Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0005055

Physical Location & Seq

Genomic Coordinates Forward (+)

5854356 .. 5856106

Gene Structure 1751 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG074800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 462 bp

ATGATAATGGAGCCCCTGCGAGCTGAGTTTGGTGGGCCCGAGATAGAGCCCCACATTACCGCCGTAGGATCTGTCCTTTTGACGCATGACTACGCGGTCAAACAATTTATAAATGGTTGTGAAAATATAGAACCCTACGCTTGTGAAGTTGATCAGGTGGTTACTCGCAAATTCTATTACCAACCTGTCTCTCTCCTTTTTTATCCATGTCCATGGGTTGGACACTTTGGTGGTTATCTACATCGCTGTAATTCTCATATGCCGCACTTGAGCCTCCTTTATGGGAATTTGACAGAGGAAGAGAGGAAGAGAGCTCTAGAAAAGGTTACTGAGCTGGACGACAACATTGCTAGCCTCAAGTTCACCATAAGTCACCTTATTTTGTACAAAACCCACAATGAAGCTAGAGATCAACATTCTTGGGAGAAGGTTATGGAATACAACCTCCGACAGCGCAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

153

Amino Acids

17.88

Weight (kDa)

5.96

Isoelectric Point (pI)

57.81

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

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0005055)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18930
fragaria_vesca	FvH4_3g06750 FvH4_3g06750 FvH4_3g06750 FvH4_6g06860 FvH4_6g06860
malus_domestica	MD10G1271200.v1.1 MD10G1271300.v1.1
prunus_persica	Prupe.4G070300_v2.0.a1 Prupe.6G318900_v2.0.a1
pyrus_communis	pycom10g22700
rosa_chinensis	RchiOBHm_Chr3g0456341 RchiOBHm_Chr5g0012411
rosa_laevigata	RLG00000025311 RLG00000031911
rosa_multiflora	Rmu_co8444057.1_g000001 Rmu_sc0002607.1_g000022 Rmu_sc0018054.1_g000004
rosa_roxburghii	Rroxscaffold_1G00064260 Rroxscaffold_6G00422810
rosa_rugosa	Rorug05G0000900
rosa_samantha	Rh3AG072700 Rh3BG074800 Rh3CG074400 Rh5AG095400 Rh5AG499800 Rh5BG091600 Rh5DG091000
rosa_wichuraiana	Rw3G006240 Rw5G008340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	110
AasI	GACNNNNNNGTC	1 cut(s)	95
AccB7I	CCANNNNNTGG	1 cut(s)	218
AccII	CGCG	1 cut(s)	95
AciI	CCGC	3 cut(s)	60, 95, 263
AclWI	GGATC	1 cut(s)	76
AcsI	RAATTY	2 cut(s)	170, 286
AfaI	GTAC	1 cut(s)	386
AfiI	CCNNNNNNNGG	1 cut(s)	218
AleI	CACNNNNGTG	1 cut(s)	228
AluBI	AGCT	4 cut(s)	23, 314, 334, 404
AluI	AGCT	4 cut(s)	23, 314, 334, 404
Alw21I	GWGCWC	1 cut(s)	316
Alw26I	GTCTC	1 cut(s)	193
AlwI	GGATC	1 cut(s)	76
Ama87I	CYCGRG	1 cut(s)	38
AoxI	GGCC	1 cut(s)	35
ApaI	GGGCCC	1 cut(s)	39
ApoI	RAATTY	2 cut(s)	170, 286
AspLEI	GCGC	1 cut(s)	456
AspS9I	GGNCC	2 cut(s)	35, 36
AsuHPI	GGTGA	2 cut(s)	355, 365
AsuNHI	GCTAGC	1 cut(s)	350
AvaI	CYCGRG	1 cut(s)	38
BaeGI	GKGCMC	1 cut(s)	39
BanII	GRGCYC	4 cut(s)	15, 39, 51, 316
Bbv12I	GWGCWC	1 cut(s)	316
BceAI	ACGGC	1 cut(s)	47
