Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0009968

Physical Location & Seq

Genomic Coordinates Forward (+)

45369875 .. 45371506

Gene Structure 1632 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG323400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 801 bp

ATGATAATTCATTTGCAAGCTTTATTGGGTAACAAATGGGCAGCTATAGCTTCTTACCTCCCACAAAGAACAGACAATGATATAAAGAATTACTGGAACACCCACTTGAAGAAGAAGCTCAAGAAGATTCAGTCAGCTGTTGATCATCATCAGCAGCAGCAACCTCAGGCTCAAAATAATATATTGGGATCATCTATATCAGACTCGACAACAAGTAATTCTACTCATCATCAATATCCTCACAGGAATAATGTCAATGACATCACAAGCCATGCCTCGACAACAACTCTCAGTCTCAGGTCCATAAACCAGTCCTCCTCCTCCTCCTCCGGTGGTATATATGCCTCCAGCACCGAGAACATTTCGCGACTTCTTGAAGGATGGATGAGAACCTCGCCAAAGAGTACTTACGCTAACCTTGTAACCAAACCATCTCATGATCGTGAAGAAAACCCAAAAGGTGGCCAAGACCAAGATGAAGGCTGTGATCATGATCTTTTATCTCATGAAGCATTCCAATCGATTTTGTCCTTCGACAACTTGAATAATGTTAATGCTGCTTCCTGGGACAGGTCTAGTACTACTAATTGTGATTCTAGTTCTATCAAGCAGGTGTCTCAAACCCAATGTAGTACTGCAGCTGCCATTGCAAATGAGAAGGATAAGCACATTATTAGAGCCTGTGAAAGCACGAACACTCCTCCATTATCATTTCTTGAGAAATGGCTTCTGGATGAAAGTGCTGCTGGACAAGTACTAGAGGATCGAATGATGGAATTGTCTCCAATTTCCCTGGTGTGA

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

Myb_DNA-binding

Protein Analysis

266

Amino Acids

29.45

Weight (kDa)

6.16

Isoelectric Point (pI)

