Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0004622

Physical Location & Seq

Genomic Coordinates Reverse (-)

4246557 .. 4247096

Gene Structure 540 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG057700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGGATCAACCATATTCAAAATCATTTTTCTTTTTAATAATTAAGGGTGACTGTGTGGTTTCAATGAATGAGTCTCGTTCTCCTGGTCAGTTAATAATTCCTTGTCAGCCAGCTATTGGGGATCCTATTTCCGTACCAACCCAAGATATGCTTATTGGGCTCTATGTATTAACGAGCGGGAATCGCCGAGGTATTTGTGCAAATAGGTATAATCCATATAATCGCACAAATTCGAAAAATGAAAGAATTGCCGATAATAATTATAAATATACGAAAGAACCTTTTTTTTGTAATTCCTATGATGCAATTGGAGCTTATCGGCAGAAAAGAGTCAATTTAGATAGCCCCTTGTGGCTCCGGTGGCGGCTAGATCAACATGTTATTACTTCAAGAGAAACTCTCATTGAAGTTCACTATGAGTCTTTGAGTACCTCTCATGAGATTTATGGGCACTATGTAATAGTAAGAAGTATAAAAAAAGTTCTTTGTATATATGTTCGAACCACAGTTGGTCATATTTCTCTTTATCGAGAAATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009295 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3

Protein Analysis

179

Amino Acids

20.78

Weight (kDa)

9.08

Isoelectric Point (pI)

46.61

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004622)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00170
malus_domestica	MD01G1014400.v1.1
pyrus_communis	pycom12397g00020 pycom12397g00340
rosa_chinensis	RchiOBHm_Chr4g0421201
rosa_laevigata	RLG00000000048 RLG00000000088 RLG00000000117 RLG00000000174 RLG00000000232 RLG00000000233 RLG00000000247 RLG00000000283 RLG00000000313 RLG00000000317 RLG00000000339
rosa_multiflora	Rmu_sc0001741.1_g000011
rosa_roxburghii	Rroxscaffold_2G00119090 Rroxscaffold_2G00119100
rosa_rugosa	RorugMtG0001800
rosa_samantha	Rh2AG294100 Rh2AG294200 Rh2DG057700 Rh2DG318000 Rh2DG318100 Rh4CG233400 Rh4CG244200 Rh7BG354800 Rh7CG382200
rosa_wichuraiana	Rw4G006960 Rw4G006970

