Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0005055

Physical Location & Seq

Genomic Coordinates Reverse (-)

43610126 .. 43612416

Gene Structure 2291 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00422810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGGCTTTCATGGAGGCAGATATCTCATGTGACTTGACGGAAGTCCTGCTGCCGTTGTCATGGGTAGTGGTTTTTAGGCCAACACTAACAGTCACGGCCACCACTAGTGCTATTAATAGTGTCGAAGAGATGCCAATAAGGGCAAACCTTTTTTTGAGCTACTTGATTCCTCACGAAGTTAATAGCACAATCCAAAATGCACAAAGAAAACACACGTATACGGTGTGGGGCATTCCACCAGATCACATCGTACAAAGGATCAAGAAGATAATGGAGCCCCTCCGAGCTGAGTTTGGCGGGCCTGAGATTGAGCCCCACATTACCGCCGTAGGGTCTATCCTTTTGACGCATGACTACGCGGTCAAACAATTTATAAATGGTTGTGAAAATATAGAACCCTACGCTTGTGAAGTTGATCAGGTGGTTACTCGCAAATTCTATTACCAACCTGTCTCCCTCCTCTTTCATCCATGTCCATGGCAGGTTGGACACTTTAGTGGTTATCTACATCGCTGTAATGCTCATATGCCGCACTTGAGCCTCCTTTATGGGAATTTGACAGAGGAAGAGAGGAAAAGAGCTCTAGAAAAGGTTACTGAGCTGGACGACAGCATTGCTAGCCTCAAGTTCACCATAAGTCACCTTGTTTTGTACAAAACCCACAATGAAGCTAGAGATCAACATTCTTGGGAGAAGGTTATGGAATACAACCTCCGACAGCGCAATTAG

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

242

Amino Acids

27.93

Weight (kDa)

6.1

Isoelectric Point (pI)

43.13

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)

