Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000831

Physical Location & Seq

Genomic Coordinates Reverse (-)

19591404 .. 19595434

Gene Structure 4031 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00233540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 273 bp

ATGGAGGATGGAGTGAGGTGGTGGAGTGATGGACTTCACCAAGCAGTTGAAGCAAAAGAAGTTCTGTCGATTCAAAACGAAACTATAACTCTGGCATCTATCAGCTACCAAAACTTCTTTCTCCAGGATGAATCTGATGTAGTTTTCAGGGCAACTAAAGGTAAATGGCGGGCAGTTGTAGTAGAGATTTCTAGAATACACAAAACAGGTCGCCCTGTACTTGTTGGCACAACTAGTGTTGAGCAGAGTGACTCATTGTCTGAGCAGTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005215 GO:0005488 GO:0005524 GO:0006810 GO:0008104 GO:0008144 GO:0008150 GO:0008320 GO:0008565 GO:0015031 GO:0015399 GO:0015405 GO:0015440 GO:0015450 GO:0015462 GO:0015833 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017076 GO:0017111 GO:0022804 GO:0022857 GO:0022884 GO:0030554 GO:0032553 GO:0032555 GO:0032559 GO:0033036 GO:0033220 GO:0035639 GO:0036094 GO:0042623 GO:0042626 GO:0042886 GO:0042887 GO:0043167 GO:0043168 GO:0043492 GO:0045184 GO:0051179 GO:0051234 GO:0055085 GO:0071702 GO:0071705 GO:0071806 GO:0097159 GO:0097367 GO:1901265 GO:1901363 GO:1904680

KEGG Pathways

Metabolic & Signaling

ko02024 ko03060 ko03070 map02024 map03060 map03070

Pfam Domains

Protein Families

SecA_DEAD SecA_PP_bind SecA_SW

Protein Analysis

90

Amino Acids

10.15

Weight (kDa)

5.02

Isoelectric Point (pI)