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	264
AccB7I	CCANNNNNTGG	1 cut(s)	116
AccBSI	CCGCTC	1 cut(s)	177
AciI	CCGC	2 cut(s)	177, 364
AclWI	GGATC	3 cut(s)	12, 116, 129
AcsI	RAATTY	1 cut(s)	229
AfaI	GTAC	2 cut(s)	135, 430
AfiI	CCNNNNNNNGG	1 cut(s)	116
AflIII	ACRYGT	1 cut(s)	376
AgsI	TTSAA	4 cut(s)	18, 63, 390, 407
AjnI	CCWGG	1 cut(s)	82
AluBI	AGCT	2 cut(s)	113, 314
AluI	AGCT	2 cut(s)	113, 314
Alw26I	GTCTC	1 cut(s)	78
AlwI	GGATC	3 cut(s)	12, 116, 129
ApoI	RAATTY	1 cut(s)	229
AsuHPI	GGTGA	1 cut(s)	59
AsuII	TTCGAA	2 cut(s)	233, 499
BaeGI	GKGCMC	1 cut(s)	453
BamHI	GGATCC	1 cut(s)	121
BanII	GRGCYC	1 cut(s)	162
BciT130I	CCWGG	1 cut(s)	84
BcoDI	GTCTC	1 cut(s)	78
BfaI	CTAG	1 cut(s)	368
BisI	GCNGC	1 cut(s)	365
BlsI	GCNGC	1 cut(s)	366
Bme1390I	CCNGG	1 cut(s)	84
BmiI	GGNNCC	2 cut(s)	123, 356
BmrFI	CCNGG	1 cut(s)	84
BmsI	GCATC	1 cut(s)	292
BplI	GAGNNNNNCTC	4 cut(s)	384, 416, 418, 450
Bpu14I	TTCGAA	2 cut(s)	233, 499
BsaJI	CCNNGG	1 cut(s)	187
BsaWI	WCCGGW	1 cut(s)	357
Bsc4I	CCNNNNNNNGG	1 cut(s)	116
BseBI	CCWGG	1 cut(s)	84
BseDI	CCNNGG	1 cut(s)	187
BseLI	CCNNNNNNNGG	1 cut(s)	116
BseSI	GKGCMC	1 cut(s)	453
BsiSI	CCGG	1 cut(s)	358
BslI	CCNNNNNNNGG	1 cut(s)	116
BsmAI	GTCTC	1 cut(s)	78
Bsp119I	TTCGAA	2 cut(s)	233, 499
Bsp1286I	GDGCHC	2 cut(s)	162, 453
Bsp143I	GATC	3 cut(s)	4, 121, 370
BspACI	CCGC	2 cut(s)	177, 364
BspHI	TCATGA	1 cut(s)	436
BspLI	GGNNCC	2 cut(s)	123, 356
BspPI	GGATC	3 cut(s)	12, 116, 129
BspT104I	TTCGAA	2 cut(s)	233, 499
BsrBI	CCGCTC	1 cut(s)	177
BssECI	CCNNGG	1 cut(s)	187
BssMI	GATC	3 cut(s)	4, 121, 370
Bst2UI	CCWGG	1 cut(s)	84
Bst4CI	ACNGT	2 cut(s)	53, 508
BstBI	TTCGAA	2 cut(s)	233, 499
BstC8I	GCNNGC	1 cut(s)	111
BstKTI	GATC	3 cut(s)	7, 124, 373
BstMAI	GTCTC	1 cut(s)	78
BstMBI	GATC	3 cut(s)	4, 121, 370
BstMWI	GCNNNNNNNGC	4 cut(s)	157, 183, 311, 361
BstNI	CCWGG	1 cut(s)	84
BstNSI	RCATGY	1 cut(s)	380
BstSCI	CCNGG	1 cut(s)	82
BstSLI	GKGCMC	1 cut(s)	453
BstX2I	RGATCY	1 cut(s)	121
BstYI	RGATCY	1 cut(s)	121
Cac8I	GCNNGC	1 cut(s)	111
CciI	TCATGA	1 cut(s)	436
Csp6I	GTAC	2 cut(s)	134, 429
CviAII	CATG	2 cut(s)	377, 437
CviJI	RGCY	7 cut(s)	109, 113, 160, 314, 345, 355, 367
CviKI_1	RGCY	7 cut(s)	109, 113, 160, 314, 345, 355, 367
CviQI	GTAC	2 cut(s)	134, 429
DpnI	GATC	3 cut(s)	6, 123, 372
DpnII	GATC	3 cut(s)	4, 121, 370
Eco24I	GRGCYC	1 cut(s)	162
EcoRII	CCWGG	1 cut(s)	82
EcoT38I	GRGCYC	1 cut(s)	162
FaeI	CATG	2 cut(s)	380, 440
FalI	AAGNNNNNCTT	2 cut(s)	135, 167
FatI	CATG	2 cut(s)	376, 436
FauI	CCCGC	1 cut(s)	170
Fnu4HI	GCNGC	1 cut(s)	365
FriOI	GRGCYC	1 cut(s)	162
Fsp4HI	GCNGC	1 cut(s)	365
FspBI	CTAG	1 cut(s)	368
GluI	GCNGC	1 cut(s)	365
