Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00542

Orthogroup ID

OG0002402

Physical Location & Seq

Genomic Coordinates Reverse (-)

7930 .. 8778

Gene Structure 849 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G012080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGTCAGGACATCCTATCACCAAAATTCTCAATGAAAATCGTCTTGAGGGCCCAAACTTCAATGACTGGCTCCGCAATTTGAAAATTGTATTGACATTCGATAAGATCGCTTATGTCTTACAAAATGCACCCCCTCACACCCCTTTGGCTCAAGATGCAACCGATGAGCAACGTGTTGCTTATCAAAAGCATAATGATGATGACACTCAAGCTAAATGTGTTATGCTTGCATCCATGAACTCACAACTTCAGAAGCAACATGAGAAAATGGATAGCACCAGTTCTATATTACTCCATCTCACTGAATTGTTTGGTGAGAGAAATAGAAATGTGTGCTTCACAGTAGTCAATGAGCTTGTCAAGACAAAACATTTCATAATGAACTATAATATGCAACAAATGGATCATACTCTTTCTGATCTTCTCAATATGCTGGTAACAGCTGAGAAGCAAATGAAGAAAGAGAGTGGGAGTGTGGACTTTGTCACTTCTTCTTCATCCAATAAGTCCAAAGGTAAAGGCAAATGGAAGAAGAAACAAGTAATAAAGCCTAAGGGAGCAGTCCAAAAGAAGAAGAAGAAGGAACAAAAGGAACCAAAAGGTATTTGTTTCTTTTGCAACAAAGATGGGCACTGGAAGAGGAATTGCAAAGCTTATCTTGCATCCTTGAAGAACAAGTCTTCAACAGAAGGAAAATGCTTTGGGATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Retrotran_gag_2 zf-CCHC

Protein Analysis

236

Amino Acids

26.98

Weight (kDa)

9.57

Isoelectric Point (pI)