BcgI	CGANNNNNNTGC	2 cut(s)	329, 363
BclI	TGATCA	1 cut(s)	151
BcoDI	GTCTC	1 cut(s)	193
BfaI	CTAG	3 cut(s)	317, 351, 405
BisI	GCNGC	1 cut(s)	263
BlsI	GCNGC	1 cut(s)	264
BmeT110I	CYCGRG	1 cut(s)	38
BmgT120I	GGNCC	2 cut(s)	35, 36
BmiI	GGNNCC	2 cut(s)	12, 37
BmtI	GCTAGC	1 cut(s)	354
BpuEI	CTTGAG	2 cut(s)	289, 341
BsaJI	CCNNGG	1 cut(s)	212
Bsc4I	CCNNNNNNNGG	1 cut(s)	218
Bse3DI	GCAATG	1 cut(s)	345
BseDI	CCNNGG	1 cut(s)	212
BseLI	CCNNNNNNNGG	1 cut(s)	218
BseMI	GCAATG	1 cut(s)	345
BseMII	CTCAG	2 cut(s)	15, 321
BseSI	GKGCMC	1 cut(s)	39
Bsh1236I	CGCG	1 cut(s)	95
BshFI	GGCC	1 cut(s)	37
BsiHKAI	GWGCWC	1 cut(s)	316
BsiHKCI	CYCGRG	1 cut(s)	38
BslI	CCNNNNNNNGG	1 cut(s)	218
BsmAI	GTCTC	1 cut(s)	193
BsnI	GGCC	1 cut(s)	37
BsoBI	CYCGRG	1 cut(s)	38
Bsp120I	GGGCCC	1 cut(s)	35
Bsp1286I	GDGCHC	4 cut(s)	15, 39, 51, 316
Bsp1407I	TGTACA	1 cut(s)	384
Bsp143I	GATC	3 cut(s)	68, 151, 409
Bsp19I	CCATGG	1 cut(s)	212
BspACI	CCGC	3 cut(s)	60, 95, 263
BspANI	GGCC	1 cut(s)	37
BspCNI	CTCAG	2 cut(s)	16, 322
BspFNI	CGCG	1 cut(s)	95
BspLI	GGNNCC	2 cut(s)	12, 37
BspOI	GCTAGC	1 cut(s)	354
BspPI	GGATC	1 cut(s)	76
BsrDI	GCAATG	1 cut(s)	345
BsrGI	TGTACA	1 cut(s)	384
BssECI	CCNNGG	1 cut(s)	212
BssMI	GATC	3 cut(s)	68, 151, 409
BssT1I	CCWWGG	1 cut(s)	212
Bst6I	CTCTTC	2 cut(s)	294, 302
BstAUI	TGTACA	1 cut(s)	384
BstC8I	GCNNGC	2 cut(s)	21, 352
BstDEI	CTNAG	2 cut(s)	24, 330
BstDSI	CCRYGG	1 cut(s)	212
BstFNI	CGCG	1 cut(s)	95
BstHHI	GCGC	1 cut(s)	456
BstKTI	GATC	3 cut(s)	71, 154, 412
BstMAI	GTCTC	1 cut(s)	193
BstMBI	GATC	3 cut(s)	68, 151, 409
BstSLI	GKGCMC	1 cut(s)	39
BstUI	CGCG	1 cut(s)	95
BstX2I	RGATCY	1 cut(s)	68
BstXI	CCANNNNNNTGG	1 cut(s)	213
BstYI	RGATCY	1 cut(s)	68
BsuRI	GGCC	1 cut(s)	37
BtgI	CCRYGG	1 cut(s)	212
BtgZI	GCGATG	1 cut(s)	227
Cac8I	GCNNGC	2 cut(s)	21, 352
CfoI	GCGC	1 cut(s)	456
Cfr13I	GGNCC	2 cut(s)	35, 36
CseI	GACGC	1 cut(s)	91
Csp6I	GTAC	1 cut(s)	385
CviAII	CATG	3 cut(s)	86, 207, 213
CviJI	RGCY	9 cut(s)	13, 23, 37, 49, 273, 314, 334, 354, 404
CviKI_1	RGCY	9 cut(s)	13, 23, 37, 49, 273, 314, 334, 354, 404
CviQI	GTAC	1 cut(s)	385
DdeI	CTNAG	2 cut(s)	24, 330
DpnI	GATC	3 cut(s)	70, 153, 411
DpnII	GATC	3 cut(s)	68, 151, 409
DrdI	GACNNNNNNGTC	1 cut(s)	95
DseDI	GACNNNNNNGTC	1 cut(s)	95
Eam1104I	CTCTTC	2 cut(s)	294, 302
EarI	CTCTTC	2 cut(s)	294, 302
Ecl136II	GAGCTC	1 cut(s)	314
Eco130I	CCWWGG	1 cut(s)	212
Eco24I	GRGCYC	4 cut(s)	15, 39, 51, 316
Eco53kI	GAGCTC	1 cut(s)	314
Eco88I	CYCGRG	1 cut(s)	38
EcoICRI	GAGCTC	1 cut(s)	314
EcoT14I	CCWWGG	1 cut(s)	212
EcoT38I	GRGCYC	4 cut(s)	15, 39, 51, 316
