Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0004989

Physical Location & Seq

Genomic Coordinates Reverse (-)

40239108 .. 40241176

Gene Structure 2069 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG158400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 666 bp

ATGGTAAATGAAGGGGATGGTGCATTTTACAGACCAAAGATAGATACCAATGTATCTCATGCATTGAACATGAAGTTTCAGTGTGCAACATTACAGCTTGATTTTCAGCTACCTGCTCGCTTTGAGCTGTATTACTCAGCAGAGGGTGAAGAAGGCAAGGAGGCACCTGTTATGATACACATAGCCATTTTCGGTTATGTTGAGCGTTCTCTAGCAATAACAGTGGCAAATCCAAGTGATCTTGTAAAAGTTAGACTTCGAGCTGAGAGAAAATTGCCACAAGGAGCACCAAGGCGCTATTCTGGCACATTGAATGTGTCTTCCACCATCTTGAGACAGGAAGGAGTTGGGGTTCTTTGGACTGGAATTGGACCTAACATTGCACGTAATGCTATGATTAATGCTGCTGAACTAGCCAGTTGTGATCAAGTGAAGCAGACACTTCTGAAAATTCTCGGGTTAAAGGAACTGTTGTCACTCATCTTTTTGCTGGTCTGGGGGTCAGTGTGGATTAAAGATGGGCAGATCTGGTACCTCTCCCTTAACAATAATGCAGGGTACAGGTTTCAAACGAAACAGATGTACCGATTTGGTTGGTTTAGCATGAAGCTCAAGTTGGTTGGAGGTGACTCTGCTGGCGTTGTGACAGCTTACTATGAAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003333 GO:0003674 GO:0005215 GO:0005342 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005773 GO:0005774 GO:0005911 GO:0006810 GO:0006811 GO:0006812 GO:0006820 GO:0006839 GO:0006865 GO:0008150 GO:0008152 GO:0008509 GO:0008514 GO:0009506 GO:0009507 GO:0009536 GO:0009853 GO:0009987 GO:0015075 GO:0015171 GO:0015318 GO:0015672 GO:0015711 GO:0015849 GO:0016020 GO:0016021 GO:0017077 GO:0019866 GO:0022857 GO:0030054 GO:0031090 GO:0031224 GO:0031966 GO:0031967 GO:0031975 GO:0034220 GO:0043094 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046942 GO:0046943 GO:0051179 GO:0051234 GO:0055044 GO:0055085 GO:0071702 GO:0071705 GO:0098588 GO:0098655 GO:0098656 GO:0098660 GO:0098662 GO:0098805 GO:1902600 GO:1903825 GO:1905039 GO:1990542

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Mito_carr

Protein Analysis

221

Amino Acids

24.76

Weight (kDa)

9.0

Isoelectric Point (pI)

33.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2b	PF00587	7 - 77	1.3e-08	tRNA synthetase class II core domain (G, H, P, S and T)
Mito_carr	PF00153	62 - 150	1e-14	Mitochondrial carrier protein
Glyco_hydro_16	PF00722	171 - 219	6.2e-07	Glycosyl hydrolases family 16

