Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0003782

Physical Location & Seq

Genomic Coordinates Reverse (-)

1414071 .. 1417552

Gene Structure 3482 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG021300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGTCGAGGATTTTAAGGTTCATGTGTTCAAATCATCATCTGAGCAGGAGGCATAGCTGCAAGACAACTGAGGATGACTCTTCAAGTGCTTCAACTTCAAGAGAAGCAGCCACTTACAAACAGAAGTTAGATGGTCACTATATACTACAAAAATCAACTCAACATGCTTCTGTACAAAGAGCACCAAATGACAATTCCAACCATCAAGGAGATTCGTTGTCAAGAAATAATGGTTTCGGTGTGAATACCAAGCCCTCACATGATCAATTTGTGGATAATGGGGCCTCGACTCCCTTGTGTGGAAATGTTATGGCTGGAAATATGAGCCTTAGATGTGTAAACTCTGAAAAGTTAAATGATGTATGGGCACAGTGTATTGAGAAGTGTCATTCAAAGACATTGAGGCAGCTACTACATTCTCATGGAAAGCTAGTGTCTATATCTGAAGCTGAAGGTAAGCTCTTAAGCTCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000902 GO:0000904 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0005886 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009888 GO:0009987 GO:0010026 GO:0010090 GO:0010091 GO:0016020 GO:0016043 GO:0030154 GO:0032502 GO:0032989 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0046483 GO:0048468 GO:0048856 GO:0048869 GO:0050896 GO:0051716 GO:0071704 GO:0071840 GO:0071944 GO:0090304 GO:0090558 GO:0090626 GO:1901360 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNA_pol3_delta2 DNA_pol3_gamma3

Protein Analysis

157

Amino Acids

17.34

Weight (kDa)

8.99

Isoelectric Point (pI)

48.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DnaA_N-like_STI	PF23007	111 - 153	1.8e-14	STICHEL, DnaA_N-like alpha-beta domain