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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: 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)	374
AasI	GACNNNNNNGTC	1 cut(s)	359
Acc36I	ACCTGC	1 cut(s)	472
AccI	GTMKAC	1 cut(s)	218
AccII	CGCG	1 cut(s)	359
AciI	CCGC	4 cut(s)	297, 324, 359, 530
AclWI	GGATC	1 cut(s)	266
AcoI	YGGCCR	1 cut(s)	96
AcsI	RAATTY	2 cut(s)	434, 553
AfaI	GTAC	2 cut(s)	252, 653
AfiI	CCNNNNNNNGG	1 cut(s)	330
AflIII	ACRYGT	1 cut(s)	213
AhlI	ACTAGT	1 cut(s)	104
AleI	CACNNNNGTG	1 cut(s)	495
AluBI	AGCT	5 cut(s)	159, 287, 581, 601, 671
AluI	AGCT	5 cut(s)	159, 287, 581, 601, 671
Alw21I	GWGCWC	1 cut(s)	583
Alw26I	GTCTC	1 cut(s)	457
AlwI	GGATC	1 cut(s)	266
AoxI	GGCC	3 cut(s)	77, 96, 299
ApeKI	GCWGC	1 cut(s)	49
ApoI	RAATTY	2 cut(s)	434, 553
AseI	ATTAAT	1 cut(s)	114
AspLEI	GCGC	1 cut(s)	723
AspS9I	GGNCC	1 cut(s)	299
AsuHPI	GGTGA	2 cut(s)	622, 632
AsuNHI	GCTAGC	1 cut(s)	617
BanII	GRGCYC	3 cut(s)	279, 315, 583
Bbv12I	GWGCWC	1 cut(s)	583
BbvI	GCAGC	1 cut(s)	36
BceAI	ACGGC	3 cut(s)	37, 111, 311
BcgI	CGANNNNNNTGC	2 cut(s)	596, 630
BclI	TGATCA	1 cut(s)	415
BcoDI	GTCTC	1 cut(s)	457
BcuI	ACTAGT	1 cut(s)	104
BfaI	CTAG	4 cut(s)	105, 584, 618, 672
BfuAI	ACCTGC	1 cut(s)	472
BisI	GCNGC	2 cut(s)	50, 530
BlsI	GCNGC	2 cut(s)	51, 531
BmgT120I	GGNCC	1 cut(s)	299
BmiI	GGNNCC	1 cut(s)	276
BmsI	GCATC	1 cut(s)	120
BmtI	GCTAGC	1 cut(s)	621
BoxI	GACNNNNGTC	1 cut(s)	41
BpuEI	CTTGAG	2 cut(s)	556, 608
BsaAI	YACGTR	1 cut(s)	216
BsaJI	CCNNGG	1 cut(s)	476
Bsc4I	CCNNNNNNNGG	1 cut(s)	330
Bse3DI	GCAATG	1 cut(s)	612
BseDI	CCNNGG	1 cut(s)	476
BseGI	GGATG	1 cut(s)	466
BseLI	CCNNNNNNNGG	1 cut(s)	330
BseMI	GCAATG	1 cut(s)	612
BseMII	CTCAG	3 cut(s)	279, 294, 588
BseRI	GAGGAG	1 cut(s)	449
BseXI	GCAGC	1 cut(s)	36
Bsh1236I	CGCG	1 cut(s)	359
BshFI	GGCC	3 cut(s)	79, 98, 301
BsiHKAI	GWGCWC	1 cut(s)	583
BslI	CCNNNNNNNGG	1 cut(s)	330
BsmAI	GTCTC	1 cut(s)	457
BsmI	GAATGC	1 cut(s)	231
BsnI	GGCC	3 cut(s)	79, 98, 301
Bsp1286I	GDGCHC	3 cut(s)	279, 315, 583
Bsp1407I	TGTACA	1 cut(s)	651
Bsp143I	GATC	4 cut(s)	241, 258, 415, 676
Bsp19I	CCATGG	1 cut(s)	476
BspACI	CCGC	4 cut(s)	297, 324, 359, 530
BspANI	GGCC	3 cut(s)	79, 98, 301
BspCNI	CTCAG	3 cut(s)	280, 295, 589
BspFNI	CGCG	1 cut(s)	359
BspLI	GGNNCC	1 cut(s)	276
BspMI	ACCTGC	1 cut(s)	472
BspOI	GCTAGC	1 cut(s)	621
BspPI	GGATC	1 cut(s)	266
BsrDI	GCAATG	1 cut(s)	612
BsrGI	TGTACA	1 cut(s)	651
BssECI	CCNNGG	1 cut(s)	476
BssMI	GATC	4 cut(s)	241, 258, 415, 676
BssNAI	GTATAC	1 cut(s)	219
