Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0007379

Physical Location & Seq

Genomic Coordinates Forward (+)

229728 .. 231301

Gene Structure 1574 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG002200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 357 bp

ATGGATCCCCAGCAGCCAGCAGAGCCAGTGTACTACATTTGTGGAGATTGCGGCATGGAGATCCCTTTGAAGCCAAACGATGTGATTCAGTGCCGCGAGTGCGGTTACCGCATCTTATACAAGAAGCGCACTCGTCGCAATGCTGGCCTCCATCATCACTTGTTCAGTATGAGGCACGCTGAAGAAACCCTGCAGAGGATGGGCATTGCAAAACCGAATAAGGGCAAGTGTCGTGGTTTAGCAATAGACTGGCTTGGGCATCGAGGTGGCGAATTCTTACTCGTGCTACTGTTAGTTTCGACTTTCGAGACGTGTGCGTTACCAACCAGGGCTGCAGCGCATGGAGGACGCGTTTAA

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

118

Amino Acids

13.3

Weight (kDa)

9.19

Isoelectric Point (pI)

39.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_RPAB4	PF03604	12 - 43	8.3e-17	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)

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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	2 cut(s)	96, 351
AciI	CCGC	4 cut(s)	51, 94, 102, 109
AclWI	GGATC	2 cut(s)	12, 55
AcsI	RAATTY	1 cut(s)	272
AcuI	CTGAAG	1 cut(s)	201
AfaI	GTAC	1 cut(s)	32
AfiI	CCNNNNNNNGG	2 cut(s)	195, 221
AflIII	ACRYGT	2 cut(s)	311, 349
AgsI	TTSAA	1 cut(s)	70
AjiI	CACGTC	1 cut(s)	312
AjnI	CCWGG	1 cut(s)	326
Alw26I	GTCTC	1 cut(s)	302
AlwI	GGATC	2 cut(s)	12, 55
AoxI	GGCC	1 cut(s)	145
ApeKI	GCWGC	3 cut(s)	13, 332, 335
ApoI	RAATTY	1 cut(s)	272
AspLEI	GCGC	2 cut(s)	129, 340
BamHI	GGATCC	1 cut(s)	4
BauI	CACGAG	1 cut(s)	281
BbvI	GCAGC	3 cut(s)	25, 319, 347
BccI	CCATC	2 cut(s)	159, 193
BcgI	CGANNNNNNTGC	2 cut(s)	296, 330
BciT130I	CCWGG	1 cut(s)	328
BcoDI	GTCTC	1 cut(s)	302
BfmI	CTRYAG	2 cut(s)	191, 333
BisI	GCNGC	5 cut(s)	14, 52, 94, 333, 336
BlsI	GCNGC	5 cut(s)	15, 53, 95, 334, 337
Bme1390I	CCNGG	1 cut(s)	328
BmgBI	CACGTC	1 cut(s)	312
BmiI	GGNNCC	1 cut(s)	6
BmrFI	CCNGG	1 cut(s)	328
BmsI	GCATC	2 cut(s)	120, 268
BsaJI	CCNNGG	1 cut(s)	327
BsaXI	ACNNNNNCTCC	1 cut(s)	336
Bsc4I	CCNNNNNNNGG	2 cut(s)	195, 221
Bse1I	ACTGG	2 cut(s)	26, 254
Bse3DI	GCAATG	2 cut(s)	145, 204
BseBI	CCWGG	1 cut(s)	328
BseDI	CCNNGG	1 cut(s)	327
BseGI	GGATG	1 cut(s)	204
