Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000749

Physical Location & Seq

Genomic Coordinates Forward (+)

38290356 .. 38295605

Gene Structure 5250 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00245360.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 243 bp

ATGTTCTTTGCATTCCGGGGTGTTTCAAGAGCACTGGTTGAAAATTCCAGAACCTTACTACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAAAAATGCAAAAGTTAGATTGGAAGAGAAACAAATAACTCCATCTATCGATAGGATTGCAAAAAGCCTAGATATGTCCAAAAAGAAAGTTAGGAAGTTACTCAGGTATCAAGTGCTCGACAAACCAAGAGAGGCCAACACCTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000988 GO:0000990 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009628 GO:0009889 GO:0009987 GO:0010109 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043254 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051716 GO:0051775 GO:0060255 GO:0065007 GO:0071214 GO:0071461 GO:0071478 GO:0071482 GO:0071704 GO:0080005 GO:0080090 GO:0090304 GO:0097659 GO:0104004 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1903506 GO:2000112 GO:2000142 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

80

Amino Acids

9.33

Weight (kDa)

10.76

Isoelectric Point (pI)

22.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r3	PF04539	27 - 67	1.1e-06	Sigma-70 region 3

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

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Publication-ready

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Orthologous Genes (Group: OG0000749)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13930 AT1G13930 AT1G13930 AT2G03440
fragaria_vesca	FvH4_4g30460
malus_domestica	MD13G1065600.v1.1 MD13G1065700.v1.1 MD16G1064100.v1.1 MD16G1064200.v1.1
prunus_persica	Prupe.1G282500_v2.0.a1
pyrus_communis	pycom13g05780 pycom13g05790
rosa_chinensis	RchiOBHm_Chr1g0320671 RchiOBHm_Chr2g0084691 RchiOBHm_Chr4g0391511 RchiOBHm_Chr4g0397231 RchiOBHm_Chr5g0038511 RchiOBHm_Chr7g0218611 RchiOBHm_Chr7g0243091
rosa_laevigata	RLG00000001214 RLG00000003134 RLG00000005591 RLG00000006330 RLG00000008137 RLG00000020620 RLG00000024858 RLG00000027359
rosa_multiflora	Rmu_co8437595.1_g000001 Rmu_sc0001781.1_g000012 Rmu_sc0001796.1_g000001 Rmu_sc0002245.1_g000048 Rmu_sc0002312.1_g000067 Rmu_sc0006553.1_g000012 Rmu_sc0007391.1_g000013 Rmu_ssc0000436.1_g000004
rosa_roxburghii	Rroxscaffold_1G00072700 Rroxscaffold_3G00245360 Rroxscaffold_3G00267980 Rroxscaffold_4G00319730 Rroxscaffold_5G00374780 Rroxscaffold_7G00197900
rosa_rugosa	Rorug01G0161500.1 Rorug04G0313200 Rorug04G0313200 Rorug07G0153800
rosa_samantha	Rh1BG233900 Rh1DG068600 Rh1DG091400 Rh1DG261300 Rh2AG113800 Rh2AG464700 Rh4AG364000 Rh4BG288300 Rh4BG375300 Rh4CG180100 Rh4CG389400 Rh4DG224500 Rh4DG369700 Rh5AG078000 Rh5CG365500 Rh5DG489000 Rh5DG546500 Rh6BG092900 Rh7BG230100 Rh7BG332300 Rh7DG399200
