Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0002402

Physical Location & Seq

Genomic Coordinates Reverse (-)

31492989 .. 31493880

Gene Structure 892 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G024460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 705 bp

ATGTCAGGACATCCTATCACCAAAATTCTCAATGAAAATCGTCTTGAGGGCCCAAACTTCAATGACTGGCTCTGCAATTTGAAAATTGTATTGACATTCGATAAGATCGCTTATGTCTTACAAAATGCACCCCCTCACACCCCTTTGGCTCAAGATGCAACCGATGAGCAACGTGTTGCTTATCAAAAGCATAAGGATGATGACACTCAAGCTAAATGTAATATGGATAGTGCCAGTTCTATATTACTCCATCTCACTGAATTGTTTGGTAAGAGAAATAGAAATGTGCGCTTCACAGTAGTCACTGAGCTTGTTAAGACAAAACATTTCATAATGAACTATAATATGCAACAAATGAATCGTACTCTTTCTTATCTTCTCAATATGCTGGTAACAGCTGAGAAGAAAATCAAGAAAGAGAGTGGGAGTGTGGCCATTGTCACTTCTTCTTCATCTAGTAAGTCCAAAGGTAAAGGCAAAGGGAAGAAGAAACAAGTGATAAAGCCTAAGGAAGTAGTCCAAAAGAAGAAGAAGAAGAAGAAGGAGCAGAAGGAACCAAAAGGTATTTGTTTCTTTTGCAACAAAGATGGGCACTGGAAGAGGAATTCCAAAGCTTATCTTGCATCCTTGAAGAACAAGTCTTCAATAGAAGGTACGATCAATGTGATTGAATCAATATTTACAGTTAATAATACTTCCACTTAG

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

234

Amino Acids

26.56

Weight (kDa)

9.87

Isoelectric Point (pI)