31.44

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

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

Orthologous Genes (Group: OG0002402)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g29991
malus_domestica	MD00G1044200.v1.1
prunus_persica	Prupe.2G062600_v2.0.a1 Prupe.2G064700_v2.0.a1 Prupe.6G167800_v2.0.a1
pyrus_communis	pycom13g29530 pycom17g02500 pycom39g00040 pycom976g00080
rosa_chinensis	RchiOBHm_Chr1g0376911 RchiOBHm_Chr1g0379561 RchiOBHm_Chr2g0165661 RchiOBHm_Chr2g0176521
rosa_multiflora	Rmu_sc0000070.1_g000011 Rmu_sc0000555.1_g000020 Rmu_sc0001291.1_g000051 Rmu_sc0001306.1_g000003 Rmu_sc0005142.1_g000016 Rmu_ssc0000389.1_g000014
rosa_roxburghii	Rroxscaffold_2G00096870 Rroxscaffold_5G00384810 Rroxscaffold_6G00394930
rosa_samantha	Rh1CG138000 Rh1CG192400 Rh7BG220700
rosa_wichuraiana	Rw0G002230 Rw0G012080 Rw1G007200 Rw1G008660 Rw1G011890 Rw2G018430 Rw3G008190 Rw3G020340 Rw3G024460 Rw4G000210 Rw5G007300 Rw5G015820 Rw5G032410 Rw5G048130 Rw5G049610 Rw7G025770 Rw7G028470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	73
AclWI	GGATC	1 cut(s)	411
AcsI	RAATTY	1 cut(s)	24
AcuI	CTGAAG	1 cut(s)	233
AflIII	ACRYGT	1 cut(s)	172
AgsI	TTSAA	4 cut(s)	61, 82, 670, 684
AluBI	AGCT	4 cut(s)	212, 355, 443, 653
AluI	AGCT	4 cut(s)	212, 355, 443, 653
AlwI	GGATC	1 cut(s)	411
AoxI	GGCC	1 cut(s)	49
ApaI	GGGCCC	1 cut(s)	53
ApoI	RAATTY	1 cut(s)	24
AspS9I	GGNCC	2 cut(s)	49, 50
AsuHPI	GGTGA	2 cut(s)	10, 326
AxyI	CCTNAGG	1 cut(s)	552
BaeGI	GKGCMC	2 cut(s)	53, 633
BanII	GRGCYC	1 cut(s)	53
BbsI	GAAGAC	1 cut(s)	672
BccI	CCATC	2 cut(s)	303, 620
BmgT120I	GGNCC	2 cut(s)	49, 50
BmiI	GGNNCC	3 cut(s)	51, 71, 594
BmsI	GCATC	3 cut(s)	145, 239, 671
BpiI	GAAGAC	1 cut(s)	672
BpuEI	CTTGAG	3 cut(s)	65, 135, 192
Bse1I	ACTGG	3 cut(s)	71, 279, 638
Bse21I	CCTNAGG	1 cut(s)	552
BseGI	GGATG	4 cut(s)	10, 230, 497, 662
BseMII	CTCAG	1 cut(s)	435
BseNI	ACTGG	3 cut(s)	71, 279, 638
BseSI	GKGCMC	2 cut(s)	53, 633
BshFI	GGCC	1 cut(s)	51
BsnI	GGCC	1 cut(s)	51
Bsp120I	GGGCCC	1 cut(s)	49
Bsp1286I	GDGCHC	2 cut(s)	53, 633
Bsp143I	GATC	4 cut(s)	105, 403, 418, 705
BspACI	CCGC	1 cut(s)	73
BspANI	GGCC	1 cut(s)	51
BspCNI	CTCAG	1 cut(s)	436
BspLI	GGNNCC	3 cut(s)	51, 71, 594
BspPI	GGATC	1 cut(s)	411
BsrI	ACTGG	3 cut(s)	71, 279, 638
BssMI	GATC	4 cut(s)	105, 403, 418, 705
Bst4CI	ACNGT	1 cut(s)	343
Bst6I	CTCTTC	1 cut(s)	632
BstC8I	GCNNGC	1 cut(s)	228
BstDEI	CTNAG	2 cut(s)	444, 552
BstF5I	GGATG	4 cut(s)	10, 230, 497, 662
BstKTI	GATC	4 cut(s)	108, 406, 421, 708
BstMBI	GATC	4 cut(s)	105, 403, 418, 705
BstMWI	GCNNNNNNNGC	2 cut(s)	155, 659
BstSLI	GKGCMC	2 cut(s)	53, 633
BstV2I	GAAGAC	1 cut(s)	672
BstX2I	RGATCY	1 cut(s)	705
BstYI	RGATCY	1 cut(s)	705
Bsu36I	CCTNAGG	1 cut(s)	552
BsuRI	GGCC	1 cut(s)	51
BtsCI	GGATG	4 cut(s)	10, 230, 497, 662