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: OG0004989)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17960 AT1G17960
malus_domestica	MD15G1401700.v1.1 MD15G1402000.v1.1
rosa_chinensis	RchiOBHm_Chr4g0444231
rosa_laevigata	RLG00000005339 RLG00000005847 RLG00000008520 RLG00000020302
rosa_multiflora	Rmu_sc0000016.1_g000006 Rmu_sc0000987.1_g000022 Rmu_sc0014698.1_g000003
rosa_roxburghii	Rroxscaffold_3G00219500 Rroxscaffold_5G00384800
rosa_rugosa	Rorug03G0334500 Rorug07G0196800
rosa_samantha	Rh1BG152700 Rh1CG027000 Rh1DG185100 Rh2BG464200 Rh4AG158400 Rh4BG163900 Rh4CG184100 Rh4DG152900 Rh4DG153000 Rh5CG279500 Rh6BG190300 Rh7CG027100 Rh7DG026600 Rh7DG335900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	121
Acc65I	GGTACC	1 cut(s)	531
AccB1I	GGYRCC	2 cut(s)	163, 531
AcsI	RAATTY	1 cut(s)	450
AfaI	GTAC	3 cut(s)	533, 560, 584
AgsI	TTSAA	3 cut(s)	67, 313, 569
AjuI	GAANNNNNNNTTGG	4 cut(s)	283, 315, 599, 631
AloI	GAACNNNNNNTCC	2 cut(s)	336, 368
AluBI	AGCT	6 cut(s)	97, 109, 127, 263, 610, 650
AluI	AGCT	6 cut(s)	97, 109, 127, 263, 610, 650
Alw21I	GWGCWC	1 cut(s)	289
Alw26I	GTCTC	1 cut(s)	328
Ama87I	CYCGRG	1 cut(s)	455
ApeKI	GCWGC	1 cut(s)	404
ApoI	RAATTY	1 cut(s)	450
AseI	ATTAAT	1 cut(s)	399
Asp718I	GGTACC	1 cut(s)	531
AspLEI	GCGC	1 cut(s)	297
AspS9I	GGNCC	1 cut(s)	371
AsuHPI	GGTGA	2 cut(s)	158, 638
AvaI	CYCGRG	1 cut(s)	455
AvaII	GGWCC	1 cut(s)	371
BaeI	ACNNNNGTAYC	6 cut(s)	36, 36, 69, 69, 566, 599
BanI	GGYRCC	2 cut(s)	163, 531
BbsI	GAAGAC	1 cut(s)	312
Bbv12I	GWGCWC	1 cut(s)	289
BbvI	GCAGC	1 cut(s)	391
BccI	CCATC	3 cut(s)	11, 335, 512
BclI	TGATCA	1 cut(s)	424
BcoDI	GTCTC	1 cut(s)	328
BfaI	CTAG	2 cut(s)	212, 413
BfoI	RGCGCY	1 cut(s)	298
BfuAI	ACCTGC	1 cut(s)	121
BglII	AGATCT	1 cut(s)	525
BisI	GCNGC	1 cut(s)	405
BlsI	GCNGC	1 cut(s)	406
Bme18I	GGWCC	1 cut(s)	371
BmeT110I	CYCGRG	1 cut(s)	455
BmgT120I	GGNCC	1 cut(s)	371
BmiI	GGNNCC	2 cut(s)	165, 533
BpiI	GAAGAC	1 cut(s)	312
BpuEI	CTTGAG	2 cut(s)	352, 596
BsaAI	YACGTR	1 cut(s)	386
BsaJI	CCNNGG	1 cut(s)	290
BsaXI	ACNNNNNCTCC	2 cut(s)	336, 366
Bse1I	ACTGG	2 cut(s)	367, 417
Bse3DI	GCAATG	1 cut(s)	378
BseDI	CCNNGG	1 cut(s)	290
BseGI	GGATG	1 cut(s)	22
BseMI	GCAATG	1 cut(s)	378
BseMII	CTCAG	2 cut(s)	150, 255
BseNI	ACTGG	2 cut(s)	367, 417
BseXI	GCAGC	1 cut(s)	391