30.66

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)
AcoI	YGGCCR	1 cut(s)	432
AcsI	RAATTY	2 cut(s)	24, 604
AfaI	GTAC	2 cut(s)	364, 655
AflIII	ACRYGT	1 cut(s)	172
AgsI	TTSAA	5 cut(s)	61, 82, 631, 645, 671
AluBI	AGCT	4 cut(s)	212, 310, 398, 614
AluI	AGCT	4 cut(s)	212, 310, 398, 614
AoxI	GGCC	2 cut(s)	49, 432
ApaI	GGGCCC	1 cut(s)	53
ApoI	RAATTY	2 cut(s)	24, 604
AspLEI	GCGC	1 cut(s)	291
AspS9I	GGNCC	2 cut(s)	49, 50
AsuHPI	GGTGA	1 cut(s)	10
AxyI	CCTNAGG	1 cut(s)	507
BaeGI	GKGCMC	2 cut(s)	53, 594
BalI	TGGCCA	1 cut(s)	434
BanII	GRGCYC	1 cut(s)	53
BbsI	GAAGAC	1 cut(s)	633
BccI	CCATC	2 cut(s)	258, 581
BfaI	CTAG	1 cut(s)	456
BmgT120I	GGNCC	2 cut(s)	49, 50
BmiI	GGNNCC	2 cut(s)	51, 555
BmsI	GCATC	2 cut(s)	145, 632
BpiI	GAAGAC	1 cut(s)	633
BpuEI	CTTGAG	3 cut(s)	65, 135, 192
Bse1I	ACTGG	3 cut(s)	71, 234, 599
Bse21I	CCTNAGG	1 cut(s)	507
BseGI	GGATG	3 cut(s)	10, 202, 623
BseMII	CTCAG	2 cut(s)	297, 390
BseNI	ACTGG	3 cut(s)	71, 234, 599
BseSI	GKGCMC	2 cut(s)	53, 594
BshFI	GGCC	2 cut(s)	51, 434
BsnI	GGCC	2 cut(s)	51, 434
Bsp120I	GGGCCC	1 cut(s)	49
Bsp1286I	GDGCHC	2 cut(s)	53, 594
Bsp143I	GATC	2 cut(s)	105, 657
BspANI	GGCC	2 cut(s)	51, 434
BspCNI	CTCAG	2 cut(s)	298, 391
BspLI	GGNNCC	2 cut(s)	51, 555
BsrI	ACTGG	3 cut(s)	71, 234, 599
BssMI	GATC	2 cut(s)	105, 657
Bst4CI	ACNGT	2 cut(s)	298, 685
Bst6I	CTCTTC	1 cut(s)	593
BstDEI	CTNAG	4 cut(s)	306, 399, 507, 702
BstF5I	GGATG	3 cut(s)	10, 202, 623
BstHHI	GCGC	1 cut(s)	291
BstKTI	GATC	2 cut(s)	108, 660
BstMBI	GATC	2 cut(s)	105, 657
BstMWI	GCNNNNNNNGC	2 cut(s)	155, 620
BstSLI	GKGCMC	2 cut(s)	53, 594
BstV2I	GAAGAC	1 cut(s)	633
Bsu36I	CCTNAGG	1 cut(s)	507
BsuRI	GGCC	2 cut(s)	51, 434
BtsCI	GGATG	3 cut(s)	10, 202, 623
BtsIMutI	CAGTG	3 cut(s)	255, 303, 592
CfoI	GCGC	1 cut(s)	291
Cfr13I	GGNCC	2 cut(s)	49, 50
Csp6I	GTAC	2 cut(s)	363, 654
CviJI	RGCY	9 cut(s)	51, 70, 149, 212, 310, 398, 434, 505, 614
CviKI_1	RGCY	9 cut(s)	51, 70, 149, 212, 310, 398, 434, 505, 614
CviQI	GTAC	2 cut(s)	363, 654
DdeI	CTNAG	4 cut(s)	306, 399, 507, 702
DpnI	GATC	2 cut(s)	107, 659
DpnII	GATC	2 cut(s)	105, 657
EaeI	YGGCCR	1 cut(s)	432
Eam1104I	CTCTTC	1 cut(s)	593
EarI	CTCTTC	1 cut(s)	593
Eco24I	GRGCYC	1 cut(s)	53
Eco81I	CCTNAGG	1 cut(s)	507
EcoO109I	RGGNCCY	1 cut(s)	49
EcoRI	GAATTC	1 cut(s)	604
EcoT38I	GRGCYC	1 cut(s)	53
FaiI	YATR	8 cut(s)	114, 192, 224, 242, 332, 342, 347, 386
FalI	AAGNNNNNCTT	2 cut(s)	603, 635
FokI	GGATG	2 cut(s)	209, 610
FriOI	GRGCYC	1 cut(s)	53
FspBI	CTAG	1 cut(s)	456
GlaI	GCGC	1 cut(s)	290
HaeIII	GGCC	2 cut(s)	51, 434
HhaI	GCGC	1 cut(s)	291
Hin6I	GCGC	1 cut(s)	289
HinP1I	GCGC	1 cut(s)	289
HindIII	AAGCTT	1 cut(s)	612
HinfI	GANTC	2 cut(s)	358, 671
HphI	GGTGA	1 cut(s)	10
Hpy188III	TCNNGA	4 cut(s)	6, 44, 152, 412
HpyAV	CCTTC	3 cut(s)	535, 544, 644
HpyCH4III	ACNGT	2 cut(s)	298, 685
HpyCH4IV	ACGT	1 cut(s)	172
HpyCH4V	TGCA	6 cut(s)	75, 128, 158, 349, 579, 623
HpyF10VI	GCNNNNNNNGC	2 cut(s)	155, 620
HpyF3I	CTNAG	4 cut(s)	306, 399, 507, 702
HpySE526I	ACGT	1 cut(s)	172
HspAI	GCGC	1 cut(s)	289
Kzo9I	GATC	2 cut(s)	105, 657
LmnI	GCTCC	1 cut(s)	544
LpnPI	CCDG	4 cut(s)	52, 247, 374, 580
LweI	GCATC	2 cut(s)	145, 632
MaeI	CTAG	1 cut(s)	456
MaeII	ACGT	1 cut(s)	172
MaeIII	GTNAC	3 cut(s)	301, 391, 439
MalI	GATC	2 cut(s)	107, 659
MboI	GATC	2 cut(s)	105, 657
MhlI	GDGCHC	2 cut(s)	53, 594
MlsI	TGGCCA	1 cut(s)	434
MluCI	AATT	5 cut(s)	24, 76, 84, 260, 604
MluNI	TGGCCA	1 cut(s)	434
MnlI	CCTC	3 cut(s)	40, 144, 594
Mox20I	TGGCCA	1 cut(s)	434
MscI	TGGCCA	1 cut(s)	434
MseI	TTAA	2 cut(s)	315, 687
MslI	CAYNNNNRTG	1 cut(s)	195
Msp20I	TGGCCA	1 cut(s)	434
MspA1I	CMGCKG	1 cut(s)	398
MwoI	GCNNNNNNNGC	2 cut(s)	155, 620
NdeII	GATC	2 cut(s)	105, 657
NlaIV	GGNNCC	2 cut(s)	51, 555
NmuCI	GTSAC	2 cut(s)	301, 439
PfeI	GAWTC	2 cut(s)	358, 671
PspN4I	GGNNCC	2 cut(s)	51, 555
PspOMI	GGGCCC	1 cut(s)	49
PspPI	GGNCC	2 cut(s)	49, 50
PvuII	CAGCTG	1 cut(s)	398
RsaI	GTAC	2 cut(s)	364, 655
RsaNI	GTAC	2 cut(s)	363, 654
RseI	CAYNNNNRTG	1 cut(s)	195
SaqAI	TTAA	2 cut(s)	315, 687
Sau3AI	GATC	2 cut(s)	105, 657
Sau96I	GGNCC	2 cut(s)	49, 50
SduI	GDGCHC	2 cut(s)	53, 594
SetI	ASST	8 cut(s)	175, 214, 312, 400, 472, 565, 616, 655
SfaNI	GCATC	2 cut(s)	145, 632
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, 260, 604
SspI	AATATT	1 cut(s)	678
SspMI	CTAG	1 cut(s)	456
TaaI	ACNGT	2 cut(s)	298, 685
TaiI	ACGT	1 cut(s)	175
TaqI	TCGA	1 cut(s)	99
TasI	AATT	5 cut(s)	24, 76, 84, 260, 604
TfiI	GAWTC	2 cut(s)	358, 671
Tru1I	TTAA	2 cut(s)	315, 687
Tru9I	TTAA	2 cut(s)	315, 687
TscAI	CASTG	3 cut(s)	262, 310, 599
TseFI	GTSAC	2 cut(s)	301, 439
Tsp45I	GTSAC	2 cut(s)	301, 439
TspDTI	ATGAA	5 cut(s)	48, 319, 350, 371, 441
TspRI	CASTG	3 cut(s)	262, 310, 599
XapI	RAATTY	2 cut(s)	24, 604
XspI	CTAG	1 cut(s)	456

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