Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0005434

Physical Location & Seq

Genomic Coordinates Reverse (-)

72857160 .. 72857595

Gene Structure 436 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG505000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 318 bp

ATGACTGACACGTGTGATCTGCTTGACAGGTTCTTCTCATTTCCTTCATGTGCAACGCATGATGCTTCACTCTTAACAGAGAATACAATAACTTATATCAAGGAGGAGTTGGATGAGCTGGAAAGGGAGGACTTCTTCAGGTTAAAGAAGATACAGGGATTTAAGAAGAGGGAAATTGAGAGACAGATGGCAGCTGCTAAGAACTTCTCGGACGACCAGGCTGCAGAAGTTATGCCTTTAAAGAAGGGTATTTCACTAAATTCAGCTCAAAATTTGTTGTCTGGAGGTATGGGAAAGGACGAGGATATCATTTTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005794 GO:0005886 GO:0012505 GO:0016020 GO:0031090 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0071944 GO:0098588 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko00190 ko01100 ko04145 ko04150 ko04721 ko04966 ko05110 ko05120 ko05323 map00190 map01100 map04145 map04150 map04721 map04966 map05110 map05120 map05323

Pfam Domains

Protein Families

ATP-synt_D

Protein Analysis

105

Amino Acids

11.97

Weight (kDa)

4.75

Isoelectric Point (pI)

32.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ATP-synt_D	PF01813	26 - 52	1.7e-08	ATP synthase subunit D

