Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0003029

Physical Location & Seq

Genomic Coordinates Reverse (-)

20282446 .. 20283734

Gene Structure 1289 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG095600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 423 bp

ATGGCGACTCTGGTTCAACTCTGCCACAGCCTGCGCCTCTTCCCGATTCCACTTTCTTTCCAAATTAGGGATTTAGGTTTTCTTCTTTGTCTGATGAAGGAGGGACTGATGAATGAGATGCAGAGGTCGAAGGAGGGACTGATGAAGAAGATGCAGAGGAAGAAGATGGAGGTTTCAAAGTTGGGAAAGTTGAAATGTAAGGATGAACATGATTCTGTACAAGATGTAAAAGCAGATGACCTACGGCAGATGCTTCTAGCCATGACAGTGGAGGTCCGGGTTATCATTGTCAAGTTAGCTAGCAGATTACATAACATACGCACTCTTTCACACATGCCTCCACATAAGCAGTCCAGCATTGCAAGGGAGACATTGCAGGTCTTTGCTCCTCTAGCAAAGTTGCTTGGGATGTACCAAATCAAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0007275 GO:0007568 GO:0008150 GO:0008152 GO:0008893 GO:0009507 GO:0009536 GO:0009611 GO:0009987 GO:0010150 GO:0015979 GO:0016787 GO:0016788 GO:0016794 GO:0032501 GO:0032502 GO:0042578 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044424 GO:0044444 GO:0044464 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0050896 GO:0090693 GO:0099402

KEGG Pathways

Metabolic & Signaling

ko00230 map00230

Pfam Domains

Protein Families

HD_4 RelA_SpoT TGS

Protein Analysis

141

Amino Acids

16.26

Weight (kDa)

9.92

Isoelectric Point (pI)