BseLI	CCNNNNNNNGG	2 cut(s)	195, 221
BseMI	GCAATG	2 cut(s)	145, 204
BseNI	ACTGG	2 cut(s)	26, 254
BseXI	GCAGC	3 cut(s)	25, 319, 347
BseYI	CCCAGC	1 cut(s)	9
Bsh1236I	CGCG	2 cut(s)	96, 351
BshFI	GGCC	1 cut(s)	147
BslI	CCNNNNNNNGG	2 cut(s)	195, 221
BsmAI	GTCTC	1 cut(s)	302
BsmBI	CGTCTC	1 cut(s)	302
BsnI	GGCC	1 cut(s)	147
Bsp143I	GATC	2 cut(s)	4, 60
BspACI	CCGC	4 cut(s)	51, 94, 102, 109
BspANI	GGCC	1 cut(s)	147
BspFNI	CGCG	2 cut(s)	96, 351
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	2 cut(s)	195, 337
BspPI	GGATC	2 cut(s)	12, 55
BsrDI	GCAATG	2 cut(s)	145, 204
BsrI	ACTGG	2 cut(s)	26, 254
BssECI	CCNNGG	1 cut(s)	327
BssMI	GATC	2 cut(s)	4, 60
BssSI	CACGAG	1 cut(s)	281
Bst2BI	CACGAG	1 cut(s)	281
Bst2UI	CCWGG	1 cut(s)	328
Bst4CI	ACNGT	1 cut(s)	291
BstC8I	GCNNGC	3 cut(s)	18, 145, 177
BstEII	GGTNACC	1 cut(s)	104
BstF5I	GGATG	1 cut(s)	204
BstFNI	CGCG	2 cut(s)	96, 351
BstHHI	GCGC	2 cut(s)	129, 340
BstKTI	GATC	2 cut(s)	7, 63
BstMAI	GTCTC	1 cut(s)	302
BstMBI	GATC	2 cut(s)	4, 60
BstMWI	GCNNNNNNNGC	5 cut(s)	22, 99, 108, 135, 144
BstNI	CCWGG	1 cut(s)	328
BstPI	GGTNACC	1 cut(s)	104
BstSCI	CCNGG	1 cut(s)	326
BstSFI	CTRYAG	2 cut(s)	191, 333
BstUI	CGCG	2 cut(s)	96, 351
BstV1I	GCAGC	3 cut(s)	25, 319, 347
BstX2I	RGATCY	2 cut(s)	4, 60
BstYI	RGATCY	2 cut(s)	4, 60
BsuRI	GGCC	1 cut(s)	147
BtrI	CACGTC	1 cut(s)	312
BtsCI	GGATG	1 cut(s)	204
BtsIMutI	CAGTG	2 cut(s)	33, 95
Cac8I	GCNNGC	3 cut(s)	18, 145, 177
CfoI	GCGC	2 cut(s)	129, 340
Csp6I	GTAC	1 cut(s)	31
CspCI	CAANNNNNGTGG	2 cut(s)	214, 249
CviAII	CATG	2 cut(s)	55, 341
CviJI	RGCY	6 cut(s)	16, 25, 73, 147, 253, 332
CviKI_1	RGCY	6 cut(s)	16, 25, 73, 147, 253, 332
CviQI	GTAC	1 cut(s)	31
DpnI	GATC	2 cut(s)	6, 62
DpnII	GATC	2 cut(s)	4, 60
Eco57I	CTGAAG	1 cut(s)	201
Eco91I	GGTNACC	1 cut(s)	104
EcoO65I	GGTNACC	1 cut(s)	104
EcoRI	GAATTC	1 cut(s)	272
EcoRII	CCWGG	1 cut(s)	326
Esp3I	CGTCTC	1 cut(s)	302
FaeI	CATG	2 cut(s)	58, 344
FaiI	YATR	4 cut(s)	56, 118, 170, 342
FatI	CATG	2 cut(s)	54, 340
Fnu4HI	GCNGC	5 cut(s)	14, 52, 94, 333, 336
FokI	GGATG	1 cut(s)	211
Fsp4HI	GCNGC	5 cut(s)	14, 52, 94, 333, 336
GlaI	GCGC	2 cut(s)	128, 339
GluI	GCNGC	5 cut(s)	14, 52, 94, 333, 336
GsaI	CCCAGC	1 cut(s)	13
HaeIII	GGCC	1 cut(s)	147