BssT1I	CCWWGG	1 cut(s)	476
Bst1107I	GTATAC	1 cut(s)	219
Bst4CI	ACNGT	2 cut(s)	91, 223
Bst6I	CTCTTC	2 cut(s)	120, 561
BstAUI	TGTACA	1 cut(s)	651
BstBAI	YACGTR	1 cut(s)	216
BstC8I	GCNNGC	2 cut(s)	299, 619
BstDEI	CTNAG	3 cut(s)	288, 303, 597
BstDSI	CCRYGG	1 cut(s)	476
BstF5I	GGATG	1 cut(s)	466
BstFNI	CGCG	1 cut(s)	359
BstHHI	GCGC	1 cut(s)	723
BstKTI	GATC	4 cut(s)	244, 261, 418, 679
BstMAI	GTCTC	1 cut(s)	457
BstMBI	GATC	4 cut(s)	241, 258, 415, 676
BstMWI	GCNNNNNNNGC	1 cut(s)	618
BstPAI	GACNNNNGTC	1 cut(s)	41
BstUI	CGCG	1 cut(s)	359
BstV1I	GCAGC	1 cut(s)	36
BstXI	CCANNNNNNTGG	1 cut(s)	477
BstZ17I	GTATAC	1 cut(s)	219
BsuRI	GGCC	3 cut(s)	79, 98, 301
BtgI	CCRYGG	1 cut(s)	476
BtgZI	GCGATG	1 cut(s)	494
BtsCI	GGATG	1 cut(s)	466
BveI	ACCTGC	1 cut(s)	472
Cac8I	GCNNGC	2 cut(s)	299, 619
CfoI	GCGC	1 cut(s)	723
Cfr13I	GGNCC	1 cut(s)	299
CseI	GACGC	1 cut(s)	355
Csp6I	GTAC	2 cut(s)	251, 652
CviAII	CATG	6 cut(s)	10, 27, 60, 350, 471, 477
CviQI	GTAC	2 cut(s)	251, 652
DdeI	CTNAG	3 cut(s)	288, 303, 597
DpnI	GATC	4 cut(s)	243, 260, 417, 678
DpnII	GATC	4 cut(s)	241, 258, 415, 676
DrdI	GACNNNNNNGTC	1 cut(s)	359
DseDI	GACNNNNNNGTC	1 cut(s)	359
EaeI	YGGCCR	1 cut(s)	96
Eam1104I	CTCTTC	2 cut(s)	120, 561
EarI	CTCTTC	2 cut(s)	120, 561
Ecl136II	GAGCTC	1 cut(s)	581
Eco130I	CCWWGG	1 cut(s)	476
Eco24I	GRGCYC	3 cut(s)	279, 315, 583
Eco32I	GATATC	1 cut(s)	22
Eco53kI	GAGCTC	1 cut(s)	581
EcoICRI	GAGCTC	1 cut(s)	581
EcoRV	GATATC	1 cut(s)	22
EcoT14I	CCWWGG	1 cut(s)	476
EcoT38I	GRGCYC	3 cut(s)	279, 315, 583
ErhI	CCWWGG	1 cut(s)	476
FaeI	CATG	6 cut(s)	13, 30, 63, 353, 474, 480
FatI	CATG	6 cut(s)	9, 26, 59, 349, 470, 476
FauI	CCCGC	1 cut(s)	290
FauNDI	CATATG	1 cut(s)	525
FbaI	TGATCA	1 cut(s)	415
FblI	GTMKAC	1 cut(s)	218
Fnu4HI	GCNGC	2 cut(s)	50, 530
FokI	GGATG	1 cut(s)	453
FriOI	GRGCYC	3 cut(s)	279, 315, 583
Fsp4HI	GCNGC	2 cut(s)	50, 530
FspBI	CTAG	4 cut(s)	105, 584, 618, 672
GlaI	GCGC	1 cut(s)	722
GluI	GCNGC	2 cut(s)	50, 530
HaeIII	GGCC	3 cut(s)	79, 98, 301
HgaI	GACGC	1 cut(s)	355
HhaI	GCGC	1 cut(s)	723
Hin1II	CATG	6 cut(s)	13, 30, 63, 353, 474, 480
Hin6I	GCGC	1 cut(s)	721
HinP1I	GCGC	1 cut(s)	721
HinfI	GANTC	1 cut(s)	166
HphI	GGTGA	2 cut(s)	622, 632
Hpy166II	GTNNAC	2 cut(s)	219, 630
Hpy188I	TCNGA	2 cut(s)	284, 716
Hpy188III	TCNNGA	3 cut(s)	173, 262, 584
Hpy8I	GTNNAC	2 cut(s)	219, 630
HpyAV	CCTTC	1 cut(s)	688
HpyCH4III	ACNGT	2 cut(s)	91, 223
HpyCH4IV	ACGT	1 cut(s)	215
HpyCH4V	TGCA	1 cut(s)	200
HpyF10VI	GCNNNNNNNGC	1 cut(s)	618
HpyF3I	CTNAG	3 cut(s)	288, 303, 597
