Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004836

Physical Location & Seq

Genomic Coordinates Forward (+)

68568441 .. 68570113

Gene Structure 1673 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG424300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGGCTTCTTCGAGCAGGAGAAAGAGCAGTGCTAAAGGAGTTGCCTCTCCAAGCTTCTTCAAGGTTGTTGTGGATGAGGTTCTTGAAGATGGGATGCTTGAAATTGAAGGTTATGTTGCGAGGAACTATGAAGATTTCCTGGGATGCTCAGTAGTCCTCACTGATCCGAAAGGTTCTATGTGGCCAATGGAACTCAAAAGGAGCAATGGCAGCGTTTGGTTGAAAAAGGGTTGGCTAGAATTTGCCAACTTTTATTCCCTAAAACAAGGATGCTTCATATTTTTTACCCACAAAGGCTTCGATTCAGGTTTCCAAGTACGTATTTTCAATAAGAGGTGGTTGGAGATAGATTATCCATTCAAATCAAGCCATCAAGAGGATTCCAAGTTTCGTAGAGGAGGTGATGAAGCCTTTACAAGAGCTAAGAGGTTCAAATCCAACCATCCATGTCTTGCTGTCAGAATGCAACCCTCCTACCTGTTAAGGGGTTTGAAATTGAATGCAACCTTTGTGAATGAAAATATCTGTGCAACAGGCGCCACTCGCAAAATCAAGCTACAGATTCCAAATGGGAAAACCTGGTCTGCTAAGTGCTCTGTCTACTTATGCATGAACAAAGACTATGCAAAAATCTGCAGTGGTTGGACAAAGTTTGCAGCGGAAAATAAGCTGCAAGTAGGGGATGCTTGTGCGTTGGAGCTGATAAAGGAGTGCCCTAAACTTACATTCTTGGTTCACATATTCCGAGCTAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009909 GO:0010048 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048580 GO:0048831 GO:0050789 GO:0050793 GO:0050896 GO:0051239 GO:0065007 GO:0070013 GO:0097159 GO:1901363 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

251

Amino Acids

28.58

Weight (kDa)

9.47

Isoelectric Point (pI)

48.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	20 - 111	1e-11	B3 DNA binding domain
B3	PF02362	156 - 251	3e-13	B3 DNA binding domain

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)