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0005434)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G58730
fragaria_vesca	FvH4_6g37711 FvH4_6g37711
malus_domestica	MD09G1156500.v1.1 MD17G1143000.v1.1
prunus_persica	Prupe.3G169600_v2.0.a1
pyrus_communis	pycom09g07520 pycom17g13610
rosa_chinensis	RchiOBHm_Chr2g0150801
rosa_laevigata	RLG00000020504
rosa_multiflora	Rmu_sc0002082.1_g000019 Rmu_sc0003127.1_g000004 Rmu_sc0003127.1_g000015 Rmu_sc0003127.1_g000036 Rmu_sc0003127.1_g000056 Rmu_sc0009104.1_g000012 Rmu_sc0009104.1_g000021 Rmu_ssc0000480.1_g000062
rosa_roxburghii	Rroxscaffold_2G00096950
rosa_rugosa	Rorug02G0422500
rosa_samantha	Rh2AG482600 Rh2BG494500 Rh2CG468900 Rh2DG503500 Rh2DG505000 Rh2DG506000
rosa_wichuraiana	Rw2G039390 Rw2G039540 Rw2G039550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	2 cut(s)	259, 271
AcuI	CTGAAG	1 cut(s)	121
AcvI	CACGTG	1 cut(s)	12
AflIII	ACRYGT	2 cut(s)	9, 11
AjnI	CCWGG	1 cut(s)	216
AluBI	AGCT	3 cut(s)	118, 194, 266
AluI	AGCT	3 cut(s)	118, 194, 266
Alw26I	GTCTC	1 cut(s)	175
ApeKI	GCWGC	3 cut(s)	191, 194, 221
ApoI	RAATTY	2 cut(s)	259, 271
BbrPI	CACGTG	1 cut(s)	12
BbvI	GCAGC	3 cut(s)	181, 203, 208
BccI	CCATC	1 cut(s)	181
BcgI	CGANNNNNNTGC	2 cut(s)	203, 237
BciT130I	CCWGG	1 cut(s)	218
BcoDI	GTCTC	1 cut(s)	175
BfmI	CTRYAG	1 cut(s)	222
BisI	GCNGC	3 cut(s)	192, 195, 222
BlsI	GCNGC	3 cut(s)	193, 196, 223
Bme1390I	CCNGG	1 cut(s)	218
BmrFI	CCNGG	1 cut(s)	218
BmsI	GCATC	1 cut(s)	52
BpmI	CTGGAG	1 cut(s)	303
BsaAI	YACGTR	1 cut(s)	12
BseBI	CCWGG	1 cut(s)	218
BseGI	GGATG	1 cut(s)	118
BseRI	GAGGAG	1 cut(s)	119
BseXI	GCAGC	3 cut(s)	181, 203, 208
BsmAI	GTCTC	1 cut(s)	175
Bsp143I	GATC	1 cut(s)	16
BspMAI	CTGCAG	1 cut(s)	226
BssMI	GATC	1 cut(s)	16
Bst2UI	CCWGG	1 cut(s)	218
Bst6I	CTCTTC	1 cut(s)	161
BstBAI	YACGTR	1 cut(s)	12
BstDEI	CTNAG	1 cut(s)	198
BstF5I	GGATG	1 cut(s)	118
BstKTI	GATC	1 cut(s)	19
BstMAI	GTCTC	1 cut(s)	175
BstMBI	GATC	1 cut(s)	16
BstNI	CCWGG	1 cut(s)	218
BstSCI	CCNGG	1 cut(s)	216
BstSFI	CTRYAG	1 cut(s)	222
BstV1I	GCAGC	3 cut(s)	181, 203, 208
BtsCI	GGATG	1 cut(s)	118
CviAII	CATG	2 cut(s)	48, 59
CviJI	RGCY	4 cut(s)	118, 194, 221, 266
CviKI_1	RGCY	4 cut(s)	118, 194, 221, 266
DdeI	CTNAG	1 cut(s)	198
DpnI	GATC	1 cut(s)	18
DpnII	GATC	1 cut(s)	16
DraI	TTTAAA	1 cut(s)	240
Eam1104I	CTCTTC	1 cut(s)	161
EarI	CTCTTC	1 cut(s)	161
Eco32I	GATATC	1 cut(s)	307
Eco57I	CTGAAG	1 cut(s)	121
Eco72I	CACGTG	1 cut(s)	12
EcoRII	CCWGG	1 cut(s)	216
EcoRV	GATATC	1 cut(s)	307
FaeI	CATG	2 cut(s)	51, 62
FaiI	YATR	5 cut(s)	49, 60, 96, 233, 290
FatI	CATG	2 cut(s)	47, 58
Fnu4HI	GCNGC	3 cut(s)	192, 195, 222
FokI	GGATG	1 cut(s)	125
Fsp4HI	GCNGC	3 cut(s)	192, 195, 222
GluI	GCNGC	3 cut(s)	192, 195, 222
GsuI	CTGGAG	1 cut(s)	303
Hin1II	CATG	2 cut(s)	51, 62
Hpy188I	TCNGA	1 cut(s)	211
Hpy188III	TCNNGA	1 cut(s)	282
HpyAV	CCTTC	2 cut(s)	54, 238
HpyCH4IV	ACGT	1 cut(s)	11
HpyCH4V	TGCA	2 cut(s)	53, 224
HpyF3I	CTNAG	1 cut(s)	198
HpySE526I	ACGT	1 cut(s)	11
Hsp92II	CATG	2 cut(s)	51, 62
Kzo9I	GATC	1 cut(s)	16
LpnPI	CCDG	7 cut(s)	13, 104, 124, 140, 203, 230, 267
Lsp1109I	GCAGC	3 cut(s)	181, 203, 208
LweI	GCATC	1 cut(s)	52
MaeII	ACGT	1 cut(s)	11
MalI	GATC	1 cut(s)	18
MboI	GATC	1 cut(s)	16
MboII	GAAGA	4 cut(s)	25, 127, 160, 178
MluCI	AATT	3 cut(s)	174, 259, 271
MmeI	TCCRAC	1 cut(s)	90
MnlI	CCTC	5 cut(s)	97, 121, 162, 278, 295
MseI	TTAA	4 cut(s)	74, 143, 162, 239
MspA1I	CMGCKG	1 cut(s)	194
MspR9I	CCNGG	1 cut(s)	218
MvaI	CCWGG	1 cut(s)	218
NdeII	GATC	1 cut(s)	16
NlaIII	CATG	2 cut(s)	51, 62
PkrI	GCNGC	3 cut(s)	193, 196, 223
PmaCI	CACGTG	1 cut(s)	12
PmlI	CACGTG	1 cut(s)	12
Ppu21I	YACGTR	1 cut(s)	12
Psp6I	CCWGG	1 cut(s)	216
PspCI	CACGTG	1 cut(s)	12
PspGI	CCWGG	1 cut(s)	216
PstI	CTGCAG	1 cut(s)	226
PvuII	CAGCTG	1 cut(s)	194
SaqAI	TTAA	4 cut(s)	74, 143, 162, 239
SatI	GCNGC	3 cut(s)	192, 195, 222
Sau3AI	GATC	1 cut(s)	16
ScrFI	CCNGG	1 cut(s)	218
SetI	ASST	7 cut(s)	14, 32, 120, 143, 196, 268, 289
SfaNI	GCATC	1 cut(s)	52
SfcI	CTRYAG	1 cut(s)	222
Sse9I	AATT	3 cut(s)	174, 259, 271
StyD4I	CCNGG	1 cut(s)	216
TaiI	ACGT	1 cut(s)	14
TasI	AATT	3 cut(s)	174, 259, 271
Tru1I	TTAA	4 cut(s)	74, 143, 162, 239
Tru9I	TTAA	4 cut(s)	74, 143, 162, 239
TseI	GCWGC	3 cut(s)	191, 194, 221
TspDTI	ATGAA	1 cut(s)	36
XapI	RAATTY	2 cut(s)	259, 271

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