Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0003230

Physical Location & Seq

Genomic Coordinates Forward (+)

19124917 .. 19126530

Gene Structure 1614 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0194700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGATTGGTAGAGGTATTGCTCCAGACGTTGTTACTTACACTTGTTTGATTCAAGGAGTTTGCAATATAGGCCGGTGGAAAGAAGCTACATGGTTGTTGAATGAAATGGTGAGTCAAAATATCTTTCCGAATCTCCTCACCTTCAATGTCTTGGTTGATGCACTTTGTAAGCAGGGAATGGTCGCGGAAACCAATAGTGTCATTGAGATGATGATTCAAAGAGGAATTGAACCTAACACGATTACATACAATTCCCTTATGGACGGTTACTGTTTGCGAGGAGAAATGGACGAGGCGAAACAAGTTTTTGATCTTATGATTAGCAAGGGCTCCATGGTTGATGTTCAGAGTTGTAACATATTGATTAACGGATATTGCAAGGGTAAAATGATCGATAAGGCTTACAATATTTCCAAGGAAATGCCTCTTAGGGGACTTGTTCCTGATATCGTTACTTATAACACTCTTATTGATGGTTTTTGTAAAGCGAGGAGACTACAAGAAGCAGAAAAGTTGCTCTCCGAGATGCAAGGTTGTGGCCAACATCCAAATATTCGAACTTATGCTGTTTTACTTGATGCCCTATGTAGCAACCAGCAACTTTCAAAGGCAATAGAATTGCTTAGAGAGATGAAGGACAAGAAGTTGGAACTAAATATTGTAGTTTACACTATTATCATTGAAGGTTTGTTGAAAGCTGGGAAAGTTGAATCTGCAACAGAGGTCTTCTCTAGTTTGTCATCAAAAGTAGTTCAGCCTAATGTGTGGACATACAATGTAATGATTAGGGGACTTTGTAACGGTGGCCTCTTAGTTGAAGCAGAAAAGTTGTTTAGAGAAATGAAACAAAAAGGCTGTTCTGCTGATGGCTGTACCTATAACACAATTATCCGGGGGTTTATCATTAATAATGAAGCATCAAGGGCTATGGGACTTATGCAAGAAATGGCTGAGAGGGGTTTCTCTGCAAATGCATCAACTATGGAATTGATAGTTAATTTATTGTCTAAGGATAGAGTAGATCCCGCTTTGTTGCCATTGTTGAAAAATTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0000149 GO:0003674 GO:0005484 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0005773 GO:0005794 GO:0005802 GO:0006810 GO:0006886 GO:0006906 GO:0006996 GO:0008104 GO:0008150 GO:0009987 GO:0010008 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016021 GO:0016043 GO:0016050 GO:0016192 GO:0022406 GO:0031090 GO:0031201 GO:0031224 GO:0031410 GO:0031902 GO:0031982 GO:0031984 GO:0032588 GO:0032991 GO:0033036 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048278 GO:0048284 GO:0051179 GO:0051234 GO:0051640 GO:0051641 GO:0051649 GO:0061024 GO:0061025 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0090174 GO:0097708 GO:0098588 GO:0098791 GO:0098796 GO:0098805 GO:0140056

KEGG Pathways

Metabolic & Signaling

ko04130 map04130

Pfam Domains

Protein Families

SNARE

Protein Analysis

351

Amino Acids

39.07

Weight (kDa)

6.08

Isoelectric Point (pI)

