Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0005055

Physical Location & Seq

Genomic Coordinates Forward (+)

5929250 .. 5930688

Gene Structure 1439 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G006240.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 570 bp

ATGCGGATTCCCGCCGACGAAGTTAATCGCACAATCCAAAATGCACAAAGAAAACACACGTATACGGTGTGGGGCATTCCACCAGATCACATCGTACAAAGGATCAAGAAGATAACGGAGCCCCTCCGAGCTGAGTTTGGTGGGCCCGAGATAGAGCCCCACATTACCGCCGTAGGATCTGTCCTTTTGACGCATGACTACGCGGTCAAACAATTTATAAATGGTTGTGAAAATATAGAACCCTACACTAGTGAAGTTGATCAGGTGGTTACTCGCAAATTCTATTACCAACCTGTCTCTCTCCTCTTTCATCCATGTCCATGGGTTGGACACTTTGGTGGTTATCTACATCGCTGTAATTCTCATATGCCGCACTTGAGCCTCCTTTATGGGAATTTGACAGAGGAAGAGAGGAAGAGAGCTCTAGAAAAGGTTACTGAGCTAGACGACAGCATTGCTAGCCTCAAGTTCACCATAAGTCACCTTGTTTTGTACAAAACCCACAATGAAGCTAGAGATCAACATTCTTGGGAGAAGGTTATGGAATACAACCTCCGACAGCGCAATTAG

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

189

Amino Acids

22.06

Weight (kDa)

6.86

Isoelectric Point (pI)