45.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	42 - 90	8.2e-14	SecA P-loop domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000831)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G11980
fragaria_vesca	FvH4_5g01080 FvH4_5g01080 FvH4_5g01080 FvH4_5g01080 FvH4_5g01080
malus_domestica	MD04G1073000.v1.1
prunus_persica	Prupe.5G084800_v2.0.a1 Prupe.5G084800_v2.0.a1 Prupe.5G084800_v2.0.a1
pyrus_communis	pycom04g06610
rosa_chinensis	RchiOBHm_Chr0c37g0502981 RchiOBHm_Chr1g0341841 RchiOBHm_Chr2g0125491 RchiOBHm_Chr4g0403961 RchiOBHm_Chr4g0425481 RchiOBHm_Chr6g0265101 RchiOBHm_Chr6g0265181 RchiOBHm_Chr7g0200241
rosa_laevigata	RLG00000001516 RLG00000002981 RLG00000003741 RLG00000013747 RLG00000016807
rosa_multiflora	Rmu_sc0003776.1_g000038 Rmu_sc0006398.1_g000015 Rmu_sc0019284.1_g000002
rosa_roxburghii	Rroxscaffold_3G00233480 Rroxscaffold_3G00233540 Rroxscaffold_3G00256200 Rroxscaffold_5G00387730 Rroxscaffold_6G00396100
rosa_rugosa	Rorug01G0208200 Rorug01G0280900 Rorug01G0418600 Rorug02G0279000 Rorug04G0081200 Rorug05G0323800 Rorug05G0574400 Rorug07G0058700
rosa_samantha	Rh1AG260600 Rh1BG135400 Rh1BG136300 Rh1CG070000 Rh1DG074600 Rh2AG365800 Rh2AG365900 Rh2BG539700 Rh3BG097600 Rh4AG421000 Rh4BG432900 Rh5AG197000 Rh5AG320000 Rh5BG196900 Rh5CG106200 Rh6AG247800 Rh6BG133700 Rh6CG132200 Rh6CG525100 Rh6DG119400 Rh7AG144000 Rh7AG184200 Rh7AG200500 Rh7BG186900 Rh7CG194600 Rh7DG188300
rosa_wichuraiana	Rw5G029930 Rw7G016120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	169
AfaI	GTAC	1 cut(s)	219
AgsI	TTSAA	2 cut(s)	50, 74
AhdI	GACNNNNNGTC	1 cut(s)	256
AhlI	ACTAGT	1 cut(s)	233
AjnI	CCWGG	1 cut(s)	123
AjuI	GAANNNNNNNTTGG	2 cut(s)	102, 134
AluBI	AGCT	1 cut(s)	105
AluI	AGCT	1 cut(s)	105
AsuHPI	GGTGA	1 cut(s)	29
BccI	CCATC	2 cut(s)	2, 23
BciT130I	CCWGG	1 cut(s)	125
BcuI	ACTAGT	1 cut(s)	233
BfaI	CTAG	2 cut(s)	192, 234
Bme1390I	CCNGG	1 cut(s)	125
BmeRI	GACNNNNNGTC	1 cut(s)	256
BmrFI	CCNGG	1 cut(s)	125
BmsI	GCATC	1 cut(s)	104
BpmI	CTGGAG	1 cut(s)	107
BseBI	CCWGG	1 cut(s)	125
BseGI	GGATG	2 cut(s)	13, 133
BseMII	CTCAG	1 cut(s)	252
BspACI	CCGC	1 cut(s)	169
BspCNI	CTCAG	1 cut(s)	253
Bst2UI	CCWGG	1 cut(s)	125
BstC8I	GCNNGC	1 cut(s)	171
BstDEI	CTNAG	1 cut(s)	261
BstF5I	GGATG	2 cut(s)	13, 133
BstMWI	GCNNNNNNNGC	1 cut(s)	50
BstNI	CCWGG	1 cut(s)	125
BstSCI	CCNGG	1 cut(s)	123
BtsCI	GGATG	2 cut(s)	13, 133
Cac8I	GCNNGC	1 cut(s)	171
Csp6I	GTAC	1 cut(s)	218
CviJI	RGCY	1 cut(s)	105
CviKI_1	RGCY	1 cut(s)	105
CviQI	GTAC	1 cut(s)	218
DdeI	CTNAG	1 cut(s)	261
DriI	GACNNNNNGTC	1 cut(s)	256
Eam1105I	GACNNNNNGTC	1 cut(s)	256
EcoRII	CCWGG	1 cut(s)	123
FaiI	YATR	1 cut(s)	86
FauI	CCCGC	1 cut(s)	162
FokI	GGATG	2 cut(s)	20, 140
FspBI	CTAG	2 cut(s)	192, 234
GsuI	CTGGAG	1 cut(s)	107
HinfI	GANTC	3 cut(s)	70, 131, 251
HphI	GGTGA	1 cut(s)	29
Hpy188I	TCNGA	2 cut(s)	136, 262
Hpy188III	TCNNGA	1 cut(s)	192
HpyF10VI	GCNNNNNNNGC	1 cut(s)	50
HpyF3I	CTNAG	1 cut(s)	261
LpnPI	CCDG	6 cut(s)	77, 110, 133, 137, 192, 228
LweI	GCATC	1 cut(s)	104
MaeI	CTAG	2 cut(s)	192, 234
MaeIII	GTNAC	1 cut(s)	248
MlyI	GAGTC	1 cut(s)	245
MnlI	CCTC	1 cut(s)	9
MspR9I	CCNGG	1 cut(s)	125
MvaI	CCWGG	1 cut(s)	125
MwoI	GCNNNNNNNGC	1 cut(s)	50
NmuCI	GTSAC	1 cut(s)	248
PfeI	GAWTC	2 cut(s)	70, 131
PfoI	TCCNGGA	1 cut(s)	123
PleI	GAGTC	1 cut(s)	245
PpsI	GAGTC	1 cut(s)	245
Psp6I	CCWGG	1 cut(s)	123
PspGI	CCWGG	1 cut(s)	123
RsaI	GTAC	1 cut(s)	219
RsaNI	GTAC	1 cut(s)	218
SchI	GAGTC	1 cut(s)	245
ScrFI	CCNGG	1 cut(s)	125
SetI	ASST	4 cut(s)	20, 107, 163, 211
SfaNI	GCATC	1 cut(s)	104
SpeI	ACTAGT	1 cut(s)	233
SsiI	CCGC	1 cut(s)	169
SspMI	CTAG	2 cut(s)	192, 234
StyD4I	CCNGG	1 cut(s)	123
TaqI	TCGA	1 cut(s)	68
TatI	WGTACW	1 cut(s)	217
TfiI	GAWTC	2 cut(s)	70, 131
TseFI	GTSAC	1 cut(s)	248
Tsp45I	GTSAC	1 cut(s)	248
TspDTI	ATGAA	1 cut(s)	144
XbaI	TCTAGA	1 cut(s)	191
XspI	CTAG	2 cut(s)	192, 234

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