Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0009875

Physical Location & Seq

Genomic Coordinates Reverse (-)

70350792 .. 70351178

Gene Structure 387 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG439200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGAAGTGCACCGACATTTGCTACTTCTCCAGCGAGACCGTCAGACTTGTCCACAGCAATATTCAGGGACTCAAGGCCACCGGCGCCGGCAAGCCTCGGAAGGTCATAATGAGCAGGGCTTTGAGTTCCGGAGGCGAGGTGGGTTGGAAGTACTCAAACACTACGGGGGTTGTTGGGTTGTATTTCTCTGTGATTGAGAGTGGGATTGACTGTTACAGGGGTAAAGATGGGATCTTGAACACTAGTGTTGCTGGATTTGGGGTACTCGAGCGGCATCGACTCCCCGGACCTTTCCATGTCCATCAACAACGACCTGTCTCAGATTCAATCTCTCTGCGACGATATGGACCGCCTTTGGTGCTCTATCGACACCAACTCCTAACGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005744 GO:0006605 GO:0006626 GO:0006810 GO:0006839 GO:0006886 GO:0006996 GO:0007005 GO:0008104 GO:0008150 GO:0009987 GO:0015031 GO:0015833 GO:0016020 GO:0016021 GO:0016043 GO:0017038 GO:0019866 GO:0030150 GO:0031090 GO:0031224 GO:0031300 GO:0031301 GO:0031304 GO:0031305 GO:0031966 GO:0031967 GO:0031975 GO:0032592 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0044743 GO:0045184 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0055085 GO:0065002 GO:0070585 GO:0070727 GO:0071702 GO:0071705 GO:0071806 GO:0071840 GO:0072594 GO:0072655 GO:0098573 GO:0098796 GO:0098798 GO:0098800 GO:1990542

KEGG Pathways

Metabolic & Signaling

ko04212 map04212

Pfam Domains

Protein Families

Tim17

Protein Analysis

128

Amino Acids

14.09

Weight (kDa)

9.76

Isoelectric Point (pI)

38.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Tim17	PF02466	21 - 87	6.2e-12	Tim17/Tim22/Tim23/Pmp24 family