HapII	CCGG	1 cut(s)	358
Hin1II	CATG	2 cut(s)	380, 440
HinfI	GANTC	4 cut(s)	71, 181, 330, 419
HpaII	CCGG	1 cut(s)	358
HphI	GGTGA	1 cut(s)	59
Hpy166II	GTNNAC	1 cut(s)	412
Hpy188I	TCNGA	1 cut(s)	539
Hpy188III	TCNNGA	3 cut(s)	390, 437, 530
Hpy8I	GTNNAC	1 cut(s)	412
HpyCH4III	ACNGT	2 cut(s)	53, 508
HpyCH4V	TGCA	2 cut(s)	200, 305
HpyF10VI	GCNNNNNNNGC	4 cut(s)	157, 183, 311, 361
Hsp92II	CATG	2 cut(s)	380, 440
Kzo9I	GATC	3 cut(s)	4, 121, 370
LmnI	GCTCC	2 cut(s)	311, 360
LpnPI	CCDG	4 cut(s)	69, 96, 123, 371
LweI	GCATC	1 cut(s)	292
MaeI	CTAG	1 cut(s)	368
MaeIII	GTNAC	1 cut(s)	47
MalI	GATC	3 cut(s)	6, 123, 372
MbiI	CCGCTC	1 cut(s)	177
MboI	GATC	3 cut(s)	4, 121, 370
MfeI	CAATTG	1 cut(s)	306
MflI	RGATCY	1 cut(s)	121
MhlI	GDGCHC	2 cut(s)	162, 453
MluCI	AATT	8 cut(s)	39, 96, 229, 246, 259, 292, 306, 334
MlyI	GAGTC	3 cut(s)	80, 339, 428
MnlI	CCTC	2 cut(s)	182, 442
MseI	TTAA	4 cut(s)	35, 42, 92, 170
MspI	CCGG	1 cut(s)	358
MspR9I	CCNGG	1 cut(s)	84
MunI	CAATTG	1 cut(s)	306
MvaI	CCWGG	1 cut(s)	84
MwoI	GCNNNNNNNGC	4 cut(s)	157, 183, 311, 361
NdeII	GATC	3 cut(s)	4, 121, 370
NlaIII	CATG	2 cut(s)	380, 440
NlaIV	GGNNCC	2 cut(s)	123, 356
NmeAIII	GCCGAG	1 cut(s)	212
NmuCI	GTSAC	1 cut(s)	47
NspI	RCATGY	1 cut(s)	380
NspV	TTCGAA	2 cut(s)	233, 499
PagI	TCATGA	1 cut(s)	436
PciI	ACATGT	1 cut(s)	376
PfeI	GAWTC	1 cut(s)	181
PflMI	CCANNNNNTGG	1 cut(s)	116
PkrI	GCNGC	1 cut(s)	366
PleI	GAGTC	3 cut(s)	79, 338, 427
PpsI	GAGTC	3 cut(s)	79, 338, 427
PscI	ACATGT	1 cut(s)	376
PsiI	TTATAA	1 cut(s)	264
Psp6I	CCWGG	1 cut(s)	82
PspGI	CCWGG	1 cut(s)	82
PspN4I	GGNNCC	2 cut(s)	123, 356
PsuI	RGATCY	1 cut(s)	121
RsaI	GTAC	2 cut(s)	135, 430
RsaNI	GTAC	2 cut(s)	134, 429
SaqAI	TTAA	4 cut(s)	35, 42, 92, 170
SatI	GCNGC	1 cut(s)	365
Sau3AI	GATC	3 cut(s)	4, 121, 370
SchI	GAGTC	3 cut(s)	80, 339, 428
ScrFI	CCNGG	1 cut(s)	84
SduI	GDGCHC	2 cut(s)	162, 453
SetI	ASST	6 cut(s)	115, 193, 209, 283, 316, 434
SfaNI	GCATC	1 cut(s)	292
SfuI	TTCGAA	2 cut(s)	233, 499
Sse9I	AATT	8 cut(s)	39, 96, 229, 246, 259, 292, 306, 334
SsiI	CCGC	2 cut(s)	177, 364
SspMI	CTAG	1 cut(s)	368
StyD4I	CCNGG	1 cut(s)	82
TaaI	ACNGT	2 cut(s)	53, 508
TaqI	TCGA	3 cut(s)	233, 499, 529
TasI	AATT	8 cut(s)	39, 96, 229, 246, 259, 292, 306, 334
TauI	GCSGC	1 cut(s)	367
TfiI	GAWTC	1 cut(s)	181
Tru1I	TTAA	4 cut(s)	35, 42, 92, 170
Tru9I	TTAA	4 cut(s)	35, 42, 92, 170
TseFI	GTSAC	1 cut(s)	47
Tsp45I	GTSAC	1 cut(s)	47
TspDTI	ATGAA	2 cut(s)	80, 255
TspGWI	ACGGA	1 cut(s)	121
Van91I	CCANNNNNTGG	1 cut(s)	116
XapI	RAATTY	1 cut(s)	229
XceI	RCATGY	1 cut(s)	380
XspI	CTAG	1 cut(s)	368

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