41.48

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)	218
AasI	GACNNNNNNGTC	1 cut(s)	203
AccB7I	CCANNNNNTGG	1 cut(s)	326
AccI	GTMKAC	1 cut(s)	62
AccII	CGCG	1 cut(s)	203
AciI	CCGC	5 cut(s)	4, 12, 168, 203, 371
AclWI	GGATC	2 cut(s)	110, 184
AcsI	RAATTY	2 cut(s)	278, 394
AfaI	GTAC	2 cut(s)	96, 494
AfiI	CCNNNNNNNGG	1 cut(s)	326
AflIII	ACRYGT	1 cut(s)	57
AhlI	ACTAGT	1 cut(s)	248
AleI	CACNNNNGTG	1 cut(s)	336
AluBI	AGCT	4 cut(s)	131, 422, 442, 512
AluI	AGCT	4 cut(s)	131, 422, 442, 512
Alw21I	GWGCWC	1 cut(s)	424
Alw26I	GTCTC	1 cut(s)	301
AlwI	GGATC	2 cut(s)	110, 184
Ama87I	CYCGRG	1 cut(s)	146
AoxI	GGCC	1 cut(s)	143
ApaI	GGGCCC	1 cut(s)	147
ApoI	RAATTY	2 cut(s)	278, 394
AspLEI	GCGC	1 cut(s)	564
AspS9I	GGNCC	2 cut(s)	143, 144
AsuHPI	GGTGA	2 cut(s)	463, 473
AsuNHI	GCTAGC	1 cut(s)	458
AvaI	CYCGRG	1 cut(s)	146
BaeGI	GKGCMC	1 cut(s)	147
BanII	GRGCYC	4 cut(s)	123, 147, 159, 424
Bbv12I	GWGCWC	1 cut(s)	424
BceAI	ACGGC	1 cut(s)	155
BcgI	CGANNNNNNTGC	2 cut(s)	437, 471
BclI	TGATCA	1 cut(s)	259
BcoDI	GTCTC	1 cut(s)	301
BcuI	ACTAGT	1 cut(s)	248
BfaI	CTAG	5 cut(s)	249, 425, 443, 459, 513
BisI	GCNGC	1 cut(s)	371
BlsI	GCNGC	1 cut(s)	372
BmeT110I	CYCGRG	1 cut(s)	146
BmgT120I	GGNCC	2 cut(s)	143, 144
BmiI	GGNNCC	2 cut(s)	120, 145
BmtI	GCTAGC	1 cut(s)	462
BpuEI	CTTGAG	2 cut(s)	397, 449
BsaAI	YACGTR	1 cut(s)	60
BsaJI	CCNNGG	1 cut(s)	320
Bsc4I	CCNNNNNNNGG	1 cut(s)	326
Bse3DI	GCAATG	1 cut(s)	453
BseDI	CCNNGG	1 cut(s)	320
BseGI	GGATG	1 cut(s)	310
BseLI	CCNNNNNNNGG	1 cut(s)	326
BseMI	GCAATG	1 cut(s)	453
BseMII	CTCAG	2 cut(s)	123, 429
BseRI	GAGGAG	1 cut(s)	293
BseSI	GKGCMC	1 cut(s)	147
Bsh1236I	CGCG	1 cut(s)	203
BshFI	GGCC	1 cut(s)	145
BsiHKAI	GWGCWC	1 cut(s)	424
BsiHKCI	CYCGRG	1 cut(s)	146
BslI	CCNNNNNNNGG	1 cut(s)	326
BsmAI	GTCTC	1 cut(s)	301
BsmI	GAATGC	1 cut(s)	75
BsnI	GGCC	1 cut(s)	145
BsoBI	CYCGRG	1 cut(s)	146
Bsp120I	GGGCCC	1 cut(s)	143
Bsp1286I	GDGCHC	4 cut(s)	123, 147, 159, 424
Bsp1407I	TGTACA	1 cut(s)	492
Bsp143I	GATC	5 cut(s)	85, 102, 176, 259, 517
Bsp19I	CCATGG	1 cut(s)	320
BspACI	CCGC	5 cut(s)	4, 12, 168, 203, 371
BspANI	GGCC	1 cut(s)	145
BspCNI	CTCAG	2 cut(s)	124, 430
BspFNI	CGCG	1 cut(s)	203
BspLI	GGNNCC	2 cut(s)	120, 145
BspOI	GCTAGC	1 cut(s)	462
BspPI	GGATC	2 cut(s)	110, 184
BsrDI	GCAATG	1 cut(s)	453
BsrGI	TGTACA	1 cut(s)	492
BssECI	CCNNGG	1 cut(s)	320
BssMI	GATC	5 cut(s)	85, 102, 176, 259, 517
BssNAI	GTATAC	1 cut(s)	63
BssT1I	CCWWGG	1 cut(s)	320
Bst1107I	GTATAC	1 cut(s)	63