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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009875)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04800
fragaria_vesca	FvH4_6g03320
rosa_chinensis	RchiOBHm_Chr3g0451811
rosa_laevigata	RLG00000025647 RLG00000033674
rosa_multiflora	Rmu_sc0001152.1_g000039 Rmu_sc0002314.1_g000001 Rmu_sc0006510.1_g000015 Rmu_sc0012070.1_g000001
rosa_roxburghii	Rroxscaffold_164G00436300 Rroxscaffold_6G00428990
rosa_rugosa	Rorug02G0636500
rosa_samantha	Rh3AG038000 Rh3BG039100 Rh3BG039200 Rh3CG037600 Rh3CG037700 Rh3DG038400 Rh3DG038500 Rh5DG439200
rosa_wichuraiana	Rw3G002830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	83
AccBSI	CCGCTC	1 cut(s)	271
AccIII	TCCGGA	1 cut(s)	128
AciI	CCGC	2 cut(s)	271, 350
AclWI	GGATC	1 cut(s)	239
AcyI	GRCGYC	1 cut(s)	84
AfaI	GTAC	2 cut(s)	152, 264
AgsI	TTSAA	2 cut(s)	238, 327
AhlI	ACTAGT	1 cut(s)	242
Alw21I	GWGCWC	2 cut(s)	11, 363
Alw26I	GTCTC	2 cut(s)	29, 322
Alw44I	GTGCAC	1 cut(s)	7
AlwI	GGATC	1 cut(s)	239
Ama87I	CYCGRG	1 cut(s)	266
Aor13HI	TCCGGA	1 cut(s)	128
AoxI	GGCC	1 cut(s)	75
ApaLI	GTGCAC	1 cut(s)	7
AspLEI	GCGC	1 cut(s)	86
AspS9I	GGNCC	2 cut(s)	287, 347
AsuC2I	CCSGG	1 cut(s)	285
AvaI	CYCGRG	1 cut(s)	266
AvaII	GGWCC	2 cut(s)	287, 347
BaeGI	GKGCMC	1 cut(s)	11
BanI	GGYRCC	1 cut(s)	83
Bbv12I	GWGCWC	2 cut(s)	11, 363
BccI	CCATC	2 cut(s)	221, 309
BcnI	CCSGG	1 cut(s)	285
BcoDI	GTCTC	2 cut(s)	29, 322
BcuI	ACTAGT	1 cut(s)	242
BfaI	CTAG	1 cut(s)	243
BfoI	RGCGCY	1 cut(s)	87
BisI	GCNGC	1 cut(s)	272
BlsI	GCNGC	1 cut(s)	273
BmcAI	AGTACT	1 cut(s)	152
Bme1390I	CCNGG	1 cut(s)	285
Bme18I	GGWCC	2 cut(s)	287, 347
BmeT110I	CYCGRG	1 cut(s)	266
BmgT120I	GGNCC	2 cut(s)	287, 347
BmiI	GGNNCC	1 cut(s)	85
BmrFI	CCNGG	1 cut(s)	285
BmsI	GCATC	1 cut(s)	283
BpmI	CTGGAG	1 cut(s)	13
BpuEI	CTTGAG	1 cut(s)	56
BpuMI	CCSGG	1 cut(s)	285
BsaHI	GRCGYC	1 cut(s)	84
BsaI	GGTCTC	1 cut(s)	29
BsaJI	CCNNGG	2 cut(s)	95, 283
BsaWI	WCCGGW	1 cut(s)	128
BsaXI	ACNNNNNCTCC	3 cut(s)	123, 153, 360
Bse118I	RCCGGY	2 cut(s)	80, 86
BseAI	TCCGGA	1 cut(s)	128
BseDI	CCNNGG	2 cut(s)	95, 283
BseMII	CTCAG	1 cut(s)	333
BseSI	GKGCMC	1 cut(s)	11
BshFI	GGCC	1 cut(s)	77
BshNI	GGYRCC	1 cut(s)	83
BsiHKAI	GWGCWC	2 cut(s)	11, 363
BsiHKCI	CYCGRG	1 cut(s)	266
BsiSI	CCGG	4 cut(s)	81, 87, 129, 285
BslFI	GGGAC	1 cut(s)	81