34.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	4 - 55	1.7e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	4 - 37	9e-11	PPR repeat
PPR_2	PF13041	8 - 57	2e-16	PPR repeat family
PPR	PF01535	11 - 41	4.4e-06	PPR repeat
PPR_1	PF12854	40 - 71	5.1e-06	PPR repeat
PPR_2	PF13041	43 - 91	5.5e-14	PPR repeat family
PPR_3	PF13812	67 - 123	7.1e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	74 - 106	4.1e-13	PPR repeat
PPR_2	PF13041	78 - 124	1.3e-12	PPR repeat family
PPR	PF01535	81 - 110	2.4e-09	PPR repeat
PPR_long	PF17177	97 - 261	5.1e-13	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	114 - 162	2.4e-16	PPR repeat family
PPR_3	PF13812	137 - 195	2.2e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	144 - 177	6.4e-16	PPR repeat
PPR_2	PF13041	148 - 196	3.9e-18	PPR repeat family
PPR	PF01535	151 - 180	7.1e-10	PPR repeat
TPR_24	PF23276	152 - 245	2e-10	Fungal tetratrico peptide repeats
PPR_1	PF12854	180 - 212	1.4e-07	PPR repeat
PPR_2	PF13041	190 - 230	5.8e-09	PPR repeat family
PPR_3	PF13812	207 - 263	1.8e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	219 - 267	4e-15	PPR repeat family
PPR_1	PF12854	251 - 282	9.2e-12	PPR repeat
PPR_2	PF13041	257 - 300	2.7e-14	PPR repeat family
PPR	PF01535	257 - 286	2.1e-10	PPR repeat
PPR_2	PF13041	291 - 335	5.1e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003230)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G16240 AT1G16240 AT1G16240 AT1G16240 AT1G79590 AT1G79590 AT1G79590
fragaria_vesca	FvH4_3g23630 FvH4_3g23630 FvH4_3g23630
malus_domestica	MD03G1192400.v1.1 MD11G1208900.v1.1 MD12G1111800.v1.1
prunus_persica	Prupe.4G224800_v2.0.a1 Prupe.4G224800_v2.0.a1 Prupe.7G022100_v2.0.a1 Prupe.7G022100_v2.0.a1 Prupe.7G022100_v2.0.a1 Prupe.7G022100_v2.0.a1 Prupe.7G022100_v2.0.a1 Prupe.7G022100_v2.0.a1
pyrus_communis	pycom03g14480 pycom11g18380 pycom12g09190
rosa_chinensis	RchiOBHm_Chr5g0041671
rosa_laevigata	RLG00000034089
rosa_multiflora	Rmu_co8385815.1_g000001 Rmu_sc0000861.1_g000017 Rmu_sc0005255.1_g000053
rosa_roxburghii	Rroxscaffold_1G00038830
rosa_rugosa	Rorug05G0194600 Rorug05G0194700
rosa_samantha	Rh5AG279900 Rh5BG285400 Rh5DG294200
rosa_wichuraiana	Rw0G011100 Rw5G026360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	459
AccII	CGCG	1 cut(s)	185
AciI	CCGC	2 cut(s)	185, 1026
AclWI	GGATC	1 cut(s)	1016
AcoI	YGGCCR	1 cut(s)	538
AcsI	RAATTY	1 cut(s)	1048
AfaI	GTAC	1 cut(s)	874
AfiI	CCNNNNNNNGG	1 cut(s)	431
AluBI	AGCT	2 cut(s)	86, 698
AluI	AGCT	2 cut(s)	86, 698
Alw26I	GTCTC	1 cut(s)	487
AlwI	GGATC	1 cut(s)	1016
AoxI	GGCC	3 cut(s)	70, 538, 805
ApoI	RAATTY	1 cut(s)	1048
AseI	ATTAAT	1 cut(s)	906
AsuC2I	CCSGG	1 cut(s)	893
AsuHPI	GGTGA	2 cut(s)	121, 130
AsuII	TTCGAA	1 cut(s)	556
BalI	TGGCCA	1 cut(s)	540
BanII	GRGCYC	1 cut(s)	332
BbsI	GAAGAC	1 cut(s)	718
BccI	CCATC	2 cut(s)	467, 860
BcnI	CCSGG	1 cut(s)	893
BcoDI	GTCTC	1 cut(s)	487