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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: OG0004836)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g13840 FvH4_1g14720 FvH4_2g29240 FvH4_2g29322 FvH4_2g29350 FvH4_3g34770 FvH4_7g25080
malus_domestica	MD05G1037200.v1.1
prunus_persica	Prupe.7G143200_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0103581 RchiOBHm_Chr5g0062511
rosa_laevigata	RLG00000017246 RLG00000035562
rosa_multiflora	Rmu_co8088552.1_g000001 Rmu_sc0001530.1_g000008 Rmu_sc0001852.1_g000021 Rmu_sc0004988.1_g000026
rosa_roxburghii	Rroxscaffold_1G00018100 Rroxscaffold_2G00139510
rosa_rugosa	Rorug02G0115900 Rorug05G0350300 Rorug05G0350300
rosa_samantha	Rh2AG164200 Rh2BG171400 Rh2CG170900 Rh2DG169500 Rh5AG410300 Rh5BG424300 Rh5DG438600
rosa_wichuraiana	Rw2G012910 Rw5G038630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	536
AccI	GTMKAC	1 cut(s)	600
AciI	CCGC	1 cut(s)	659
AclWI	GGATC	1 cut(s)	158
AcoI	YGGCCR	1 cut(s)	182
AcsI	RAATTY	1 cut(s)	239
AcyI	GRCGYC	1 cut(s)	537
AfaI	GTAC	1 cut(s)	318
AfiI	CCNNNNNNNGG	2 cut(s)	376, 484
AjnI	CCWGG	2 cut(s)	138, 578
AluBI	AGCT	6 cut(s)	54, 422, 556, 670, 700, 749
AluI	AGCT	6 cut(s)	54, 422, 556, 670, 700, 749
Alw21I	GWGCWC	1 cut(s)	596
AlwI	GGATC	1 cut(s)	158
AoxI	GGCC	1 cut(s)	182
ApeKI	GCWGC	3 cut(s)	210, 656, 670
ApoI	RAATTY	1 cut(s)	239
AspLEI	GCGC	1 cut(s)	539
AsuHPI	GGTGA	1 cut(s)	413
BaeGI	GKGCMC	1 cut(s)	716
BalI	TGGCCA	1 cut(s)	184
BanI	GGYRCC	1 cut(s)	536
Bbv12I	GWGCWC	1 cut(s)	596
BbvI	GCAGC	3 cut(s)	222, 657, 668
BccI	CCATC	3 cut(s)	83, 378, 450
BciT130I	CCWGG	2 cut(s)	140, 580
BfaI	CTAG	1 cut(s)	236
BfmI	CTRYAG	2 cut(s)	557, 634
BfoI	RGCGCY	1 cut(s)	540
BisI	GCNGC	3 cut(s)	211, 657, 671
BlsI	GCNGC	3 cut(s)	212, 658, 672
Bme1390I	CCNGG	2 cut(s)	140, 580
BmiI	GGNNCC	1 cut(s)	538
BmrFI	CCNGG	2 cut(s)	140, 580
BmsI	GCATC	4 cut(s)	84, 134, 260, 673
BsaAI	YACGTR	1 cut(s)	320
BsaHI	GRCGYC	1 cut(s)	537
BsaJI	CCNNGG	1 cut(s)	139
Bsc4I	CCNNNNNNNGG	2 cut(s)	376, 484
Bse3DI	GCAATG	1 cut(s)	211
BseBI	CCWGG	2 cut(s)	140, 580
BseDI	CCNNGG	1 cut(s)	139
BseGI	GGATG	6 cut(s)	79, 99, 149, 275, 442, 688
BseLI	CCNNNNNNNGG	2 cut(s)	376, 484
BseMI	GCAATG	1 cut(s)	211
BseMII	CTCAG	1 cut(s)	162
BseRI	GAGGAG	1 cut(s)	411
BseSI	GKGCMC	1 cut(s)	716
BseXI	GCAGC	3 cut(s)	222, 657, 668
BshFI	GGCC	1 cut(s)	184
BshNI	GGYRCC	1 cut(s)	536
BsiHKAI	GWGCWC	1 cut(s)	596