45.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD_4	PF13328	57 - 137	2.8e-21	HD domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0003029)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G02260 AT4G02260 AT4G02260 AT4G02260
fragaria_vesca	FvH4_2g26030 FvH4_2g26030 FvH4_3g31250
malus_domestica	MD03G1291500.v1.1 MD11G1306700.v1.1
prunus_persica	Prupe.8G264600_v2.0.a1
pyrus_communis	pycom03g23090 pycom11g26840
rosa_chinensis	RchiOBHm_Chr6g0294391
rosa_laevigata	RLG00000011874
rosa_multiflora	Rmu_co8168868.1_g000001 Rmu_sc0000276.1_g000002 Rmu_sc0024449.1_g000001 Rmu_sc0030396.1_g000001
rosa_roxburghii	Rroxscaffold_4G00298810 Rroxscaffold_7G00173410
rosa_rugosa	Rorug04G0066700 Rorug04G0066800 Rorug04G0066900 Rorug04G0066900 Rorug04G0067000 Rorug04G0067100 Rorug06G0244100 Rorug06G0244200
rosa_samantha	Rh4AG095600 Rh6AG356700 Rh6BG363400 Rh6CG370700 Rh6DG357400 Rh7BG000400
rosa_wichuraiana	Rw4G020730 Rw6G017020 Rw6G031090 Rw7G015830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	367
AfaI	GTAC	2 cut(s)	219, 413
AfiI	CCNNNNNNNGG	1 cut(s)	67
AgsI	TTSAA	3 cut(s)	17, 177, 193
AluBI	AGCT	1 cut(s)	299
AluI	AGCT	1 cut(s)	299
Alw26I	GTCTC	1 cut(s)	362
AspLEI	GCGC	1 cut(s)	36
AspS9I	GGNCC	1 cut(s)	274
AsuC2I	CCSGG	1 cut(s)	278
AsuNHI	GCTAGC	1 cut(s)	299
AvaII	GGWCC	1 cut(s)	274
BccI	CCATC	1 cut(s)	160
BceAI	ACGGC	1 cut(s)	260
BcnI	CCSGG	1 cut(s)	278
BcoDI	GTCTC	1 cut(s)	362
BfaI	CTAG	3 cut(s)	257, 300, 392
BfuAI	ACCTGC	1 cut(s)	367
Bme1390I	CCNGG	1 cut(s)	278
Bme18I	GGWCC	1 cut(s)	274
BmgT120I	GGNCC	1 cut(s)	274
BmrFI	CCNGG	1 cut(s)	278
BmsI	GCATC	3 cut(s)	108, 141, 240
BmtI	GCTAGC	1 cut(s)	303
BpuMI	CCSGG	1 cut(s)	278
Bsc4I	CCNNNNNNNGG	1 cut(s)	67
Bse3DI	GCAATG	2 cut(s)	357, 371
BseGI	GGATG	2 cut(s)	208, 414
BseLI	CCNNNNNNNGG	1 cut(s)	67
BseMI	GCAATG	2 cut(s)	357, 371
BseRI	GAGGAG	1 cut(s)	378
BsiSI	CCGG	1 cut(s)	277
BslFI	GGGAC	2 cut(s)	117, 150
BslI	CCNNNNNNNGG	1 cut(s)	67
BsmAI	GTCTC	1 cut(s)	362
BsmFI	GGGAC	2 cut(s)	117, 150
Bsp1407I	TGTACA	1 cut(s)	217
BspMI	ACCTGC	1 cut(s)	367
BspOI	GCTAGC	1 cut(s)	303
BsrDI	GCAATG	2 cut(s)	357, 371
BsrGI	TGTACA	1 cut(s)	217
Bst4CI	ACNGT	1 cut(s)	268
Bst6I	CTCTTC	1 cut(s)	44
BstAUI	TGTACA	1 cut(s)	217
BstC8I	GCNNGC	2 cut(s)	32, 301
BstF5I	GGATG	2 cut(s)	208, 414
BstHHI	GCGC	1 cut(s)	36
BstMAI	GTCTC	1 cut(s)	362
BstMWI	GCNNNNNNNGC	1 cut(s)	392
BstNSI	RCATGY	1 cut(s)	337
BstSCI	CCNGG	1 cut(s)	276
BstXI	CCANNNNNNTGG	1 cut(s)	268
BtsCI	GGATG	2 cut(s)	208, 414
BtsIMutI	CAGTG	1 cut(s)	273
BveI	ACCTGC	1 cut(s)	367
Cac8I	GCNNGC	2 cut(s)	32, 301
CfoI	GCGC	1 cut(s)	36
Cfr13I	GGNCC	1 cut(s)	274
Csp6I	GTAC	2 cut(s)	218, 412
CviAII	CATG	3 cut(s)	209, 262, 334
CviJI	RGCY	3 cut(s)	30, 260, 299
CviKI_1	RGCY	3 cut(s)	30, 260, 299
CviQI	GTAC	2 cut(s)	218, 412
Eam1104I	CTCTTC	1 cut(s)	44
EarI	CTCTTC	1 cut(s)	44
Eco47I	GGWCC	1 cut(s)	274
FaeI	CATG	3 cut(s)	212, 265, 337
FaiI	YATR	6 cut(s)	210, 263, 312, 317, 335, 345
FaqI	GGGAC	2 cut(s)	117, 150
FatI	CATG	3 cut(s)	208, 261, 333
FokI	GGATG	1 cut(s)	215
FspBI	CTAG	3 cut(s)	257, 300, 392
GlaI	GCGC	1 cut(s)	35
HapII	CCGG	1 cut(s)	277
HhaI	GCGC	1 cut(s)	36
Hin1II	CATG	3 cut(s)	212, 265, 337
Hin6I	GCGC	1 cut(s)	34
HinP1I	GCGC	1 cut(s)	34
HinfI	GANTC	3 cut(s)	7, 46, 212
HpaII	CCGG	1 cut(s)	277
Hpy188I	TCNGA	1 cut(s)	93
Hpy188III	TCNNGA	1 cut(s)	43
HpyAV	CCTTC	2 cut(s)	91, 124
HpyCH4III	ACNGT	1 cut(s)	268
HpyCH4V	TGCA	4 cut(s)	121, 154, 362, 376
HpyF10VI	GCNNNNNNNGC	1 cut(s)	392
Hsp92II	CATG	3 cut(s)	212, 265, 337
HspAI	GCGC	1 cut(s)	34
LmnI	GCTCC	1 cut(s)	391
LpnPI	CCDG	4 cut(s)	44, 290, 362, 367
LweI	GCATC	3 cut(s)	108, 141, 240
MaeI	CTAG	3 cut(s)	257, 300, 392
MboII	GAAGA	6 cut(s)	31, 74, 157, 160, 172, 175
MluCI	AATT	1 cut(s)	63
MnlI	CCTC	9 cut(s)	47, 94, 117, 127, 150, 163, 265, 348, 399
MslI	CAYNNNNRTG	1 cut(s)	266
MspI	CCGG	1 cut(s)	277
MspR9I	CCNGG	1 cut(s)	278
MwoI	GCNNNNNNNGC	1 cut(s)	392
NciI	CCSGG	1 cut(s)	278
NheI	GCTAGC	1 cut(s)	299
NlaIII	CATG	3 cut(s)	212, 265, 337
NspI	RCATGY	1 cut(s)	337
PfeI	GAWTC	2 cut(s)	46, 212
PspPI	GGNCC	1 cut(s)	274
RsaI	GTAC	2 cut(s)	219, 413
RsaNI	GTAC	2 cut(s)	218, 412
RseI	CAYNNNNRTG	1 cut(s)	266
Sau96I	GGNCC	1 cut(s)	274
ScrFI	CCNGG	1 cut(s)	278
SetI	ASST	7 cut(s)	79, 128, 174, 243, 276, 301, 381
SfaNI	GCATC	3 cut(s)	108, 141, 240
SinI	GGWCC	1 cut(s)	274
SmiMI	CAYNNNNRTG	1 cut(s)	266
Sse9I	AATT	1 cut(s)	63
SspMI	CTAG	3 cut(s)	257, 300, 392
StyD4I	CCNGG	1 cut(s)	276
TaaI	ACNGT	1 cut(s)	268
TaqI	TCGA	1 cut(s)	128
TasI	AATT	1 cut(s)	63
TatI	WGTACW	1 cut(s)	217
TfiI	GAWTC	2 cut(s)	46, 212
TscAI	CASTG	1 cut(s)	273
TspDTI	ATGAA	4 cut(s)	110, 125, 158, 219
TspRI	CASTG	1 cut(s)	273
VpaK11BI	GGWCC	1 cut(s)	274
XceI	RCATGY	1 cut(s)	337
XspI	CTAG	3 cut(s)	257, 300, 392

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