Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0009288

Physical Location & Seq

Genomic Coordinates Forward (+)

25634114 .. 25636286

Gene Structure 2173 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG259000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGGATGGGTTGGACGCCGCAGAGCGTAGGTATTTGGAGGATGAGGATACTCCTACTATGAAGACAATTAAGGGTGCAACAACTGGATTGGTTGCCGGAACTATTTTTGGGACCATAGTTGCTACCTGGTATGATGTGCCTCGTGTTGAGAGAAGTGTAGCTCTTCCAGGGCTGATAAGGACCCTGAAGATGATGGGAAACTATGGGATGACATTTGCTGCAATTGGGGGAGTTTACATCGGTGTGGAGCAGCTTGTGCAGCATTATAGGTCGAAGAGAGACTTTGTCAATGGAGCTGTTGGTGGTTTTGTTGCTGGATCAACTATTCTAGGTTACAAAGGAAGGAGCATTCCAACTGCAATTTCTGCTGGAGCAGCCTTGGCAGTCACTTCTGCACTCATTGATGCTGGGGGCCAGACCACAAGAATTGATAACGGCAAGGAGTACTATCCTTATACCACCAAAAAAAGATCCACTGCTGATTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005746 GO:0005747 GO:0008104 GO:0008150 GO:0009507 GO:0009526 GO:0009527 GO:0009536 GO:0016020 GO:0019866 GO:0019867 GO:0030964 GO:0031090 GO:0031966 GO:0031967 GO:0031968 GO:0031975 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0042170 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044435 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0045271 GO:0046983 GO:0051179 GO:0051641 GO:0070469 GO:0070727 GO:0098588 GO:0098796 GO:0098798 GO:0098800 GO:0098803 GO:0098805 GO:1902494 GO:1990204

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Tim17

Protein Analysis

162

Amino Acids

17.22

Weight (kDa)

9.12

Isoelectric Point (pI)

