Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0007379

Physical Location & Seq

Genomic Coordinates Reverse (-)

68556634 .. 68558080

Gene Structure 1447 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000005562

Sequence Viewer

CDS Protein Promoter (2k)

Length: 360 bp

ATGGATCCCCAGCAGCCAGCAGAGCCAGTGTACTACATTTGTGGAGGTGCTCGATCTTCCCTTGGGTTTCATTGCGGCATGGAGATCCCTTTGAAGCCAAACGATGTGATTCAGTGCCGCGAGTGCGGTTACCGCATCTTATACAAGAAGCGCACTCGTCGCATTAGCATCATGTTATTTTGGCCTCCATCATCATGTGATTTGAATATGTTGTTCAGTATGAGGCACGCTGAAGAAACCCTGCAGAGGATGGGCATTGCAAAACCGATTAAGGGGAAGTGTCGTGGTTTAGCAATCTTTTTCATTTGCTTGTTAAAATATGGACTTAAGGAGAGGACTTTAAGCTTGTATGAGGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006366 GO:0006383 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

DNA_RNApol_7kD

Protein Analysis

120

Amino Acids

13.71

Weight (kDa)

9.3

Isoelectric Point (pI)

46.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_RPAB4	PF03604	24 - 51	2e-12	DNA directed RNA polymerase, 7 kDa subunit