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: OG0003782)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G14460 AT2G02480 AT2G02480
fragaria_vesca	FvH4_5g27450 FvH4_5g27450
malus_domestica	MD08G1249500.v1.1
prunus_persica	Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1
pyrus_communis	pycom08g21590
rosa_chinensis	RchiOBHm_Chr2g0146641 RchiOBHm_Chr7g0218871
rosa_laevigata	RLG00000001635 RLG00000002346 RLG00000002355
rosa_multiflora	Rmu_sc0003823.1_g000001 Rmu_sc0006998.1_g000001
rosa_roxburghii	Rroxscaffold_3G00240440
rosa_rugosa	Rorug07G0179300
rosa_samantha	Rh3AG021300 Rh3CG020600 Rh5BG537900 Rh5CG561800 Rh7AG322600 Rh7BG313700 Rh7CG339400 Rh7DG319800 Rh7DG389400
rosa_wichuraiana	Rw5G027500 Rw7G026930 Rw7G027310 Rw7G028430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcuI	CTGAAG	2 cut(s)	465, 471
AfaI	GTAC	1 cut(s)	174
AfiI	CCNNNNNNNGG	1 cut(s)	299
AflII	CTTAAG	1 cut(s)	463
AgsI	TTSAA	5 cut(s)	30, 84, 93, 99, 393
AjuI	GAANNNNNNNTTGG	2 cut(s)	178, 210
AluBI	AGCT	6 cut(s)	57, 409, 430, 449, 460, 468
AluI	AGCT	6 cut(s)	57, 409, 430, 449, 460, 468
Alw21I	GWGCWC	1 cut(s)	184
AoxI	GGCC	1 cut(s)	282
ApeKI	GCWGC	3 cut(s)	57, 107, 406
AspS9I	GGNCC	1 cut(s)	282
BaeGI	GKGCMC	1 cut(s)	370
Bbv12I	GWGCWC	1 cut(s)	184
BbvI	GCAGC	3 cut(s)	44, 119, 418
BccI	CCATC	2 cut(s)	125, 210
BclI	TGATCA	1 cut(s)	262
BfaI	CTAG	1 cut(s)	431
BfrI	CTTAAG	1 cut(s)	463
BisI	GCNGC	3 cut(s)	58, 108, 407
BlsI	GCNGC	3 cut(s)	59, 109, 408
BmgT120I	GGNCC	1 cut(s)	282
BmiI	GGNNCC	1 cut(s)	283
BplI	GAGNNNNNCTC	2 cut(s)	62, 94
Bsc4I	CCNNNNNNNGG	1 cut(s)	299
BseGI	GGATG	1 cut(s)	79
BseLI	CCNNNNNNNGG	1 cut(s)	299
BseMII	CTCAG	2 cut(s)	32, 60
BseSI	GKGCMC	1 cut(s)	370
BseXI	GCAGC	3 cut(s)	44, 119, 418
BshFI	GGCC	1 cut(s)	284
BsiHKAI	GWGCWC	1 cut(s)	184
BslI	CCNNNNNNNGG	1 cut(s)	299
BsnI	GGCC	1 cut(s)	284
Bsp1286I	GDGCHC	2 cut(s)	184, 370
Bsp1407I	TGTACA	1 cut(s)	172
Bsp143I	GATC	1 cut(s)	262
BspANI	GGCC	1 cut(s)	284
BspCNI	CTCAG	2 cut(s)	33, 61
BspLI	GGNNCC	1 cut(s)	283
BspTI	CTTAAG	1 cut(s)	463
BsrGI	TGTACA	1 cut(s)	172
BssMI	GATC	1 cut(s)	262
Bst4CI	ACNGT	1 cut(s)	372
Bst6I	CTCTTC	1 cut(s)	85
BstAFI	CTTAAG	1 cut(s)	463
BstAUI	TGTACA	1 cut(s)	172
BstDEI	CTNAG	3 cut(s)	41, 69, 329
BstF5I	GGATG	1 cut(s)	79
BstKTI	GATC	1 cut(s)	265
BstMBI	GATC	1 cut(s)	262
BstNSI	RCATGY	1 cut(s)	167
BstSLI	GKGCMC	1 cut(s)	370
BstV1I	GCAGC	3 cut(s)	44, 119, 418
BsuRI	GGCC	1 cut(s)	284
BtsCI	GGATG	1 cut(s)	79
BtsIMutI	CAGTG	1 cut(s)	377
Cfr13I	GGNCC	1 cut(s)	282
Csp6I	GTAC	1 cut(s)	173
CviAII	CATG	4 cut(s)	22, 164, 260, 422
CviQI	GTAC	1 cut(s)	173