BfaI	CTAG	1 cut(s)	732
Bme1390I	CCNGG	1 cut(s)	893
BmiI	GGNNCC	1 cut(s)	331
BmrFI	CCNGG	1 cut(s)	893
BmsI	GCATC	5 cut(s)	148, 516, 568, 926, 983
BpiI	GAAGAC	1 cut(s)	718
BplI	GAGNNNNNCTC	2 cut(s)	713, 745
BpmI	CTGGAG	1 cut(s)	6
Bpu14I	TTCGAA	1 cut(s)	556
BpuMI	CCSGG	1 cut(s)	893
Bsa29I	ATCGAT	1 cut(s)	393
BsaJI	CCNNGG	3 cut(s)	333, 414, 892
Bsc4I	CCNNNNNNNGG	1 cut(s)	431
Bse118I	RCCGGY	1 cut(s)	72
BseCI	ATCGAT	1 cut(s)	393
BseDI	CCNNGG	3 cut(s)	333, 414, 892
BseGI	GGATG	1 cut(s)	544
BseLI	CCNNNNNNNGG	1 cut(s)	431
BseMII	CTCAG	1 cut(s)	942
BseRI	GAGGAG	3 cut(s)	125, 294, 505
BseYI	CCCAGC	1 cut(s)	698
Bsh1236I	CGCG	1 cut(s)	185
BshFI	GGCC	3 cut(s)	72, 540, 807
BshVI	ATCGAT	1 cut(s)	393
BsiSI	CCGG	2 cut(s)	73, 892
BslFI	GGGAC	3 cut(s)	447, 804, 945
BslI	CCNNNNNNNGG	1 cut(s)	431
BsmAI	GTCTC	1 cut(s)	487
BsmFI	GGGAC	3 cut(s)	447, 804, 945
BsnI	GGCC	3 cut(s)	72, 540, 807
Bsp119I	TTCGAA	1 cut(s)	556
Bsp1286I	GDGCHC	1 cut(s)	332
Bsp143I	GATC	3 cut(s)	310, 390, 1021
Bsp19I	CCATGG	1 cut(s)	333
BspACI	CCGC	2 cut(s)	185, 1026
BspANI	GGCC	3 cut(s)	72, 540, 807
BspCNI	CTCAG	1 cut(s)	943
BspDI	ATCGAT	1 cut(s)	393
BspFNI	CGCG	1 cut(s)	185
BspHI	TCATGA	1 cut(s)	1052
BspLI	GGNNCC	1 cut(s)	331
BspPI	GGATC	1 cut(s)	1016
BspT104I	TTCGAA	1 cut(s)	556
BsrFI	RCCGGY	1 cut(s)	72
BssAI	RCCGGY	1 cut(s)	72
BssECI	CCNNGG	3 cut(s)	333, 414, 892
BssMI	GATC	3 cut(s)	310, 390, 1021
BssT1I	CCWWGG	2 cut(s)	333, 414
Bst4CI	ACNGT	3 cut(s)	266, 272, 803
BstBI	TTCGAA	1 cut(s)	556
BstDEI	CTNAG	5 cut(s)	428, 623, 811, 951, 1008
BstDSI	CCRYGG	1 cut(s)	333
BstF5I	GGATG	1 cut(s)	544
BstFNI	CGCG	1 cut(s)	185
BstKTI	GATC	3 cut(s)	313, 393, 1024
BstMAI	GTCTC	1 cut(s)	487
BstMBI	GATC	3 cut(s)	310, 390, 1021
BstMWI	GCNNNNNNNGC	2 cut(s)	69, 923
BstSCI	CCNGG	1 cut(s)	891
BstUI	CGCG	1 cut(s)	185
BstV2I	GAAGAC	1 cut(s)	718
BstX2I	RGATCY	1 cut(s)	1021
BstYI	RGATCY	1 cut(s)	1021
Bsu15I	ATCGAT	1 cut(s)	393
BsuRI	GGCC	3 cut(s)	72, 540, 807
BsuTUI	ATCGAT	1 cut(s)	393
BtgI	CCRYGG	1 cut(s)	333
BtsCI	GGATG	1 cut(s)	544
CciI	TCATGA	1 cut(s)	1052
Cfr10I	RCCGGY	1 cut(s)	72
ClaI	ATCGAT	1 cut(s)	393
Csp6I	GTAC	1 cut(s)	873
CviAII	CATG	3 cut(s)	90, 334, 1053
CviQI	GTAC	1 cut(s)	873
DdeI	CTNAG	5 cut(s)	428, 623, 811, 951, 1008
DpnI	GATC	3 cut(s)	312, 392, 1023
DpnII	GATC	3 cut(s)	310, 390, 1021
EaeI	YGGCCR	1 cut(s)	538
Eco130I	CCWWGG	2 cut(s)	333, 414
Eco24I	GRGCYC	1 cut(s)	332
Eco32I	GATATC	1 cut(s)	448
EcoRV	GATATC	1 cut(s)	448
EcoT14I	CCWWGG	2 cut(s)	333, 414
EcoT22I	ATGCAT	1 cut(s)	976
EcoT38I	GRGCYC	1 cut(s)	332
ErhI	CCWWGG	2 cut(s)	333, 414
FaeI	CATG	3 cut(s)	93, 337, 1056
FaqI	GGGAC	3 cut(s)	447, 804, 945
FatI	CATG	3 cut(s)	89, 333, 1052
FauI	CCCGC	1 cut(s)	1033
FokI	GGATG	1 cut(s)	531
FriOI	GRGCYC	1 cut(s)	332
FspBI	CTAG	1 cut(s)	732
GsaI	CCCAGC	1 cut(s)	702
GsuI	CTGGAG	1 cut(s)	6
HaeIII	GGCC	3 cut(s)	72, 540, 807
HapII	CCGG	2 cut(s)	73, 892