BslI	CCNNNNNNNGG	2 cut(s)	376, 484
BsmI	GAATGC	2 cut(s)	468, 505
BsnI	GGCC	1 cut(s)	184
Bsp1286I	GDGCHC	2 cut(s)	596, 716
Bsp143I	GATC	1 cut(s)	163
BspACI	CCGC	1 cut(s)	659
BspANI	GGCC	1 cut(s)	184
BspCNI	CTCAG	1 cut(s)	161
BspLI	GGNNCC	1 cut(s)	538
BspMAI	CTGCAG	1 cut(s)	638
BspPI	GGATC	1 cut(s)	158
BspT107I	GGYRCC	1 cut(s)	536
BsrDI	GCAATG	1 cut(s)	211
BssECI	CCNNGG	1 cut(s)	139
BssMI	GATC	1 cut(s)	163
BssNI	GRCGYC	1 cut(s)	537
Bst2UI	CCWGG	2 cut(s)	140, 580
BstACI	GRCGYC	1 cut(s)	537
BstBAI	YACGTR	1 cut(s)	320
BstDEI	CTNAG	3 cut(s)	148, 423, 588
BstF5I	GGATG	6 cut(s)	79, 99, 149, 275, 442, 688
BstH2I	RGCGCY	1 cut(s)	540
BstHHI	GCGC	1 cut(s)	539
BstKTI	GATC	1 cut(s)	166
BstMBI	GATC	1 cut(s)	163
BstMWI	GCNNNNNNNGC	3 cut(s)	210, 536, 543
BstNI	CCWGG	2 cut(s)	140, 580
BstSCI	CCNGG	2 cut(s)	138, 578
BstSFI	CTRYAG	2 cut(s)	557, 634
BstSLI	GKGCMC	1 cut(s)	716
BstSNI	TACGTA	1 cut(s)	320
BstV1I	GCAGC	3 cut(s)	222, 657, 668
BsuRI	GGCC	1 cut(s)	184
BtsCI	GGATG	6 cut(s)	79, 99, 149, 275, 442, 688
BtsI	GCAGTG	2 cut(s)	34, 643
BtsIMutI	CAGTG	3 cut(s)	34, 159, 643
CfoI	GCGC	1 cut(s)	539
CsiI	ACCWGGT	1 cut(s)	578
Csp6I	GTAC	1 cut(s)	317
CviAII	CATG	2 cut(s)	447, 610
CviQI	GTAC	1 cut(s)	317
DdeI	CTNAG	3 cut(s)	148, 423, 588
DinI	GGCGCC	1 cut(s)	538
DpnI	GATC	1 cut(s)	165
DpnII	GATC	1 cut(s)	163
EaeI	YGGCCR	1 cut(s)	182
Eco105I	TACGTA	1 cut(s)	320
EcoRII	CCWGG	2 cut(s)	138, 578
EcoT22I	ATGCAT	1 cut(s)	611
EgeI	GGCGCC	1 cut(s)	538
EheI	GGCGCC	1 cut(s)	538
FaeI	CATG	2 cut(s)	450, 613
FaiI	YATR	9 cut(s)	114, 129, 179, 278, 448, 607, 611, 624, 740
FatI	CATG	2 cut(s)	446, 609
FblI	GTMKAC	1 cut(s)	600
Fnu4HI	GCNGC	3 cut(s)	211, 657, 671
FokI	GGATG	6 cut(s)	86, 106, 156, 282, 429, 695
Fsp4HI	GCNGC	3 cut(s)	211, 657, 671
FspBI	CTAG	1 cut(s)	236
GlaI	GCGC	1 cut(s)	538
GluI	GCNGC	3 cut(s)	211, 657, 671
HaeII	RGCGCY	1 cut(s)	540
HaeIII	GGCC	1 cut(s)	184
HhaI	GCGC	1 cut(s)	539
Hin1I	GRCGYC	1 cut(s)	537
Hin1II	CATG	2 cut(s)	450, 613
Hin6I	GCGC	1 cut(s)	537
HinP1I	GCGC	1 cut(s)	537
HindIII	AAGCTT	1 cut(s)	52
HinfI	GANTC	3 cut(s)	302, 380, 562
HphI	GGTGA	1 cut(s)	413
Hpy166II	GTNNAC	2 cut(s)	601, 736
Hpy188I	TCNGA	3 cut(s)	168, 461, 746
Hpy188III	TCNNGA	2 cut(s)	83, 374
Hpy8I	GTNNAC	2 cut(s)	601, 736
HpyAV	CCTTC	1 cut(s)	101
HpyCH4IV	ACGT	1 cut(s)	319
HpyCH4V	TGCA	8 cut(s)	466, 503, 530, 609, 626, 636, 656, 673
HpyF10VI	GCNNNNNNNGC	3 cut(s)	210, 536, 543