BsmAI	GTCTC	2 cut(s)	29, 322
BsmFI	GGGAC	1 cut(s)	81
BsnI	GGCC	1 cut(s)	77
Bso31I	GGTCTC	1 cut(s)	29
BsoBI	CYCGRG	1 cut(s)	266
Bsp1286I	GDGCHC	2 cut(s)	11, 363
Bsp13I	TCCGGA	1 cut(s)	128
Bsp143I	GATC	1 cut(s)	231
BspACI	CCGC	2 cut(s)	271, 350
BspANI	GGCC	1 cut(s)	77
BspCNI	CTCAG	1 cut(s)	332
BspEI	TCCGGA	1 cut(s)	128
BspLI	GGNNCC	1 cut(s)	85
BspPI	GGATC	1 cut(s)	239
BspT107I	GGYRCC	1 cut(s)	83
BspTNI	GGTCTC	1 cut(s)	29
BsrBI	CCGCTC	1 cut(s)	271
BsrFI	RCCGGY	2 cut(s)	80, 86
BssAI	RCCGGY	2 cut(s)	80, 86
BssECI	CCNNGG	2 cut(s)	95, 283
BssMI	GATC	1 cut(s)	231
BssNI	GRCGYC	1 cut(s)	84
Bst4CI	ACNGT	2 cut(s)	40, 212
BstACI	GRCGYC	1 cut(s)	84
BstC8I	GCNNGC	2 cut(s)	88, 92
BstDEI	CTNAG	1 cut(s)	319
BstH2I	RGCGCY	1 cut(s)	87
BstHHI	GCGC	1 cut(s)	86
BstKTI	GATC	1 cut(s)	234
BstMAI	GTCTC	2 cut(s)	29, 322
BstMBI	GATC	1 cut(s)	231
BstMWI	GCNNNNNNNGC	2 cut(s)	83, 358
BstSCI	CCNGG	1 cut(s)	283
BstSLI	GKGCMC	1 cut(s)	11
BstX2I	RGATCY	1 cut(s)	231
BstYI	RGATCY	1 cut(s)	231
BsuRI	GGCC	1 cut(s)	77
Cac8I	GCNNGC	2 cut(s)	88, 92
CfoI	GCGC	1 cut(s)	86
Cfr10I	RCCGGY	2 cut(s)	80, 86
Cfr13I	GGNCC	2 cut(s)	287, 347
Csp6I	GTAC	2 cut(s)	151, 263
CviAII	CATG	1 cut(s)	296
CviJI	RGCY	3 cut(s)	77, 94, 119
CviKI_1	RGCY	3 cut(s)	77, 94, 119
CviQI	GTAC	2 cut(s)	151, 263
DdeI	CTNAG	1 cut(s)	319
DinI	GGCGCC	1 cut(s)	85
DpnI	GATC	1 cut(s)	233
DpnII	GATC	1 cut(s)	231
Eco31I	GGTCTC	1 cut(s)	29
Eco47I	GGWCC	2 cut(s)	287, 347
Eco88I	CYCGRG	1 cut(s)	266
EgeI	GGCGCC	1 cut(s)	85
EheI	GGCGCC	1 cut(s)	85
FaeI	CATG	1 cut(s)	299
FaiI	YATR	3 cut(s)	107, 297, 345
FaqI	GGGAC	1 cut(s)	81
FatI	CATG	1 cut(s)	295
Fnu4HI	GCNGC	1 cut(s)	272
Fsp4HI	GCNGC	1 cut(s)	272
FspBI	CTAG	1 cut(s)	243
GlaI	GCGC	1 cut(s)	85
GluI	GCNGC	1 cut(s)	272
GsuI	CTGGAG	1 cut(s)	13
HaeII	RGCGCY	1 cut(s)	87
HaeIII	GGCC	1 cut(s)	77
HapII	CCGG	4 cut(s)	81, 87, 129, 285
HhaI	GCGC	1 cut(s)	86
Hin1I	GRCGYC	1 cut(s)	84
Hin1II	CATG	1 cut(s)	299
Hin6I	GCGC	1 cut(s)	84
HinP1I	GCGC	1 cut(s)	84
HinfI	GANTC	3 cut(s)	69, 279, 323
HpaII	CCGG	4 cut(s)	81, 87, 129, 285
Hpy166II	GTNNAC	2 cut(s)	9, 52
Hpy188I	TCNGA	3 cut(s)	44, 99, 322
Hpy188III	TCNNGA	2 cut(s)	129, 235
Hpy8I	GTNNAC	2 cut(s)	9, 52
Hpy99I	CGWCG	1 cut(s)	342
HpyAV	CCTTC	1 cut(s)	94
HpyCH4III	ACNGT	2 cut(s)	40, 212
HpyCH4IV	ACGT	1 cut(s)	383
HpyCH4V	TGCA	1 cut(s)	9