DdeI	CTNAG	3 cut(s)	41, 69, 329
DpnI	GATC	1 cut(s)	264
DpnII	GATC	1 cut(s)	262
Eam1104I	CTCTTC	1 cut(s)	85
EarI	CTCTTC	1 cut(s)	85
Eco57I	CTGAAG	2 cut(s)	465, 471
EcoO109I	RGGNCCY	1 cut(s)	282
FaeI	CATG	4 cut(s)	25, 167, 263, 425
FatI	CATG	4 cut(s)	21, 163, 259, 421
FbaI	TGATCA	1 cut(s)	262
Fnu4HI	GCNGC	3 cut(s)	58, 108, 407
FokI	GGATG	1 cut(s)	86
Fsp4HI	GCNGC	3 cut(s)	58, 108, 407
FspBI	CTAG	1 cut(s)	431
GluI	GCNGC	3 cut(s)	58, 108, 407
HaeIII	GGCC	1 cut(s)	284
Hin1II	CATG	4 cut(s)	25, 167, 263, 425
HinfI	GANTC	3 cut(s)	77, 212, 289
Hpy166II	GTNNAC	1 cut(s)	340
Hpy188I	TCNGA	3 cut(s)	42, 346, 445
Hpy188III	TCNNGA	2 cut(s)	99, 222
Hpy8I	GTNNAC	1 cut(s)	340
HpyAV	CCTTC	1 cut(s)	446
HpyCH4III	ACNGT	1 cut(s)	372
HpyCH4V	TGCA	1 cut(s)	60
HpyF3I	CTNAG	3 cut(s)	41, 69, 329
Hsp92II	CATG	4 cut(s)	25, 167, 263, 425
Ksp22I	TGATCA	1 cut(s)	262
Kzo9I	GATC	1 cut(s)	262
LmnI	GCTCC	1 cut(s)	473
LpnPI	CCDG	2 cut(s)	31, 300
Lsp1109I	GCAGC	3 cut(s)	44, 119, 418
MaeI	CTAG	1 cut(s)	431
MaeIII	GTNAC	1 cut(s)	134
MalI	GATC	1 cut(s)	264
MboI	GATC	1 cut(s)	262
MboII	GAAGA	1 cut(s)	72
MhlI	GDGCHC	2 cut(s)	184, 370
MluCI	AATT	2 cut(s)	193, 266
MlyI	GAGTC	2 cut(s)	71, 283
MmeI	TCCRAC	1 cut(s)	222
MnlI	CCTC	5 cut(s)	42, 64, 265, 295, 396
MseI	TTAA	3 cut(s)	14, 353, 464
MslI	CAYNNNNRTG	1 cut(s)	420
MspCI	CTTAAG	1 cut(s)	463
NdeII	GATC	1 cut(s)	262
NlaIII	CATG	4 cut(s)	25, 167, 263, 425
NlaIV	GGNNCC	1 cut(s)	283
NmuCI	GTSAC	1 cut(s)	134
NspI	RCATGY	1 cut(s)	167
PfeI	GAWTC	1 cut(s)	212
PkrI	GCNGC	3 cut(s)	59, 109, 408
PleI	GAGTC	2 cut(s)	71, 283
PpsI	GAGTC	2 cut(s)	71, 283
PspN4I	GGNNCC	1 cut(s)	283
PspPI	GGNCC	1 cut(s)	282
RsaI	GTAC	1 cut(s)	174
RsaNI	GTAC	1 cut(s)	173
RseI	CAYNNNNRTG	1 cut(s)	420
SaqAI	TTAA	3 cut(s)	14, 353, 464
SatI	GCNGC	3 cut(s)	58, 108, 407
Sau3AI	GATC	1 cut(s)	262
Sau96I	GGNCC	1 cut(s)	282
SchI	GAGTC	2 cut(s)	71, 283
SduI	GDGCHC	2 cut(s)	184, 370
SetI	ASST	8 cut(s)	20, 59, 411, 432, 451, 457, 462, 470
SmiMI	CAYNNNNRTG	1 cut(s)	420
SmlI	CTYRAG	1 cut(s)	463
SmoI	CTYRAG	1 cut(s)	463
Sse9I	AATT	2 cut(s)	193, 266
SspMI	CTAG	1 cut(s)	431
TaaI	ACNGT	1 cut(s)	372
TaqI	TCGA	2 cut(s)	5, 287
TasI	AATT	2 cut(s)	193, 266
TatI	WGTACW	1 cut(s)	172
TfiI	GAWTC	1 cut(s)	212
Tru1I	TTAA	3 cut(s)	14, 353, 464
Tru9I	TTAA	3 cut(s)	14, 353, 464
TscAI	CASTG	1 cut(s)	377
TseFI	GTSAC	1 cut(s)	134
TseI	GCWGC	3 cut(s)	57, 107, 406
Tsp45I	GTSAC	1 cut(s)	134
TspDTI	ATGAA	1 cut(s)	10
TspRI	CASTG	1 cut(s)	377
Vha464I	CTTAAG	1 cut(s)	463
XceI	RCATGY	1 cut(s)	167
XspI	CTAG	1 cut(s)	431

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