Bst4CI	ACNGT	1 cut(s)	67
Bst6I	CTCTTC	2 cut(s)	402, 410
BstAUI	TGTACA	1 cut(s)	492
BstBAI	YACGTR	1 cut(s)	60
BstC8I	GCNNGC	1 cut(s)	460
BstDEI	CTNAG	2 cut(s)	132, 438
BstDSI	CCRYGG	1 cut(s)	320
BstF5I	GGATG	1 cut(s)	310
BstFNI	CGCG	1 cut(s)	203
BstHHI	GCGC	1 cut(s)	564
BstKTI	GATC	5 cut(s)	88, 105, 179, 262, 520
BstMAI	GTCTC	1 cut(s)	301
BstMBI	GATC	5 cut(s)	85, 102, 176, 259, 517
BstMWI	GCNNNNNNNGC	1 cut(s)	459
BstSLI	GKGCMC	1 cut(s)	147
BstUI	CGCG	1 cut(s)	203
BstX2I	RGATCY	1 cut(s)	176
BstXI	CCANNNNNNTGG	1 cut(s)	321
BstYI	RGATCY	1 cut(s)	176
BstZ17I	GTATAC	1 cut(s)	63
BsuRI	GGCC	1 cut(s)	145
BtgI	CCRYGG	1 cut(s)	320
BtgZI	GCGATG	1 cut(s)	335
BtsCI	GGATG	1 cut(s)	310
Cac8I	GCNNGC	1 cut(s)	460
CfoI	GCGC	1 cut(s)	564
Cfr13I	GGNCC	2 cut(s)	143, 144
CseI	GACGC	1 cut(s)	199
Csp6I	GTAC	2 cut(s)	95, 493
CviAII	CATG	3 cut(s)	194, 315, 321
CviJI	RGCY	9 cut(s)	121, 131, 145, 157, 381, 422, 442, 462, 512
CviKI_1	RGCY	9 cut(s)	121, 131, 145, 157, 381, 422, 442, 462, 512
CviQI	GTAC	2 cut(s)	95, 493
DdeI	CTNAG	2 cut(s)	132, 438
DpnI	GATC	5 cut(s)	87, 104, 178, 261, 519
DpnII	GATC	5 cut(s)	85, 102, 176, 259, 517
DrdI	GACNNNNNNGTC	1 cut(s)	203
DseDI	GACNNNNNNGTC	1 cut(s)	203
Eam1104I	CTCTTC	2 cut(s)	402, 410
EarI	CTCTTC	2 cut(s)	402, 410
Ecl136II	GAGCTC	1 cut(s)	422
Eco130I	CCWWGG	1 cut(s)	320
Eco24I	GRGCYC	4 cut(s)	123, 147, 159, 424
Eco53kI	GAGCTC	1 cut(s)	422
Eco88I	CYCGRG	1 cut(s)	146
EcoICRI	GAGCTC	1 cut(s)	422
EcoT14I	CCWWGG	1 cut(s)	320
EcoT38I	GRGCYC	4 cut(s)	123, 147, 159, 424
ErhI	CCWWGG	1 cut(s)	320
FaeI	CATG	3 cut(s)	197, 318, 324
FatI	CATG	3 cut(s)	193, 314, 320
FauI	CCCGC	1 cut(s)	19
FauNDI	CATATG	1 cut(s)	366
FbaI	TGATCA	1 cut(s)	259
FblI	GTMKAC	1 cut(s)	62
Fnu4HI	GCNGC	1 cut(s)	371
FokI	GGATG	1 cut(s)	297
FriOI	GRGCYC	4 cut(s)	123, 147, 159, 424
Fsp4HI	GCNGC	1 cut(s)	371
FspBI	CTAG	5 cut(s)	249, 425, 443, 459, 513
GlaI	GCGC	1 cut(s)	563
GluI	GCNGC	1 cut(s)	371
HaeIII	GGCC	1 cut(s)	145
HgaI	GACGC	1 cut(s)	199
HhaI	GCGC	1 cut(s)	564
Hin1II	CATG	3 cut(s)	197, 318, 324
Hin6I	GCGC	1 cut(s)	562
HinP1I	GCGC	1 cut(s)	562
HinfI	GANTC	1 cut(s)	7
HphI	GGTGA	2 cut(s)	463, 473
Hpy166II	GTNNAC	2 cut(s)	63, 471
Hpy188I	TCNGA	2 cut(s)	128, 557
Hpy188III	TCNNGA	2 cut(s)	106, 425
Hpy8I	GTNNAC	2 cut(s)	63, 471
Hpy99I	CGWCG	1 cut(s)	20
HpyAV	CCTTC	1 cut(s)	529
HpyCH4III	ACNGT	1 cut(s)	67
HpyCH4IV	ACGT	1 cut(s)	59
HpyCH4V	TGCA	1 cut(s)	44
HpyF10VI	GCNNNNNNNGC	1 cut(s)	459