BtsIMutI	CAGTG	2 cut(s)	300, 631
Cac8I	GCNNGC	1 cut(s)	228
Cfr13I	GGNCC	2 cut(s)	49, 50
CviAII	CATG	2 cut(s)	235, 260
CviJI	RGCY	8 cut(s)	51, 70, 149, 212, 355, 443, 550, 653
CviKI_1	RGCY	8 cut(s)	51, 70, 149, 212, 355, 443, 550, 653
DdeI	CTNAG	2 cut(s)	444, 552
DpnI	GATC	4 cut(s)	107, 405, 420, 707
DpnII	GATC	4 cut(s)	105, 403, 418, 705
Eam1104I	CTCTTC	1 cut(s)	632
EarI	CTCTTC	1 cut(s)	632
Eco24I	GRGCYC	1 cut(s)	53
Eco57I	CTGAAG	1 cut(s)	233
Eco81I	CCTNAGG	1 cut(s)	552
EcoO109I	RGGNCCY	1 cut(s)	49
EcoT38I	GRGCYC	1 cut(s)	53
FaeI	CATG	2 cut(s)	238, 263
FalI	AAGNNNNNCTT	2 cut(s)	642, 674
FatI	CATG	2 cut(s)	234, 259
FokI	GGATG	3 cut(s)	217, 484, 649
FriOI	GRGCYC	1 cut(s)	53
HaeIII	GGCC	1 cut(s)	51
Hin1II	CATG	2 cut(s)	238, 263
HindIII	AAGCTT	1 cut(s)	651
HphI	GGTGA	2 cut(s)	10, 326
Hpy166II	GTNNAC	1 cut(s)	478
Hpy188I	TCNGA	2 cut(s)	252, 418
Hpy188III	TCNNGA	4 cut(s)	6, 44, 152, 361
Hpy8I	GTNNAC	1 cut(s)	478
HpyAV	CCTTC	2 cut(s)	574, 683
HpyCH4III	ACNGT	1 cut(s)	343
HpyCH4IV	ACGT	1 cut(s)	172
HpyCH4V	TGCA	7 cut(s)	128, 158, 230, 394, 618, 648, 662
HpyF10VI	GCNNNNNNNGC	2 cut(s)	155, 659
HpyF3I	CTNAG	2 cut(s)	444, 552
HpySE526I	ACGT	1 cut(s)	172
Hsp92II	CATG	2 cut(s)	238, 263
Kzo9I	GATC	4 cut(s)	105, 403, 418, 705
LmnI	GCTCC	2 cut(s)	75, 557
LpnPI	CCDG	4 cut(s)	52, 292, 419, 619
LweI	GCATC	3 cut(s)	145, 239, 671
MaeII	ACGT	1 cut(s)	172
MaeIII	GTNAC	2 cut(s)	436, 484
MalI	GATC	4 cut(s)	107, 405, 420, 707
MboI	GATC	4 cut(s)	105, 403, 418, 705
MflI	RGATCY	1 cut(s)	705
MhlI	GDGCHC	2 cut(s)	53, 633
MluCI	AATT	5 cut(s)	24, 76, 84, 305, 643
MnlI	CCTC	3 cut(s)	40, 144, 633
MslI	CAYNNNNRTG	1 cut(s)	195
MspA1I	CMGCKG	1 cut(s)	443
MwoI	GCNNNNNNNGC	2 cut(s)	155, 659
NdeII	GATC	4 cut(s)	105, 403, 418, 705
NlaIII	CATG	2 cut(s)	238, 263
NlaIV	GGNNCC	3 cut(s)	51, 71, 594
NmuCI	GTSAC	1 cut(s)	484
PflFI	GACNNNGTC	1 cut(s)	482
PspN4I	GGNNCC	3 cut(s)	51, 71, 594
PspOMI	GGGCCC	1 cut(s)	49
PspPI	GGNCC	2 cut(s)	49, 50
PsuI	RGATCY	1 cut(s)	705
PsyI	GACNNNGTC	1 cut(s)	482
PvuII	CAGCTG	1 cut(s)	443
RseI	CAYNNNNRTG	1 cut(s)	195
Sau3AI	GATC	4 cut(s)	105, 403, 418, 705
Sau96I	GGNCC	2 cut(s)	49, 50
SduI	GDGCHC	2 cut(s)	53, 633
SetI	ASST	7 cut(s)	175, 214, 357, 445, 517, 604, 655
SfaNI	GCATC	3 cut(s)	145, 239, 671
SmiMI	CAYNNNNRTG	1 cut(s)	195
SmlI	CTYRAG	3 cut(s)	44, 150, 207
SmoI	CTYRAG	3 cut(s)	44, 150, 207
Sse9I	AATT	5 cut(s)	24, 76, 84, 305, 643
SsiI	CCGC	1 cut(s)	73
TaaI	ACNGT	1 cut(s)	343
TaiI	ACGT	1 cut(s)	175
TaqI	TCGA	1 cut(s)	99
TasI	AATT	5 cut(s)	24, 76, 84, 305, 643
TscAI	CASTG	2 cut(s)	307, 638
TseFI	GTSAC	1 cut(s)	484
Tsp45I	GTSAC	1 cut(s)	484
TspDTI	ATGAA	6 cut(s)	48, 251, 364, 395, 470, 486
TspRI	CASTG	2 cut(s)	307, 638
Tth111I	GACNNNGTC	1 cut(s)	482
XapI	RAATTY	1 cut(s)	24

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