30.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Tim17	PF02466	19 - 131	5.6e-18	Tim17/Tim22/Tim23/Pmp24 family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42210 AT2G42210 AT2G42210 AT2G42210 AT2G42210
fragaria_vesca	FvH4_6g22680
malus_domestica	MD12G1061000.v1.1 MD14G1060700.v1.1
prunus_persica	Prupe.7G073800_v2.0.a1 Prupe.7G073800_v2.0.a1
pyrus_communis	pycom12g05390 pycom14g04920
rosa_chinensis	RchiOBHm_Chr3g0480261
rosa_laevigata	RLG00000023507
rosa_multiflora	Rmu_sc0000311.1_g000002
rosa_roxburghii	Rroxscaffold_6G00401670
rosa_rugosa	Rorug03G0181800
rosa_samantha	Rh3AG233200 Rh3BG265900 Rh3CG263400 Rh3DG259000
rosa_wichuraiana	Rw3G020980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	18
AclWI	GGATC	2 cut(s)	325, 465
AcuI	CTGAAG	1 cut(s)	206
AcyI	GRCGYC	1 cut(s)	15
AfaI	GTAC	1 cut(s)	446
AjnI	CCWGG	2 cut(s)	125, 166
AjuI	GAANNNNNNNTTGG	2 cut(s)	346, 378
AluBI	AGCT	3 cut(s)	161, 253, 296
AluI	AGCT	3 cut(s)	161, 253, 296
Alw26I	GTCTC	1 cut(s)	273
AlwI	GGATC	2 cut(s)	325, 465
AoxI	GGCC	1 cut(s)	412
ApeKI	GCWGC	4 cut(s)	218, 250, 259, 374
AspS9I	GGNCC	3 cut(s)	111, 180, 412
AvaII	GGWCC	2 cut(s)	111, 180
BauI	CACGAG	1 cut(s)	141
BbsI	GAAGAC	1 cut(s)	68
BbvI	GCAGC	4 cut(s)	205, 262, 271, 386
BccI	CCATC	1 cut(s)	187
BceAI	ACGGC	1 cut(s)	451
BciT130I	CCWGG	2 cut(s)	127, 168
BciVI	GTATCC	1 cut(s)	40
BcoDI	GTCTC	1 cut(s)	273
BfaI	CTAG	1 cut(s)	329
BfuI	GTATCC	1 cut(s)	40
BisI	GCNGC	5 cut(s)	18, 219, 251, 260, 375
BlsI	GCNGC	5 cut(s)	19, 220, 252, 261, 376
BmcAI	AGTACT	1 cut(s)	446
Bme1390I	CCNGG	2 cut(s)	127, 168
Bme18I	GGWCC	2 cut(s)	111, 180
BmgT120I	GGNCC	3 cut(s)	111, 180, 412
BmiI	GGNNCC	3 cut(s)	112, 182, 413
BmrFI	CCNGG	2 cut(s)	127, 168
BmsI	GCATC	1 cut(s)	394
BpiI	GAAGAC	1 cut(s)	68
BpmI	CTGGAG	1 cut(s)	390
BsaHI	GRCGYC	1 cut(s)	15
BsaJI	CCNNGG	2 cut(s)	167, 378
Bse1I	ACTGG	1 cut(s)	88
BseBI	CCWGG	2 cut(s)	127, 168
BseDI	CCNNGG	2 cut(s)	167, 378
BseGI	GGATG	3 cut(s)	10, 46, 213
BseNI	ACTGG	1 cut(s)	88
BseXI	GCAGC	4 cut(s)	205, 262, 271, 386
BseYI	CCCAGC	1 cut(s)	407
BsgI	GTGCAG	2 cut(s)	278, 378
BshFI	GGCC	1 cut(s)	414
BsiSI	CCGG	1 cut(s)	96
BslFI	GGGAC	1 cut(s)	124
BsmAI	GTCTC	1 cut(s)	273
BsmFI	GGGAC	1 cut(s)	124
BsmI	GAATGC	1 cut(s)	348
BsnI	GGCC	1 cut(s)	414
Bsp143I	GATC	2 cut(s)	317, 470
BspACI	CCGC	1 cut(s)	18
BspANI	GGCC	1 cut(s)	414
BspLI	GGNNCC	3 cut(s)	112, 182, 413
BspPI	GGATC	2 cut(s)	325, 465
BspQI	GCTCTTC	1 cut(s)	168
BsrI	ACTGG	1 cut(s)	88
BssECI	CCNNGG	2 cut(s)	167, 378
BssMI	GATC	2 cut(s)	317, 470
BssNI	GRCGYC	1 cut(s)	15
BssSI	CACGAG	1 cut(s)	141
BssT1I	CCWWGG	1 cut(s)	378
Bst2BI	CACGAG	1 cut(s)	141
Bst2UI	CCWGG	2 cut(s)	127, 168
Bst6I	CTCTTC	2 cut(s)	168, 269
BstACI	GRCGYC	1 cut(s)	15
BstAPI	GCANNNNNTGC	2 cut(s)	256, 365
BstF5I	GGATG	3 cut(s)	10, 46, 213
BstKTI	GATC	2 cut(s)	320, 473
BstMAI	GTCTC	1 cut(s)	273
BstMBI	GATC	2 cut(s)	317, 470
BstMWI	GCNNNNNNNGC	5 cut(s)	256, 259, 365, 374, 380
BstNI	CCWGG	2 cut(s)	127, 168
BstSCI	CCNGG	2 cut(s)	125, 166
BstV1I	GCAGC	4 cut(s)	205, 262, 271, 386
BstV2I	GAAGAC	1 cut(s)	68
BstX2I	RGATCY	1 cut(s)	470
BstYI	RGATCY	1 cut(s)	470
BsuI	GTATCC	1 cut(s)	40
BsuRI	GGCC	1 cut(s)	414
BtsCI	GGATG	3 cut(s)	10, 46, 213
BtsI	GCAGTG	1 cut(s)	474
BtsIMutI	CAGTG	1 cut(s)	474
Cfr13I	GGNCC	3 cut(s)	111, 180, 412
CseI	GACGC	1 cut(s)	23
CsiI	ACCWGGT	1 cut(s)	125
Csp6I	GTAC	1 cut(s)	445
CspCI	CAANNNNNGTGG	2 cut(s)	409, 444
CviJI	RGCY	6 cut(s)	161, 172, 253, 296, 377, 414
CviKI_1	RGCY	6 cut(s)	161, 172, 253, 296, 377, 414