Hin1II	CATG	3 cut(s)	93, 337, 1056
HinfI	GANTC	5 cut(s)	49, 112, 130, 214, 710
HpaII	CCGG	2 cut(s)	73, 892
HphI	GGTGA	2 cut(s)	121, 130
Hpy166II	GTNNAC	2 cut(s)	667, 768
Hpy188I	TCNGA	3 cut(s)	129, 348, 523
Hpy188III	TCNNGA	3 cut(s)	23, 443, 1053
Hpy8I	GTNNAC	2 cut(s)	667, 768
HpyAV	CCTTC	3 cut(s)	151, 628, 677
HpyCH4III	ACNGT	3 cut(s)	266, 272, 803
HpyCH4IV	ACGT	1 cut(s)	27
HpyCH4V	TGCA	8 cut(s)	63, 161, 378, 529, 716, 940, 968, 974
HpyF10VI	GCNNNNNNNGC	2 cut(s)	69, 923
HpyF3I	CTNAG	5 cut(s)	428, 623, 811, 951, 1008
HpySE526I	ACGT	1 cut(s)	27
Hsp92II	CATG	3 cut(s)	93, 337, 1056
Kzo9I	GATC	3 cut(s)	310, 390, 1021
LmnI	GCTCC	2 cut(s)	25, 335
LpnPI	CCDG	7 cut(s)	36, 86, 158, 456, 608, 684, 905
LweI	GCATC	5 cut(s)	148, 516, 568, 926, 983
MaeI	CTAG	1 cut(s)	732
MaeII	ACGT	1 cut(s)	27
MaeIII	GTNAC	5 cut(s)	31, 266, 353, 451, 797
MalI	GATC	3 cut(s)	312, 392, 1023
MboI	GATC	3 cut(s)	310, 390, 1021
MboII	GAAGA	1 cut(s)	718
MflI	RGATCY	1 cut(s)	1021
MhlI	GDGCHC	1 cut(s)	332
MlsI	TGGCCA	1 cut(s)	540
MluCI	AATT	7 cut(s)	225, 250, 617, 885, 986, 997, 1048
MluNI	TGGCCA	1 cut(s)	540
MlyI	GAGTC	1 cut(s)	121
MmeI	TCCRAC	1 cut(s)	627
Mox20I	TGGCCA	1 cut(s)	540
Mph1103I	ATGCAT	1 cut(s)	976
MscI	TGGCCA	1 cut(s)	540
MseI	TTAA	3 cut(s)	366, 906, 996
MslI	CAYNNNNRTG	1 cut(s)	206
Msp20I	TGGCCA	1 cut(s)	540
MspI	CCGG	2 cut(s)	73, 892
MspR9I	CCNGG	1 cut(s)	893
MvnI	CGCG	1 cut(s)	185
MwoI	GCNNNNNNNGC	2 cut(s)	69, 923
NciI	CCSGG	1 cut(s)	893
NcoI	CCATGG	1 cut(s)	333
NdeII	GATC	3 cut(s)	310, 390, 1021
NlaIII	CATG	3 cut(s)	93, 337, 1056
NlaIV	GGNNCC	1 cut(s)	331
NsiI	ATGCAT	1 cut(s)	976
NspV	TTCGAA	1 cut(s)	556
PagI	TCATGA	1 cut(s)	1052
PfeI	GAWTC	4 cut(s)	49, 130, 214, 710
PleI	GAGTC	1 cut(s)	120
PpsI	GAGTC	1 cut(s)	120
PshBI	ATTAAT	1 cut(s)	906
PsiI	TTATAA	1 cut(s)	459
PspFI	CCCAGC	1 cut(s)	698
PspN4I	GGNNCC	1 cut(s)	331
PsuI	RGATCY	1 cut(s)	1021
RsaI	GTAC	1 cut(s)	874
RsaNI	GTAC	1 cut(s)	873
RseI	CAYNNNNRTG	1 cut(s)	206
SaqAI	TTAA	3 cut(s)	366, 906, 996
Sau3AI	GATC	3 cut(s)	310, 390, 1021
SchI	GAGTC	1 cut(s)	121
ScrFI	CCNGG	1 cut(s)	893
SduI	GDGCHC	1 cut(s)	332
SfaNI	GCATC	5 cut(s)	148, 516, 568, 926, 983
SfuI	TTCGAA	1 cut(s)	556
SmiMI	CAYNNNNRTG	1 cut(s)	206
Sse9I	AATT	7 cut(s)	225, 250, 617, 885, 986, 997, 1048
SsiI	CCGC	2 cut(s)	185, 1026
SspI	AATATT	3 cut(s)	409, 553, 658
SspMI	CTAG	1 cut(s)	732
StyD4I	CCNGG	1 cut(s)	891
StyI	CCWWGG	2 cut(s)	333, 414
TaaI	ACNGT	3 cut(s)	266, 272, 803
TaiI	ACGT	1 cut(s)	30
TaqI	TCGA	2 cut(s)	393, 556
TasI	AATT	7 cut(s)	225, 250, 617, 885, 986, 997, 1048
TfiI	GAWTC	4 cut(s)	49, 130, 214, 710
Tru1I	TTAA	3 cut(s)	366, 906, 996
Tru9I	TTAA	3 cut(s)	366, 906, 996
TspDTI	ATGAA	5 cut(s)	117, 647, 857, 927, 1041
TspGWI	ACGGA	1 cut(s)	384
VspI	ATTAAT	1 cut(s)	906
XapI	RAATTY	1 cut(s)	1048
XspI	CTAG	1 cut(s)	732
Zsp2I	ATGCAT	1 cut(s)	976

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