BshNI	GGYRCC	2 cut(s)	163, 531
BsiHKAI	GWGCWC	1 cut(s)	289
BsiHKCI	CYCGRG	1 cut(s)	455
BsmAI	GTCTC	1 cut(s)	328
BsoBI	CYCGRG	1 cut(s)	455
Bsp1286I	GDGCHC	1 cut(s)	289
Bsp143I	GATC	3 cut(s)	238, 424, 525
BspCNI	CTCAG	2 cut(s)	149, 256
BspLI	GGNNCC	2 cut(s)	165, 533
BspMI	ACCTGC	1 cut(s)	121
BspT107I	GGYRCC	2 cut(s)	163, 531
BsrDI	GCAATG	1 cut(s)	378
BsrI	ACTGG	2 cut(s)	367, 417
BssECI	CCNNGG	1 cut(s)	290
BssMI	GATC	3 cut(s)	238, 424, 525
BssT1I	CCWWGG	1 cut(s)	290
Bst4CI	ACNGT	2 cut(s)	223, 471
Bst6I	CTCTTC	1 cut(s)	654
BstAPI	GCANNNNNTGC	1 cut(s)	389
BstBAI	YACGTR	1 cut(s)	386
BstC8I	GCNNGC	2 cut(s)	118, 637
BstDEI	CTNAG	2 cut(s)	136, 264
BstF5I	GGATG	1 cut(s)	22
BstH2I	RGCGCY	1 cut(s)	298
BstHHI	GCGC	1 cut(s)	297
BstKTI	GATC	3 cut(s)	241, 427, 528
BstMAI	GTCTC	1 cut(s)	328
BstMBI	GATC	3 cut(s)	238, 424, 525
BstMWI	GCNNNNNNNGC	3 cut(s)	303, 389, 413
BstV1I	GCAGC	1 cut(s)	391
BstV2I	GAAGAC	1 cut(s)	312
BstX2I	RGATCY	1 cut(s)	525
BstYI	RGATCY	1 cut(s)	525
BtsCI	GGATG	1 cut(s)	22
BtsIMutI	CAGTG	3 cut(s)	86, 228, 510
BveI	ACCTGC	1 cut(s)	121
Cac8I	GCNNGC	2 cut(s)	118, 637
CfoI	GCGC	1 cut(s)	297
Cfr13I	GGNCC	1 cut(s)	371
Csp6I	GTAC	3 cut(s)	532, 559, 583
CspCI	CAANNNNNGTGG	2 cut(s)	204, 239
CviAII	CATG	3 cut(s)	59, 70, 604
CviJI	RGCY	8 cut(s)	97, 109, 127, 185, 263, 416, 610, 650
CviKI_1	RGCY	8 cut(s)	97, 109, 127, 185, 263, 416, 610, 650
CviQI	GTAC	3 cut(s)	532, 559, 583
DdeI	CTNAG	2 cut(s)	136, 264
DpnI	GATC	3 cut(s)	240, 426, 527
DpnII	GATC	3 cut(s)	238, 424, 525
Eam1104I	CTCTTC	1 cut(s)	654
EarI	CTCTTC	1 cut(s)	654
Eco130I	CCWWGG	1 cut(s)	290
Eco47I	GGWCC	1 cut(s)	371
Eco88I	CYCGRG	1 cut(s)	455
EcoT14I	CCWWGG	1 cut(s)	290
EcoT22I	ATGCAT	1 cut(s)	64
ErhI	CCWWGG	1 cut(s)	290
FaeI	CATG	3 cut(s)	62, 73, 607
FaiI	YATR	8 cut(s)	60, 71, 173, 182, 198, 395, 605, 657
FalI	AAGNNNNNCTT	2 cut(s)	240, 272
FatI	CATG	3 cut(s)	58, 69, 603
FbaI	TGATCA	1 cut(s)	424
Fnu4HI	GCNGC	1 cut(s)	405
FokI	GGATG	1 cut(s)	29
Fsp4HI	GCNGC	1 cut(s)	405
FspBI	CTAG	2 cut(s)	212, 413
GlaI	GCGC	1 cut(s)	296
GluI	GCNGC	1 cut(s)	405
HaeII	RGCGCY	1 cut(s)	298
HhaI	GCGC	1 cut(s)	297
Hin1II	CATG	3 cut(s)	62, 73, 607
Hin6I	GCGC	1 cut(s)	295
HinP1I	GCGC	1 cut(s)	295
HinfI	GANTC	1 cut(s)	629
HphI	GGTGA	2 cut(s)	158, 638
Hpy188I	TCNGA	1 cut(s)	447
Hpy188III	TCNNGA	1 cut(s)	331