CviQI	GTAC	1 cut(s)	445
DpnI	GATC	2 cut(s)	319, 472
DpnII	GATC	2 cut(s)	317, 470
Eam1104I	CTCTTC	2 cut(s)	168, 269
EarI	CTCTTC	2 cut(s)	168, 269
Eco130I	CCWWGG	1 cut(s)	378
Eco47I	GGWCC	2 cut(s)	111, 180
Eco57I	CTGAAG	1 cut(s)	206
EcoO109I	RGGNCCY	1 cut(s)	180
EcoRII	CCWGG	2 cut(s)	125, 166
EcoT14I	CCWWGG	1 cut(s)	378
ErhI	CCWWGG	1 cut(s)	378
FaiI	YATR	7 cut(s)	59, 116, 132, 204, 267, 456, 487
FalI	AAGNNNNNCTT	2 cut(s)	266, 298
FaqI	GGGAC	1 cut(s)	124
Fnu4HI	GCNGC	5 cut(s)	18, 219, 251, 260, 375
FokI	GGATG	3 cut(s)	17, 53, 220
Fsp4HI	GCNGC	5 cut(s)	18, 219, 251, 260, 375
FspBI	CTAG	1 cut(s)	329
GluI	GCNGC	5 cut(s)	18, 219, 251, 260, 375
GsaI	CCCAGC	1 cut(s)	411
GsuI	CTGGAG	1 cut(s)	390
HaeIII	GGCC	1 cut(s)	414
HapII	CCGG	1 cut(s)	96
HgaI	GACGC	1 cut(s)	23
Hin1I	GRCGYC	1 cut(s)	15
HinfI	GANTC	1 cut(s)	482
HpaII	CCGG	1 cut(s)	96
Hpy166II	GTNNAC	1 cut(s)	235
Hpy8I	GTNNAC	1 cut(s)	235
HpyAV	CCTTC	1 cut(s)	336
HpyCH4V	TGCA	5 cut(s)	77, 221, 259, 359, 395
HpyF10VI	GCNNNNNNNGC	5 cut(s)	256, 259, 365, 374, 380
Hsp92I	GRCGYC	1 cut(s)	15
Kzo9I	GATC	2 cut(s)	317, 470
LguI	GCTCTTC	1 cut(s)	168
LmnI	GCTCC	4 cut(s)	247, 293, 345, 371
Lsp1109I	GCAGC	4 cut(s)	205, 262, 271, 386
LweI	GCATC	1 cut(s)	394
MabI	ACCWGGT	1 cut(s)	125
MaeI	CTAG	1 cut(s)	329
MaeIII	GTNAC	2 cut(s)	332, 385
MalI	GATC	2 cut(s)	319, 472
MboI	GATC	2 cut(s)	317, 470
MboII	GAAGA	4 cut(s)	73, 155, 199, 286
MfeI	CAATTG	1 cut(s)	222
MflI	RGATCY	1 cut(s)	470
MluCI	AATT	4 cut(s)	66, 222, 360, 426
MmeI	TCCRAC	1 cut(s)	377
MnlI	CCTC	3 cut(s)	31, 37, 150
MseI	TTAA	1 cut(s)	69
MslI	CAYNNNNRTG	1 cut(s)	242
MspI	CCGG	1 cut(s)	96
MspR9I	CCNGG	2 cut(s)	127, 168
MunI	CAATTG	1 cut(s)	222
Mva1269I	GAATGC	1 cut(s)	348
MvaI	CCWGG	2 cut(s)	127, 168
MwoI	GCNNNNNNNGC	5 cut(s)	256, 259, 365, 374, 380
NdeII	GATC	2 cut(s)	317, 470
NlaIV	GGNNCC	3 cut(s)	112, 182, 413
NmuCI	GTSAC	1 cut(s)	385
PciSI	GCTCTTC	1 cut(s)	168
PctI	GAATGC	1 cut(s)	348
PfeI	GAWTC	1 cut(s)	482
PflFI	GACNNNGTC	1 cut(s)	284
PkrI	GCNGC	5 cut(s)	19, 220, 252, 261, 376
PpuMI	RGGWCCY	1 cut(s)	180
Psp5II	RGGWCCY	1 cut(s)	180
Psp6I	CCWGG	2 cut(s)	125, 166
PspFI	CCCAGC	1 cut(s)	407
PspGI	CCWGG	2 cut(s)	125, 166
PspN4I	GGNNCC	3 cut(s)	112, 182, 413
PspPI	GGNCC	3 cut(s)	111, 180, 412
PspPPI	RGGWCCY	1 cut(s)	180
PsuI	RGATCY	1 cut(s)	470
PsyI	GACNNNGTC	1 cut(s)	284
RsaI	GTAC	1 cut(s)	446
RsaNI	GTAC	1 cut(s)	445
RseI	CAYNNNNRTG	1 cut(s)	242
SapI	GCTCTTC	1 cut(s)	168
SaqAI	TTAA	1 cut(s)	69
SatI	GCNGC	5 cut(s)	18, 219, 251, 260, 375
Sau3AI	GATC	2 cut(s)	317, 470
Sau96I	GGNCC	3 cut(s)	111, 180, 412
ScaI	AGTACT	1 cut(s)	446
ScrFI	CCNGG	2 cut(s)	127, 168
SetI	ASST	7 cut(s)	32, 128, 163, 255, 272, 298, 334
SexAI	ACCWGGT	1 cut(s)	125
SfaNI	GCATC	1 cut(s)	394
SinI	GGWCC	2 cut(s)	111, 180
SmiMI	CAYNNNNRTG	1 cut(s)	242
Sse9I	AATT	4 cut(s)	66, 222, 360, 426
SsiI	CCGC	1 cut(s)	18
SspMI	CTAG	1 cut(s)	329
StyD4I	CCNGG	2 cut(s)	125, 166
StyI	CCWWGG	1 cut(s)	378
TaqI	TCGA	1 cut(s)	272
TasI	AATT	4 cut(s)	66, 222, 360, 426
TatI	WGTACW	1 cut(s)	444
TauI	GCSGC	1 cut(s)	20
TfiI	GAWTC	1 cut(s)	482
Tru1I	TTAA	1 cut(s)	69
Tru9I	TTAA	1 cut(s)	69
TscAI	CASTG	1 cut(s)	481
TseFI	GTSAC	1 cut(s)	385
TseI	GCWGC	4 cut(s)	218, 250, 259, 374
Tsp45I	GTSAC	1 cut(s)	385
TspDTI	ATGAA	2 cut(s)	74, 474
TspRI	CASTG	1 cut(s)	481
Tth111I	GACNNNGTC	1 cut(s)	284
VpaK11BI	GGWCC	2 cut(s)	111, 180
XspI	CTAG	1 cut(s)	329
ZrmI	AGTACT	1 cut(s)	446

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