HpyF3I	CTNAG	2 cut(s)	132, 438
HpySE526I	ACGT	1 cut(s)	59
Hsp92II	CATG	3 cut(s)	197, 318, 324
HspAI	GCGC	1 cut(s)	562
Ksp22I	TGATCA	1 cut(s)	259
Kzo9I	GATC	5 cut(s)	85, 102, 176, 259, 517
LmnI	GCTCC	1 cut(s)	118
LpnPI	CCDG	3 cut(s)	96, 248, 306
MaeI	CTAG	5 cut(s)	249, 425, 443, 459, 513
MaeII	ACGT	1 cut(s)	59
MaeIII	GTNAC	3 cut(s)	268, 433, 479
MalI	GATC	5 cut(s)	87, 104, 178, 261, 519
MboI	GATC	5 cut(s)	85, 102, 176, 259, 517
MboII	GAAGA	3 cut(s)	121, 419, 427
MflI	RGATCY	1 cut(s)	176
MhlI	GDGCHC	4 cut(s)	123, 147, 159, 424
MluCI	AATT	5 cut(s)	212, 278, 358, 394, 565
MmeI	TCCRAC	1 cut(s)	307
MnlI	CCTC	7 cut(s)	134, 314, 392, 397, 405, 473, 563
MseI	TTAA	1 cut(s)	24
MslI	CAYNNNNRTG	2 cut(s)	319, 336
Mva1269I	GAATGC	1 cut(s)	75
MvnI	CGCG	1 cut(s)	203
MwoI	GCNNNNNNNGC	1 cut(s)	459
NcoI	CCATGG	1 cut(s)	320
NdeI	CATATG	1 cut(s)	366
NdeII	GATC	5 cut(s)	85, 102, 176, 259, 517
NheI	GCTAGC	1 cut(s)	458
NlaIII	CATG	3 cut(s)	197, 318, 324
NlaIV	GGNNCC	2 cut(s)	120, 145
NmuCI	GTSAC	1 cut(s)	479
OliI	CACNNNNGTG	1 cut(s)	336
PctI	GAATGC	1 cut(s)	75
PfeI	GAWTC	1 cut(s)	7
PflMI	CCANNNNNTGG	1 cut(s)	326
PkrI	GCNGC	1 cut(s)	372
Ppu21I	YACGTR	1 cut(s)	60
PsiI	TTATAA	1 cut(s)	218
Psp124BI	GAGCTC	1 cut(s)	424
PspN4I	GGNNCC	2 cut(s)	120, 145
PspOMI	GGGCCC	1 cut(s)	143
PspPI	GGNCC	2 cut(s)	143, 144
PsuI	RGATCY	1 cut(s)	176
RsaI	GTAC	2 cut(s)	96, 494
RsaNI	GTAC	2 cut(s)	95, 493
RseI	CAYNNNNRTG	2 cut(s)	319, 336
SacI	GAGCTC	1 cut(s)	424
SaqAI	TTAA	1 cut(s)	24
SatI	GCNGC	1 cut(s)	371
Sau3AI	GATC	5 cut(s)	85, 102, 176, 259, 517
Sau96I	GGNCC	2 cut(s)	143, 144
SduI	GDGCHC	4 cut(s)	123, 147, 159, 424
SmiMI	CAYNNNNRTG	2 cut(s)	319, 336
SmlI	CTYRAG	2 cut(s)	376, 464
SmoI	CTYRAG	2 cut(s)	376, 464
SpeI	ACTAGT	1 cut(s)	248
Sse9I	AATT	5 cut(s)	212, 278, 358, 394, 565
SsiI	CCGC	5 cut(s)	4, 12, 168, 203, 371
SspMI	CTAG	5 cut(s)	249, 425, 443, 459, 513
SstI	GAGCTC	1 cut(s)	424
StyI	CCWWGG	1 cut(s)	320
TaaI	ACNGT	1 cut(s)	67
TaiI	ACGT	1 cut(s)	62
TasI	AATT	5 cut(s)	212, 278, 358, 394, 565
TatI	WGTACW	1 cut(s)	492
TauI	GCSGC	1 cut(s)	373
TfiI	GAWTC	1 cut(s)	7
Tru1I	TTAA	1 cut(s)	24
Tru9I	TTAA	1 cut(s)	24
TseFI	GTSAC	1 cut(s)	479
Tsp45I	GTSAC	1 cut(s)	479
TspDTI	ATGAA	2 cut(s)	299, 522
TspGWI	ACGGA	1 cut(s)	131
Van91I	CCANNNNNTGG	1 cut(s)	326
XapI	RAATTY	2 cut(s)	278, 394
XbaI	TCTAGA	1 cut(s)	424
XmiI	GTMKAC	1 cut(s)	62
XspI	CTAG	5 cut(s)	249, 425, 443, 459, 513

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