HpySE526I	ACGT	1 cut(s)	215
Hsp92II	CATG	6 cut(s)	13, 30, 63, 353, 474, 480
HspAI	GCGC	1 cut(s)	721
Ksp22I	TGATCA	1 cut(s)	415
Kzo9I	GATC	4 cut(s)	241, 258, 415, 676
LmnI	GCTCC	1 cut(s)	274
LpnPI	CCDG	7 cut(s)	59, 252, 315, 404, 462, 467, 587
Lsp1109I	GCAGC	1 cut(s)	36
LweI	GCATC	1 cut(s)	120
MaeI	CTAG	4 cut(s)	105, 584, 618, 672
MaeII	ACGT	1 cut(s)	215
MaeIII	GTNAC	5 cut(s)	29, 91, 424, 592, 638
MalI	GATC	4 cut(s)	243, 260, 417, 678
MboI	GATC	4 cut(s)	241, 258, 415, 676
MboII	GAAGA	3 cut(s)	137, 277, 578
MhlI	GDGCHC	3 cut(s)	279, 315, 583
MluCI	AATT	4 cut(s)	368, 434, 553, 724
MmeI	TCCRAC	1 cut(s)	466
MseI	TTAA	2 cut(s)	114, 180
MslI	CAYNNNNRTG	2 cut(s)	475, 495
Mva1269I	GAATGC	1 cut(s)	231
MvnI	CGCG	1 cut(s)	359
MwoI	GCNNNNNNNGC	1 cut(s)	618
NcoI	CCATGG	1 cut(s)	476
NdeI	CATATG	1 cut(s)	525
NdeII	GATC	4 cut(s)	241, 258, 415, 676
NheI	GCTAGC	1 cut(s)	617
NlaIII	CATG	6 cut(s)	13, 30, 63, 353, 474, 480
NlaIV	GGNNCC	1 cut(s)	276
NmuCI	GTSAC	3 cut(s)	29, 91, 638
OliI	CACNNNNGTG	1 cut(s)	495
PctI	GAATGC	1 cut(s)	231
PfeI	GAWTC	1 cut(s)	166
PkrI	GCNGC	2 cut(s)	51, 531
Ppu21I	YACGTR	1 cut(s)	216
PshAI	GACNNNNGTC	1 cut(s)	41
PshBI	ATTAAT	1 cut(s)	114
PsiI	TTATAA	1 cut(s)	374
Psp124BI	GAGCTC	1 cut(s)	583
PspN4I	GGNNCC	1 cut(s)	276
PspPI	GGNCC	1 cut(s)	299
RsaI	GTAC	2 cut(s)	252, 653
RsaNI	GTAC	2 cut(s)	251, 652
RseI	CAYNNNNRTG	2 cut(s)	475, 495
SacI	GAGCTC	1 cut(s)	583
SaqAI	TTAA	2 cut(s)	114, 180
SatI	GCNGC	2 cut(s)	50, 530
Sau3AI	GATC	4 cut(s)	241, 258, 415, 676
Sau96I	GGNCC	1 cut(s)	299
SduI	GDGCHC	3 cut(s)	279, 315, 583
SfaNI	GCATC	1 cut(s)	120
SmiMI	CAYNNNNRTG	2 cut(s)	475, 495
SmlI	CTYRAG	2 cut(s)	535, 623
SmoI	CTYRAG	2 cut(s)	535, 623
SpeI	ACTAGT	1 cut(s)	104
Sse9I	AATT	4 cut(s)	368, 434, 553, 724
SsiI	CCGC	4 cut(s)	297, 324, 359, 530
SspMI	CTAG	4 cut(s)	105, 584, 618, 672
SstI	GAGCTC	1 cut(s)	583
StyI	CCWWGG	1 cut(s)	476
TaaI	ACNGT	2 cut(s)	91, 223
TaiI	ACGT	1 cut(s)	218
TaqI	TCGA	1 cut(s)	123
TasI	AATT	4 cut(s)	368, 434, 553, 724
TatI	WGTACW	1 cut(s)	651
TauI	GCSGC	1 cut(s)	532
TfiI	GAWTC	1 cut(s)	166
Tru1I	TTAA	2 cut(s)	114, 180
Tru9I	TTAA	2 cut(s)	114, 180
TseFI	GTSAC	3 cut(s)	29, 91, 638
TseI	GCWGC	1 cut(s)	49
Tsp45I	GTSAC	3 cut(s)	29, 91, 638
TspDTI	ATGAA	2 cut(s)	455, 681
TspGWI	ACGGA	1 cut(s)	53
VspI	ATTAAT	1 cut(s)	114
XapI	RAATTY	2 cut(s)	434, 553
XbaI	TCTAGA	1 cut(s)	583
XmiI	GTMKAC	1 cut(s)	218
XspI	CTAG	4 cut(s)	105, 584, 618, 672

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