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: OG0007379)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53690 AT1G53690 AT5G41010
fragaria_vesca	FvH4_3g22950 FvH4_5g18480
malus_domestica	MD12G1077100.v1.1 MD14G1070900.v1.1 MD14G1071000.v1.1
prunus_persica	Prupe.4G215400_v2.0.a1 Prupe.4G246000_v2.0.a1 Prupe.4G246000_v2.0.a1 Prupe.5G244400_v2.0.a1
pyrus_communis	pycom12g06260
rosa_chinensis	RchiOBHm_Chr5g0040221 RchiOBHm_Chr7g0177031
rosa_laevigata	RLG00000005562
rosa_roxburghii	Rroxscaffold_1G00041040
rosa_samantha	Rh5AG271300 Rh5CG307500 Rh5DG282800 Rh7AG002600 Rh7BG002900 Rh7CG002200
rosa_wichuraiana	Rw5G025370 Rw7G000210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	120
AciI	CCGC	4 cut(s)	75, 118, 126, 133
AclWI	GGATC	2 cut(s)	12, 79
AcuI	CTGAAG	1 cut(s)	252
AfaI	GTAC	1 cut(s)	32
AfiI	CCNNNNNNNGG	2 cut(s)	246, 272
AflII	CTTAAG	1 cut(s)	326
AgsI	TTSAA	2 cut(s)	94, 205
AluBI	AGCT	1 cut(s)	345
AluI	AGCT	1 cut(s)	345
Alw21I	GWGCWC	1 cut(s)	52
AlwI	GGATC	2 cut(s)	12, 79
AoxI	GGCC	1 cut(s)	182
ApeKI	GCWGC	1 cut(s)	13
AspLEI	GCGC	1 cut(s)	153
BamHI	GGATCC	1 cut(s)	4
Bbv12I	GWGCWC	1 cut(s)	52
BbvI	GCAGC	1 cut(s)	25
BccI	CCATC	2 cut(s)	196, 244
BfmI	CTRYAG	1 cut(s)	242
BfrI	CTTAAG	1 cut(s)	326
BisI	GCNGC	3 cut(s)	14, 76, 118
BlsI	GCNGC	3 cut(s)	15, 77, 119
BmiI	GGNNCC	1 cut(s)	6
BmsI	GCATC	2 cut(s)	144, 177
BsaJI	CCNNGG	1 cut(s)	61
Bsc4I	CCNNNNNNNGG	2 cut(s)	246, 272
Bse1I	ACTGG	1 cut(s)	26
Bse3DI	GCAATG	2 cut(s)	70, 255
BseDI	CCNNGG	1 cut(s)	61
BseGI	GGATG	1 cut(s)	255
BseLI	CCNNNNNNNGG	2 cut(s)	246, 272
BseMI	GCAATG	2 cut(s)	70, 255
BseNI	ACTGG	1 cut(s)	26
BseXI	GCAGC	1 cut(s)	25
BseYI	CCCAGC	1 cut(s)	9
Bsh1236I	CGCG	1 cut(s)	120
BshFI	GGCC	1 cut(s)	184
BsiHKAI	GWGCWC	1 cut(s)	52
BslI	CCNNNNNNNGG	2 cut(s)	246, 272
BsnI	GGCC	1 cut(s)	184
Bsp1286I	GDGCHC	1 cut(s)	52
Bsp143I	GATC	3 cut(s)	4, 53, 84
BspACI	CCGC	4 cut(s)	75, 118, 126, 133
BspANI	GGCC	1 cut(s)	184
BspFNI	CGCG	1 cut(s)	120
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	1 cut(s)	246
BspPI	GGATC	2 cut(s)	12, 79
BspTI	CTTAAG	1 cut(s)	326
BsrDI	GCAATG	2 cut(s)	70, 255
BsrI	ACTGG	1 cut(s)	26
BssECI	CCNNGG	1 cut(s)	61
BssMI	GATC	3 cut(s)	4, 53, 84
BssT1I	CCWWGG	1 cut(s)	61
BstAFI	CTTAAG	1 cut(s)	326
BstC8I	GCNNGC	2 cut(s)	18, 228
BstEII	GGTNACC	1 cut(s)	128
BstF5I	GGATG	1 cut(s)	255
BstFNI	CGCG	1 cut(s)	120
BstHHI	GCGC	1 cut(s)	153
BstKTI	GATC	3 cut(s)	7, 56, 87
BstMBI	GATC	3 cut(s)	4, 53, 84
BstMWI	GCNNNNNNNGC	4 cut(s)	22, 123, 132, 159
BstPI	GGTNACC	1 cut(s)	128
BstSFI	CTRYAG	1 cut(s)	242
BstUI	CGCG	1 cut(s)	120
BstV1I	GCAGC	1 cut(s)	25
BstX2I	RGATCY	2 cut(s)	4, 84
BstYI	RGATCY	2 cut(s)	4, 84
BsuRI	GGCC	1 cut(s)	184
BtsCI	GGATG	1 cut(s)	255
BtsIMutI	CAGTG	2 cut(s)	33, 119