rosa_wichuraiana	Rw0G007230 Rw0G016780 Rw2G045830 Rw4G006320 Rw5G027470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	43
AgsI	TTSAA	2 cut(s)	27, 41
Alw21I	GWGCWC	2 cut(s)	34, 213
AoxI	GGCC	1 cut(s)	228
ApoI	RAATTY	1 cut(s)	43
AsuC2I	CCSGG	1 cut(s)	17
BaeI	ACNNNNGTAYC	2 cut(s)	185, 218
Bbv12I	GWGCWC	2 cut(s)	34, 213
BccI	CCATC	1 cut(s)	145
BcgI	CGANNNNNNTGC	2 cut(s)	134, 168
BcnI	CCSGG	1 cut(s)	17
BfaI	CTAG	1 cut(s)	164
Bme1390I	CCNGG	1 cut(s)	17
BmrFI	CCNGG	1 cut(s)	17
BpuMI	CCSGG	1 cut(s)	17
Bsa29I	ATCGAT	1 cut(s)	144
BsaJI	CCNNGG	1 cut(s)	16
Bse1I	ACTGG	1 cut(s)	39
BseCI	ATCGAT	1 cut(s)	144
BseDI	CCNNGG	1 cut(s)	16
BseMII	CTCAG	1 cut(s)	211
BseNI	ACTGG	1 cut(s)	39
BshFI	GGCC	1 cut(s)	230
BshVI	ATCGAT	1 cut(s)	144
BsiHKAI	GWGCWC	2 cut(s)	34, 213
BsiSI	CCGG	1 cut(s)	16
BsmI	GAATGC	1 cut(s)	11
BsnI	GGCC	1 cut(s)	230
Bsp1286I	GDGCHC	2 cut(s)	34, 213
BspANI	GGCC	1 cut(s)	230
BspCNI	CTCAG	1 cut(s)	210
BspDI	ATCGAT	1 cut(s)	144
BsrI	ACTGG	1 cut(s)	39
BssECI	CCNNGG	1 cut(s)	16
Bst6I	CTCTTC	1 cut(s)	114
BstDEI	CTNAG	1 cut(s)	197
BstSCI	CCNGG	1 cut(s)	15
Bsu15I	ATCGAT	1 cut(s)	144
BsuRI	GGCC	1 cut(s)	230
BsuTUI	ATCGAT	1 cut(s)	144
BtsIMutI	CAGTG	1 cut(s)	32
ClaI	ATCGAT	1 cut(s)	144
CviAII	CATG	1 cut(s)	77
CviJI	RGCY	2 cut(s)	162, 230
CviKI_1	RGCY	2 cut(s)	162, 230
DdeI	CTNAG	1 cut(s)	197
Eam1104I	CTCTTC	1 cut(s)	114
EarI	CTCTTC	1 cut(s)	114
FaeI	CATG	1 cut(s)	80
FaiI	YATR	3 cut(s)	78, 170, 241
FatI	CATG	1 cut(s)	76
FspBI	CTAG	1 cut(s)	164
HaeIII	GGCC	1 cut(s)	230
HapII	CCGG	1 cut(s)	16
Hin1II	CATG	1 cut(s)	80
HpaII	CCGG	1 cut(s)	16
Hpy188III	TCNNGA	2 cut(s)	27, 48
HpyCH4V	TGCA	4 cut(s)	11, 76, 104, 155
HpyF3I	CTNAG	1 cut(s)	197
Hsp92II	CATG	1 cut(s)	80
LpnPI	CCDG	4 cut(s)	20, 29, 61, 184
MaeI	CTAG	1 cut(s)	164
MaeIII	GTNAC	1 cut(s)	192
MboII	GAAGA	1 cut(s)	131
MhlI	GDGCHC	2 cut(s)	34, 213
MluCI	AATT	1 cut(s)	43
MnlI	CCTC	2 cut(s)	75, 220
MseI	TTAA	1 cut(s)	92
MslI	CAYNNNNRTG	1 cut(s)	75
MspI	CCGG	1 cut(s)	16
MspR9I	CCNGG	1 cut(s)	17
Mva1269I	GAATGC	1 cut(s)	11
NciI	CCSGG	1 cut(s)	17
NlaIII	CATG	1 cut(s)	80
PctI	GAATGC	1 cut(s)	11
RseI	CAYNNNNRTG	1 cut(s)	75
SaqAI	TTAA	1 cut(s)	92
ScrFI	CCNGG	1 cut(s)	17
SduI	GDGCHC	2 cut(s)	34, 213
SetI	ASST	4 cut(s)	56, 86, 203, 239
SmiMI	CAYNNNNRTG	1 cut(s)	75
Sse9I	AATT	1 cut(s)	43
SspMI	CTAG	1 cut(s)	164
StyD4I	CCNGG	1 cut(s)	15
TaqI	TCGA	2 cut(s)	144, 213
TasI	AATT	1 cut(s)	43
Tru1I	TTAA	1 cut(s)	92
Tru9I	TTAA	1 cut(s)	92
TscAI	CASTG	1 cut(s)	39
TspRI	CASTG	1 cut(s)	39
XapI	RAATTY	1 cut(s)	43
XspI	CTAG	1 cut(s)	164

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