HpyF10VI	GCNNNNNNNGC	2 cut(s)	83, 358
HpyF3I	CTNAG	1 cut(s)	319
HpySE526I	ACGT	1 cut(s)	383
Hsp92I	GRCGYC	1 cut(s)	84
Hsp92II	CATG	1 cut(s)	299
HspAI	GCGC	1 cut(s)	84
KasI	GGCGCC	1 cut(s)	83
Kpn2I	TCCGGA	1 cut(s)	128
KroI	GCCGGC	1 cut(s)	86
KroNI	GCCGGC	1 cut(s)	88
Kzo9I	GATC	1 cut(s)	231
LweI	GCATC	1 cut(s)	283
MaeI	CTAG	1 cut(s)	243
MaeII	ACGT	1 cut(s)	383
MaeIII	GTNAC	1 cut(s)	212
MalI	GATC	1 cut(s)	233
MbiI	CCGCTC	1 cut(s)	271
MboI	GATC	1 cut(s)	231
MflI	RGATCY	1 cut(s)	231
MhlI	GDGCHC	2 cut(s)	11, 363
Mly113I	GGCGCC	1 cut(s)	84
MlyI	GAGTC	2 cut(s)	63, 273
MmeI	TCCRAC	1 cut(s)	125
MnlI	CCTC	3 cut(s)	105, 125, 130
MroI	TCCGGA	1 cut(s)	128
MroNI	GCCGGC	1 cut(s)	86
MspI	CCGG	4 cut(s)	81, 87, 129, 285
MspR9I	CCNGG	1 cut(s)	285
MwoI	GCNNNNNNNGC	2 cut(s)	83, 358
NaeI	GCCGGC	1 cut(s)	88
NarI	GGCGCC	1 cut(s)	84
NciI	CCSGG	1 cut(s)	285
NdeII	GATC	1 cut(s)	231
NgoMIV	GCCGGC	1 cut(s)	86
NlaIII	CATG	1 cut(s)	299
NlaIV	GGNNCC	1 cut(s)	85
PaeR7I	CTCGAG	1 cut(s)	266
PdiI	GCCGGC	1 cut(s)	88
PfeI	GAWTC	1 cut(s)	323
PkrI	GCNGC	1 cut(s)	273
PleI	GAGTC	2 cut(s)	63, 273
PluTI	GGCGCC	1 cut(s)	87
PpsI	GAGTC	2 cut(s)	63, 273
PspN4I	GGNNCC	1 cut(s)	85
PspPI	GGNCC	2 cut(s)	287, 347
PspXI	VCTCGAGB	1 cut(s)	266
PsuI	RGATCY	1 cut(s)	231
RsaI	GTAC	2 cut(s)	152, 264
RsaNI	GTAC	2 cut(s)	151, 263
SatI	GCNGC	1 cut(s)	272
Sau3AI	GATC	1 cut(s)	231
Sau96I	GGNCC	2 cut(s)	287, 347
ScaI	AGTACT	1 cut(s)	152
SchI	GAGTC	2 cut(s)	63, 273
ScrFI	CCNGG	1 cut(s)	285
SduI	GDGCHC	2 cut(s)	11, 363
SetI	ASST	5 cut(s)	105, 141, 292, 316, 386
SfaNI	GCATC	1 cut(s)	283
SfoI	GGCGCC	1 cut(s)	85
Sfr274I	CTCGAG	1 cut(s)	266
SgrAI	CRCCGGYG	1 cut(s)	80
SinI	GGWCC	2 cut(s)	287, 347
SlaI	CTCGAG	1 cut(s)	266
SmlI	CTYRAG	2 cut(s)	71, 266
SmoI	CTYRAG	2 cut(s)	71, 266
SpeI	ACTAGT	1 cut(s)	242
SsiI	CCGC	2 cut(s)	271, 350
SspDI	GGCGCC	1 cut(s)	83
SspI	AATATT	1 cut(s)	61
SspMI	CTAG	1 cut(s)	243
StyD4I	CCNGG	1 cut(s)	283
TaaI	ACNGT	2 cut(s)	40, 212
TaiI	ACGT	1 cut(s)	386
TaqI	TCGA	3 cut(s)	267, 277, 367
TatI	WGTACW	1 cut(s)	150
TauI	GCSGC	1 cut(s)	274
TfiI	GAWTC	1 cut(s)	323
TspDTI	ATGAA	1 cut(s)	17
VneI	GTGCAC	1 cut(s)	7
VpaK11BI	GGWCC	2 cut(s)	287, 347
XhoI	CTCGAG	1 cut(s)	266
XspI	CTAG	1 cut(s)	243
ZrmI	AGTACT	1 cut(s)	152

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