Cac8I	GCNNGC	2 cut(s)	18, 228
CfoI	GCGC	1 cut(s)	153
Csp6I	GTAC	1 cut(s)	31
CviAII	CATG	3 cut(s)	79, 172, 195
CviJI	RGCY	6 cut(s)	16, 25, 97, 184, 345, 356
CviKI_1	RGCY	6 cut(s)	16, 25, 97, 184, 345, 356
CviQI	GTAC	1 cut(s)	31
DpnI	GATC	3 cut(s)	6, 55, 86
DpnII	GATC	3 cut(s)	4, 53, 84
Eco130I	CCWWGG	1 cut(s)	61
Eco57I	CTGAAG	1 cut(s)	252
Eco91I	GGTNACC	1 cut(s)	128
EcoO65I	GGTNACC	1 cut(s)	128
EcoT14I	CCWWGG	1 cut(s)	61
ErhI	CCWWGG	1 cut(s)	61
FaeI	CATG	3 cut(s)	82, 175, 198
FaiI	YATR	8 cut(s)	80, 142, 173, 196, 209, 221, 321, 351
FatI	CATG	3 cut(s)	78, 171, 194
Fnu4HI	GCNGC	3 cut(s)	14, 76, 118
FokI	GGATG	1 cut(s)	262
Fsp4HI	GCNGC	3 cut(s)	14, 76, 118
GlaI	GCGC	1 cut(s)	152
GluI	GCNGC	3 cut(s)	14, 76, 118
GsaI	CCCAGC	1 cut(s)	13
HaeIII	GGCC	1 cut(s)	184
HhaI	GCGC	1 cut(s)	153
Hin1II	CATG	3 cut(s)	82, 175, 198
Hin6I	GCGC	1 cut(s)	151
HinP1I	GCGC	1 cut(s)	151
HindIII	AAGCTT	1 cut(s)	343
HinfI	GANTC	1 cut(s)	109
Hpy166II	GTNNAC	1 cut(s)	31
Hpy8I	GTNNAC	1 cut(s)	31
Hpy99I	CGWCG	1 cut(s)	162
HpyCH4V	TGCA	2 cut(s)	244, 260
HpyF10VI	GCNNNNNNNGC	4 cut(s)	22, 123, 132, 159
Hsp92II	CATG	3 cut(s)	82, 175, 198
HspAI	GCGC	1 cut(s)	151
Kzo9I	GATC	3 cut(s)	4, 53, 84
LpnPI	CCDG	4 cut(s)	23, 30, 39, 254
Lsp1109I	GCAGC	1 cut(s)	25
LweI	GCATC	2 cut(s)	144, 177
MaeIII	GTNAC	1 cut(s)	128
MalI	GATC	3 cut(s)	6, 55, 86
MboI	GATC	3 cut(s)	4, 53, 84
MboII	GAAGA	2 cut(s)	48, 245
MflI	RGATCY	2 cut(s)	4, 84
MhlI	GDGCHC	1 cut(s)	52
MnlI	CCTC	6 cut(s)	38, 195, 216, 240, 327, 346
MseI	TTAA	4 cut(s)	270, 314, 327, 341
MslI	CAYNNNNRTG	1 cut(s)	193
MspCI	CTTAAG	1 cut(s)	326
MvnI	CGCG	1 cut(s)	120
MwoI	GCNNNNNNNGC	4 cut(s)	22, 123, 132, 159
NdeII	GATC	3 cut(s)	4, 53, 84
NlaIII	CATG	3 cut(s)	82, 175, 198
NlaIV	GGNNCC	1 cut(s)	6
PfeI	GAWTC	1 cut(s)	109
PkrI	GCNGC	3 cut(s)	15, 77, 119
PspEI	GGTNACC	1 cut(s)	128
PspFI	CCCAGC	1 cut(s)	9
PspN4I	GGNNCC	1 cut(s)	6
PstI	CTGCAG	1 cut(s)	246
PsuI	RGATCY	2 cut(s)	4, 84
RsaI	GTAC	1 cut(s)	32
RsaNI	GTAC	1 cut(s)	31
RseI	CAYNNNNRTG	1 cut(s)	193
SaqAI	TTAA	4 cut(s)	270, 314, 327, 341
SatI	GCNGC	3 cut(s)	14, 76, 118
Sau3AI	GATC	3 cut(s)	4, 53, 84
SduI	GDGCHC	1 cut(s)	52
SetI	ASST	2 cut(s)	49, 347
SfaNI	GCATC	2 cut(s)	144, 177
SfcI	CTRYAG	1 cut(s)	242
SmiMI	CAYNNNNRTG	1 cut(s)	193
SmlI	CTYRAG	1 cut(s)	326
SmoI	CTYRAG	1 cut(s)	326
SsiI	CCGC	4 cut(s)	75, 118, 126, 133
StyI	CCWWGG	1 cut(s)	61
TaqI	TCGA	1 cut(s)	52
TatI	WGTACW	1 cut(s)	30
TauI	GCSGC	2 cut(s)	78, 120
TfiI	GAWTC	1 cut(s)	109
Tru1I	TTAA	4 cut(s)	270, 314, 327, 341
Tru9I	TTAA	4 cut(s)	270, 314, 327, 341
TscAI	CASTG	2 cut(s)	33, 119
TseI	GCWGC	1 cut(s)	13
TspDTI	ATGAA	2 cut(s)	59, 292
TspRI	CASTG	2 cut(s)	33, 119
Vha464I	CTTAAG	1 cut(s)	326

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