 436, 570, 929, 1060
MluNI	TGGCCA	1 cut(s)	64
MlyI	GAGTC	1 cut(s)	542
MnlI	CCTC	9 cut(s)	22, 29, 107, 137, 242, 262, 691, 804, 829
Mox20I	TGGCCA	1 cut(s)	64
MroXI	GAANNNNTTC	1 cut(s)	13
MscI	TGGCCA	1 cut(s)	64
MseI	TTAA	3 cut(s)	477, 551, 1148
MslI	CAYNNNNRTG	1 cut(s)	667
Msp20I	TGGCCA	1 cut(s)	64
Mva1269I	GAATGC	1 cut(s)	913
MwoI	GCNNNNNNNGC	1 cut(s)	451
NcoI	CCATGG	1 cut(s)	867
NdeII	GATC	1 cut(s)	612
NlaIII	CATG	4 cut(s)	613, 871, 881, 1081
NlaIV	GGNNCC	2 cut(s)	486, 951
NmeAIII	GCCGAG	1 cut(s)	533
NmuCI	GTSAC	1 cut(s)	413
NspI	RCATGY	1 cut(s)	1081
PciI	ACATGT	1 cut(s)	1077
PctI	GAATGC	1 cut(s)	913
PdmI	GAANNNNTTC	1 cut(s)	13
PfeI	GAWTC	3 cut(s)	293, 320, 397
PkrI	GCNGC	1 cut(s)	745
PleI	GAGTC	1 cut(s)	541
PpsI	GAGTC	1 cut(s)	541
Ppu21I	YACGTR	1 cut(s)	966
PscI	ACATGT	1 cut(s)	1077
PsiI	TTATAA	1 cut(s)	1074
PspFI	CCCAGC	1 cut(s)	1111
PspN4I	GGNNCC	2 cut(s)	486, 951
RsaI	GTAC	1 cut(s)	968
RsaNI	GTAC	1 cut(s)	967
RseI	CAYNNNNRTG	1 cut(s)	667
SaqAI	TTAA	3 cut(s)	477, 551, 1148
SatI	GCNGC	1 cut(s)	744
Sau3AI	GATC	1 cut(s)	612
SchI	GAGTC	1 cut(s)	542
SduI	GDGCHC	1 cut(s)	489
SfaNI	GCATC	2 cut(s)	364, 793
SfcI	CTRYAG	2 cut(s)	297, 391
SmiMI	CAYNNNNRTG	1 cut(s)	667
SnaBI	TACGTA	1 cut(s)	966
Sse9I	AATT	7 cut(s)	35, 305, 366, 436, 570, 929, 1060
SsiI	CCGC	3 cut(s)	286, 425, 911
StyI	CCWWGG	1 cut(s)	867
TaiI	ACGT	1 cut(s)	968
TaqI	TCGA	4 cut(s)	323, 364, 536, 924
TasI	AATT	7 cut(s)	35, 305, 366, 436, 570, 929, 1060
TfiI	GAWTC	3 cut(s)	293, 320, 397
Tru1I	TTAA	3 cut(s)	477, 551, 1148
Tru9I	TTAA	3 cut(s)	477, 551, 1148
TscAI	CASTG	2 cut(s)	361, 562
TseFI	GTSAC	1 cut(s)	413
TseI	GCWGC	1 cut(s)	743
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	6 cut(s)	31, 617, 737, 842, 857, 942
TspRI	CASTG	2 cut(s)	361, 562
XapI	RAATTY	3 cut(s)	35, 305, 1060
XceI	RCATGY	1 cut(s)	1081
XmnI	GAANNNNTTC	1 cut(s)	13

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