HhaI	GCGC	2 cut(s)	129, 340
Hin1II	CATG	2 cut(s)	58, 344
Hin6I	GCGC	2 cut(s)	127, 338
HinP1I	GCGC	2 cut(s)	127, 338
HinfI	GANTC	1 cut(s)	85
Hpy166II	GTNNAC	1 cut(s)	31
Hpy188III	TCNNGA	1 cut(s)	307
Hpy8I	GTNNAC	1 cut(s)	31
Hpy99I	CGWCG	1 cut(s)	138
HpyCH4III	ACNGT	1 cut(s)	291
HpyCH4IV	ACGT	1 cut(s)	311
HpyCH4V	TGCA	3 cut(s)	193, 209, 335
HpyF10VI	GCNNNNNNNGC	5 cut(s)	22, 99, 108, 135, 144
HpySE526I	ACGT	1 cut(s)	311
Hsp92II	CATG	2 cut(s)	58, 344
HspAI	GCGC	2 cut(s)	127, 338
Kzo9I	GATC	2 cut(s)	4, 60
LpnPI	CCDG	8 cut(s)	23, 30, 39, 129, 203, 235, 313, 340
Lsp1109I	GCAGC	3 cut(s)	25, 319, 347
LweI	GCATC	2 cut(s)	120, 268
MaeII	ACGT	1 cut(s)	311
MaeIII	GTNAC	2 cut(s)	104, 318
MalI	GATC	2 cut(s)	6, 62
MboI	GATC	2 cut(s)	4, 60
MboII	GAAGA	1 cut(s)	194
MflI	RGATCY	2 cut(s)	4, 60
MluCI	AATT	1 cut(s)	272
MluI	ACGCGT	1 cut(s)	349
MnlI	CCTC	5 cut(s)	158, 165, 189, 257, 338
MseI	TTAA	1 cut(s)	355
MslI	CAYNNNNRTG	1 cut(s)	264
MspR9I	CCNGG	1 cut(s)	328
MvaI	CCWGG	1 cut(s)	328
MvnI	CGCG	2 cut(s)	96, 351
MwoI	GCNNNNNNNGC	5 cut(s)	22, 99, 108, 135, 144
NdeII	GATC	2 cut(s)	4, 60
NlaIII	CATG	2 cut(s)	58, 344
NlaIV	GGNNCC	1 cut(s)	6
PfeI	GAWTC	1 cut(s)	85
PkrI	GCNGC	5 cut(s)	15, 53, 95, 334, 337
Psp6I	CCWGG	1 cut(s)	326
PspEI	GGTNACC	1 cut(s)	104
PspFI	CCCAGC	1 cut(s)	9
PspGI	CCWGG	1 cut(s)	326
PspN4I	GGNNCC	1 cut(s)	6
PstI	CTGCAG	2 cut(s)	195, 337
PsuI	RGATCY	2 cut(s)	4, 60
RsaI	GTAC	1 cut(s)	32
RsaNI	GTAC	1 cut(s)	31
RseI	CAYNNNNRTG	1 cut(s)	264
SaqAI	TTAA	1 cut(s)	355
SatI	GCNGC	5 cut(s)	14, 52, 94, 333, 336
Sau3AI	GATC	2 cut(s)	4, 60
ScrFI	CCNGG	1 cut(s)	328
SetI	ASST	2 cut(s)	268, 314
SfaNI	GCATC	2 cut(s)	120, 268
SfcI	CTRYAG	2 cut(s)	191, 333
SmiMI	CAYNNNNRTG	1 cut(s)	264
Sse9I	AATT	1 cut(s)	272
SsiI	CCGC	4 cut(s)	51, 94, 102, 109
StyD4I	CCNGG	1 cut(s)	326
TaaI	ACNGT	1 cut(s)	291
TaiI	ACGT	1 cut(s)	314
TaqI	TCGA	3 cut(s)	262, 299, 306
TasI	AATT	1 cut(s)	272
TatI	WGTACW	1 cut(s)	30
TauI	GCSGC	2 cut(s)	54, 96
TfiI	GAWTC	1 cut(s)	85
Tru1I	TTAA	1 cut(s)	355
Tru9I	TTAA	1 cut(s)	355
TscAI	CASTG	2 cut(s)	33, 95
TseI	GCWGC	3 cut(s)	13, 332, 335
TspRI	CASTG	2 cut(s)	33, 95
XapI	RAATTY	1 cut(s)	272

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