ErhI	CCWWGG	1 cut(s)	212
FaeI	CATG	3 cut(s)	89, 210, 216
FatI	CATG	3 cut(s)	85, 206, 212
FauNDI	CATATG	1 cut(s)	258
FbaI	TGATCA	1 cut(s)	151
Fnu4HI	GCNGC	1 cut(s)	263
FriOI	GRGCYC	4 cut(s)	15, 39, 51, 316
Fsp4HI	GCNGC	1 cut(s)	263
FspBI	CTAG	3 cut(s)	317, 351, 405
GlaI	GCGC	1 cut(s)	455
GluI	GCNGC	1 cut(s)	263
HaeIII	GGCC	1 cut(s)	37
HgaI	GACGC	1 cut(s)	91
HhaI	GCGC	1 cut(s)	456
Hin1II	CATG	3 cut(s)	89, 210, 216
Hin6I	GCGC	1 cut(s)	454
HinP1I	GCGC	1 cut(s)	454
HphI	GGTGA	2 cut(s)	355, 365
Hpy166II	GTNNAC	1 cut(s)	363
Hpy188I	TCNGA	1 cut(s)	449
Hpy188III	TCNNGA	1 cut(s)	317
Hpy8I	GTNNAC	1 cut(s)	363
HpyAV	CCTTC	1 cut(s)	421
HpyF3I	CTNAG	2 cut(s)	24, 330
Hsp92II	CATG	3 cut(s)	89, 210, 216
HspAI	GCGC	1 cut(s)	454
Ksp22I	TGATCA	1 cut(s)	151
Kzo9I	GATC	3 cut(s)	68, 151, 409
LmnI	GCTCC	1 cut(s)	10
LpnPI	CCDG	4 cut(s)	29, 140, 198, 320
MaeI	CTAG	3 cut(s)	317, 351, 405
MaeIII	GTNAC	3 cut(s)	160, 325, 371
MalI	GATC	3 cut(s)	70, 153, 411
MboI	GATC	3 cut(s)	68, 151, 409
MboII	GAAGA	2 cut(s)	311, 319
MflI	RGATCY	1 cut(s)	68
MhlI	GDGCHC	4 cut(s)	15, 39, 51, 316
MluCI	AATT	5 cut(s)	104, 170, 250, 286, 457
MmeI	TCCRAC	1 cut(s)	199
MnlI	CCTC	5 cut(s)	284, 289, 297, 365, 455
MslI	CAYNNNNRTG	2 cut(s)	211, 228
MvnI	CGCG	1 cut(s)	95
NcoI	CCATGG	1 cut(s)	212
NdeI	CATATG	1 cut(s)	258
NdeII	GATC	3 cut(s)	68, 151, 409
NheI	GCTAGC	1 cut(s)	350
NlaIII	CATG	3 cut(s)	89, 210, 216
NlaIV	GGNNCC	2 cut(s)	12, 37
NmuCI	GTSAC	1 cut(s)	371
OliI	CACNNNNGTG	1 cut(s)	228
PflMI	CCANNNNNTGG	1 cut(s)	218
PkrI	GCNGC	1 cut(s)	264
PsiI	TTATAA	1 cut(s)	110
Psp124BI	GAGCTC	1 cut(s)	316
PspN4I	GGNNCC	2 cut(s)	12, 37
PspOMI	GGGCCC	1 cut(s)	35
PspPI	GGNCC	2 cut(s)	35, 36
PsuI	RGATCY	1 cut(s)	68
RsaI	GTAC	1 cut(s)	386
RsaNI	GTAC	1 cut(s)	385
RseI	CAYNNNNRTG	2 cut(s)	211, 228
SacI	GAGCTC	1 cut(s)	316
SatI	GCNGC	1 cut(s)	263
Sau3AI	GATC	3 cut(s)	68, 151, 409
Sau96I	GGNCC	2 cut(s)	35, 36
SduI	GDGCHC	4 cut(s)	15, 39, 51, 316
SmiMI	CAYNNNNRTG	2 cut(s)	211, 228
SmlI	CTYRAG	2 cut(s)	268, 356
SmoI	CTYRAG	2 cut(s)	268, 356
Sse9I	AATT	5 cut(s)	104, 170, 250, 286, 457
SsiI	CCGC	3 cut(s)	60, 95, 263
SspMI	CTAG	3 cut(s)	317, 351, 405
SstI	GAGCTC	1 cut(s)	316
StyI	CCWWGG	1 cut(s)	212
TasI	AATT	5 cut(s)	104, 170, 250, 286, 457
TatI	WGTACW	1 cut(s)	384
TauI	GCSGC	1 cut(s)	265
TseFI	GTSAC	1 cut(s)	371
Tsp45I	GTSAC	1 cut(s)	371
TspDTI	ATGAA	1 cut(s)	414
Van91I	CCANNNNNTGG	1 cut(s)	218
XapI	RAATTY	2 cut(s)	170, 286
XbaI	TCTAGA	1 cut(s)	316
XspI	CTAG	3 cut(s)	317, 351, 405

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