HpyAV	CCTTC	3 cut(s)	5, 146, 335
HpyCH4III	ACNGT	2 cut(s)	223, 471
HpyCH4IV	ACGT	1 cut(s)	385
HpyCH4V	TGCA	5 cut(s)	23, 62, 86, 383, 554
HpyF10VI	GCNNNNNNNGC	3 cut(s)	303, 389, 413
HpyF3I	CTNAG	2 cut(s)	136, 264
HpySE526I	ACGT	1 cut(s)	385
Hsp92II	CATG	3 cut(s)	62, 73, 607
HspAI	GCGC	1 cut(s)	295
KpnI	GGTACC	1 cut(s)	535
Ksp22I	TGATCA	1 cut(s)	424
Kzo9I	GATC	3 cut(s)	238, 424, 525
LmnI	GCTCC	1 cut(s)	284
Lsp1109I	GCAGC	1 cut(s)	391
MaeI	CTAG	2 cut(s)	212, 413
MaeII	ACGT	1 cut(s)	385
MaeIII	GTNAC	3 cut(s)	474, 626, 643
MalI	GATC	3 cut(s)	240, 426, 527
MboI	GATC	3 cut(s)	238, 424, 525
MboII	GAAGA	2 cut(s)	161, 312
MflI	RGATCY	1 cut(s)	525
MhlI	GDGCHC	1 cut(s)	289
MluCI	AATT	3 cut(s)	272, 366, 450
MlyI	GAGTC	1 cut(s)	623
MmeI	TCCRAC	1 cut(s)	601
MnlI	CCTC	4 cut(s)	136, 154, 545, 617
Mph1103I	ATGCAT	1 cut(s)	64
MseI	TTAA	4 cut(s)	399, 461, 513, 543
MwoI	GCNNNNNNNGC	3 cut(s)	303, 389, 413
NdeII	GATC	3 cut(s)	238, 424, 525
NlaIII	CATG	3 cut(s)	62, 73, 607
NlaIV	GGNNCC	2 cut(s)	165, 533
NmuCI	GTSAC	3 cut(s)	474, 626, 643
NsiI	ATGCAT	1 cut(s)	64
PkrI	GCNGC	1 cut(s)	406
PleI	GAGTC	1 cut(s)	623
PpsI	GAGTC	1 cut(s)	623
Ppu21I	YACGTR	1 cut(s)	386
PshBI	ATTAAT	1 cut(s)	399
PspN4I	GGNNCC	2 cut(s)	165, 533
PspPI	GGNCC	1 cut(s)	371
PsuI	RGATCY	1 cut(s)	525
RsaI	GTAC	3 cut(s)	533, 560, 584
RsaNI	GTAC	3 cut(s)	532, 559, 583
SaqAI	TTAA	4 cut(s)	399, 461, 513, 543
SatI	GCNGC	1 cut(s)	405
Sau3AI	GATC	3 cut(s)	238, 424, 525
Sau96I	GGNCC	1 cut(s)	371
SchI	GAGTC	1 cut(s)	623
SduI	GDGCHC	1 cut(s)	289
SinI	GGWCC	1 cut(s)	371
SmlI	CTYRAG	2 cut(s)	331, 611
SmoI	CTYRAG	2 cut(s)	331, 611
Sse9I	AATT	3 cut(s)	272, 366, 450
SspMI	CTAG	2 cut(s)	212, 413
StyI	CCWWGG	1 cut(s)	290
TaaI	ACNGT	2 cut(s)	223, 471
TaiI	ACGT	1 cut(s)	388
TaqI	TCGA	1 cut(s)	259
TasI	AATT	3 cut(s)	272, 366, 450
Tru1I	TTAA	4 cut(s)	399, 461, 513, 543
Tru9I	TTAA	4 cut(s)	399, 461, 513, 543
TscAI	CASTG	3 cut(s)	86, 228, 510
TseFI	GTSAC	3 cut(s)	474, 626, 643
TseI	GCWGC	1 cut(s)	404
Tsp45I	GTSAC	3 cut(s)	474, 626, 643
TspDTI	ATGAA	3 cut(s)	24, 86, 620
TspRI	CASTG	3 cut(s)	86, 228, 510
VpaK11BI	GGWCC	1 cut(s)	371
VspI	ATTAAT	1 cut(s)	399
XapI	RAATTY	1 cut(s)	450
XspI	CTAG	2 cut(s)	212, 413
Zsp2I	ATGCAT	1 cut(s)	64

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