HpyF3I	CTNAG	3 cut(s)	148, 423, 588
HpySE526I	ACGT	1 cut(s)	319
Hsp92I	GRCGYC	1 cut(s)	537
Hsp92II	CATG	2 cut(s)	450, 613
HspAI	GCGC	1 cut(s)	537
KasI	GGCGCC	1 cut(s)	536
Kzo9I	GATC	1 cut(s)	163
LmnI	GCTCC	2 cut(s)	201, 697
LpnPI	CCDG	7 cut(s)	125, 152, 291, 491, 519, 565, 592
Lsp1109I	GCAGC	3 cut(s)	222, 657, 668
LweI	GCATC	4 cut(s)	84, 134, 260, 673
MabI	ACCWGGT	1 cut(s)	578
MaeI	CTAG	1 cut(s)	236
MaeII	ACGT	1 cut(s)	319
MalI	GATC	1 cut(s)	165
MboI	GATC	1 cut(s)	163
MboII	GAAGA	3 cut(s)	49, 98, 143
MhlI	GDGCHC	2 cut(s)	596, 716
MlsI	TGGCCA	1 cut(s)	184
MluCI	AATT	4 cut(s)	102, 239, 494, 751
MluNI	TGGCCA	1 cut(s)	184
Mly113I	GGCGCC	1 cut(s)	537
MmeI	TCCRAC	4 cut(s)	321, 462, 623, 675
Mox20I	TGGCCA	1 cut(s)	184
Mph1103I	ATGCAT	1 cut(s)	611
MscI	TGGCCA	1 cut(s)	184
MseI	TTAA	2 cut(s)	482, 754
Msp20I	TGGCCA	1 cut(s)	184
MspA1I	CMGCKG	1 cut(s)	659
MspR9I	CCNGG	2 cut(s)	140, 580
Mva1269I	GAATGC	2 cut(s)	468, 505
MvaI	CCWGG	2 cut(s)	140, 580
MwoI	GCNNNNNNNGC	3 cut(s)	210, 536, 543
NarI	GGCGCC	1 cut(s)	537
NdeII	GATC	1 cut(s)	163
NlaIII	CATG	2 cut(s)	450, 613
NlaIV	GGNNCC	1 cut(s)	538
NsiI	ATGCAT	1 cut(s)	611
PctI	GAATGC	2 cut(s)	468, 505
PfeI	GAWTC	3 cut(s)	302, 380, 562
PkrI	GCNGC	3 cut(s)	212, 658, 672
PluTI	GGCGCC	1 cut(s)	540
Ppu21I	YACGTR	1 cut(s)	320
Psp6I	CCWGG	2 cut(s)	138, 578
PspGI	CCWGG	2 cut(s)	138, 578
PspN4I	GGNNCC	1 cut(s)	538
PstI	CTGCAG	1 cut(s)	638
RsaI	GTAC	1 cut(s)	318
RsaNI	GTAC	1 cut(s)	317
SaqAI	TTAA	2 cut(s)	482, 754
SatI	GCNGC	3 cut(s)	211, 657, 671
Sau3AI	GATC	1 cut(s)	163
ScrFI	CCNGG	2 cut(s)	140, 580
SduI	GDGCHC	2 cut(s)	596, 716
SexAI	ACCWGGT	1 cut(s)	578
SfaNI	GCATC	4 cut(s)	84, 134, 260, 673
SfcI	CTRYAG	2 cut(s)	557, 634
SfoI	GGCGCC	1 cut(s)	538
SnaBI	TACGTA	1 cut(s)	320
Sse9I	AATT	4 cut(s)	102, 239, 494, 751
SsiI	CCGC	1 cut(s)	659
SspDI	GGCGCC	1 cut(s)	536
SspMI	CTAG	1 cut(s)	236
StyD4I	CCNGG	2 cut(s)	138, 578
TaiI	ACGT	1 cut(s)	322
TaqI	TCGA	2 cut(s)	11, 300
TasI	AATT	4 cut(s)	102, 239, 494, 751
TfiI	GAWTC	3 cut(s)	302, 380, 562
Tru1I	TTAA	2 cut(s)	482, 754
Tru9I	TTAA	2 cut(s)	482, 754
TscAI	CASTG	3 cut(s)	34, 166, 643
TseI	GCWGC	3 cut(s)	210, 656, 670
TspDTI	ATGAA	5 cut(s)	144, 265, 420, 531, 626
TspRI	CASTG	3 cut(s)	34, 166, 643
XapI	RAATTY	1 cut(s)	239
XmiI	GTMKAC	1 cut(s)	600
XspI	CTAG	1 cut(s)	236
Zsp2I	ATGCAT	1 cut(s)	611

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