53.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	2 - 36	1.4e-10	Myb-like DNA-binding domain
Myb_DNA-bind_6	PF13921	3 - 43	3.2e-06	Myb-like 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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0009968)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08810 AT1G08810 AT1G08810
fragaria_vesca	FvH4_1g29710
malus_domestica	MD12G1013900.v1.1 MD14G1011400.v1.1
prunus_persica	Prupe.7G018400_v2.0.a1
pyrus_communis	pycom12g01150 pycom14g01010
rosa_chinensis	RchiOBHm_Chr3g0495721
rosa_laevigata	RLG00000022592
rosa_multiflora	Rmu_sc0005750.1_g000003 Rmu_sc0038059.1_g000001
rosa_roxburghii	Rroxscaffold_6G00390080
rosa_rugosa	Rorug03G0275800 Rorug03G0275900
rosa_samantha	Rh3AG323400 Rh3BG358900 Rh3CG355500 Rh3DG358700
rosa_wichuraiana	Rw3G028260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	601
Acc36I	ACCTGC	1 cut(s)	601
AccB7I	CCANNNNNTGG	1 cut(s)	461
AccII	CGCG	1 cut(s)	367
AclWI	GGATC	2 cut(s)	196, 771
AcoI	YGGCCR	1 cut(s)	463
AfaI	GTAC	4 cut(s)	406, 580, 634, 756
AfiI	CCNNNNNNNGG	2 cut(s)	461, 570
AgsI	TTSAA	3 cut(s)	109, 377, 544
AjnI	CCWGG	2 cut(s)	563, 792
AluBI	AGCT	6 cut(s)	20, 44, 50, 118, 137, 641
AluI	AGCT	6 cut(s)	20, 44, 50, 118, 137, 641
Alw26I	GTCTC	3 cut(s)	299, 621, 786
AlwI	GGATC	2 cut(s)	196, 771
AoxI	GGCC	1 cut(s)	463
ApeKI	GCWGC	7 cut(s)	41, 154, 157, 557, 638, 641, 743
AspS9I	GGNCC	1 cut(s)	300
AvaII	GGWCC	1 cut(s)	300
AxyI	CCTNAGG	1 cut(s)	165
BalI	TGGCCA	1 cut(s)	465
BbvI	GCAGC	7 cut(s)	53, 166, 169, 544, 628, 650, 730
BccI	CCATC	3 cut(s)	375, 439, 766
BcgI	CGANNNNNNTGC	2 cut(s)	501, 535
BciT130I	CCWGG	2 cut(s)	565, 794
BclI	TGATCA	2 cut(s)	142, 487
BcoDI	GTCTC	3 cut(s)	299, 621, 786
BfaI	CTAG	3 cut(s)	576, 597, 758
BfmI	CTRYAG	2 cut(s)	45, 636
BfuAI	ACCTGC	1 cut(s)	601
BisI	GCNGC	7 cut(s)	42, 155, 158, 558, 639, 642, 744
BlsI	GCNGC	7 cut(s)	43, 156, 159, 559, 640, 643, 745
BmcAI	AGTACT	4 cut(s)	406, 580, 634, 756
Bme1390I	CCNGG	2 cut(s)	565, 794
Bme18I	GGWCC	1 cut(s)	300
BmgT120I	GGNCC	1 cut(s)	300
BmrFI	CCNGG	2 cut(s)	565, 794
BpmI	CTGGAG	1 cut(s)	331
BpuEI	CTTGAG	2 cut(s)	104, 737
Bsa29I	ATCGAT	1 cut(s)	521
BsaBI	GATNNNNATC	2 cut(s)	147, 492
BsaJI	CCNNGG	2 cut(s)	564, 792
BsaWI	WCCGGW	1 cut(s)	329
BsaXI	ACNNNNNCTCC	4 cut(s)	299, 329, 682, 712
Bsc4I	CCNNNNNNNGG	2 cut(s)	461, 570
Bse1I	ACTGG	2 cut(s)	98, 310
Bse21I	CCTNAGG	1 cut(s)	165
Bse3DI	GCAATG	1 cut(s)	645
Bse8I	GATNNNNATC	2 cut(s)	147, 492
BseBI	CCWGG	2 cut(s)	565, 794
BseCI	ATCGAT	1 cut(s)	521
BseDI	CCNNGG	2 cut(s)	564, 792
BseGI	GGATG	3 cut(s)	386, 390, 739
BseJI	GATNNNNATC	2 cut(s)	147, 492
BseLI	CCNNNNNNNGG	2 cut(s)	461, 570
BseMI	GCAATG	1 cut(s)	645
BseMII	CTCAG	3 cut(s)	179, 304, 310
BseNI	ACTGG	2 cut(s)	98, 310
BseRI	GAGGAG	5 cut(s)	307, 310, 313, 316, 690
BseXI	GCAGC	7 cut(s)	53, 166, 169, 544, 628, 650, 730
Bsh1236I	CGCG	1 cut(s)	367
BshFI	GGCC	1 cut(s)	465
BshVI	ATCGAT	1 cut(s)	521
BsiSI	CCGG	1 cut(s)	330
BslFI	GGGAC	1 cut(s)	581
BslI	CCNNNNNNNGG	2 cut(s)	461, 570
BsmAI	GTCTC	3 cut(s)	299, 621, 786
BsmFI	GGGAC	1 cut(s)	581
BsmI	GAATGC	1 cut(s)	512
BsnI	GGCC	1 cut(s)	465
Bsp143I	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
Bsp68I	TCGCGA	1 cut(s)	367
BspANI	GGCC	1 cut(s)	465
BspCNI	CTCAG	3 cut(s)	178, 303, 309
BspDI	ATCGAT	1 cut(s)	521
BspFNI	CGCG	1 cut(s)	367
BspHI	TCATGA	3 cut(s)	436, 490, 505
BspMAI	CTGCAG	1 cut(s)	640
BspMI	ACCTGC	1 cut(s)	601
BspPI	GGATC	2 cut(s)	196, 771
BsrDI	GCAATG	1 cut(s)	645
BsrI	ACTGG	2 cut(s)	98, 310
BssECI	CCNNGG	2 cut(s)	564, 792
BssMI	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
Bst2UI	CCWGG	2 cut(s)	565, 794
BstC8I	GCNNGC	1 cut(s)	18
BstDEI	CTNAG	3 cut(s)	165, 290, 296
BstENI	CCTNNNNNAGG	1 cut(s)	568
BstF5I	GGATG	3 cut(s)	386, 390, 739
BstFNI	CGCG	1 cut(s)	367
BstKTI	GATC	6 cut(s)	145, 191, 442, 490, 496, 766
BstMAI	GTCTC	3 cut(s)	299, 621, 786
BstMBI	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
BstMWI	GCNNNNNNNGC	2 cut(s)	47, 647
BstNI	CCWGG	2 cut(s)	565, 794
BstSCI	CCNGG	2 cut(s)	563, 792
BstSFI	CTRYAG	2 cut(s)	45, 636
BstUI	CGCG	1 cut(s)	367
BstV1I	GCAGC	7 cut(s)	53, 166, 169, 544, 628, 650, 730
Bsu15I	ATCGAT	1 cut(s)	521
Bsu36I	CCTNAGG	1 cut(s)	165
BsuRI	GGCC	1 cut(s)	465
BsuTUI	ATCGAT	1 cut(s)	521
BtsCI	GGATG	3 cut(s)	386, 390, 739
BtuMI	TCGCGA	1 cut(s)	367
BveI	ACCTGC	1 cut(s)	601
Cac8I	GCNNGC	1 cut(s)	18
CciI	TCATGA	3 cut(s)	436, 490, 505
Cfr13I	GGNCC	1 cut(s)	300
ClaI	ATCGAT	1 cut(s)	521
Csp6I	GTAC	4 cut(s)	405, 579, 633, 755
CviAII	CATG	4 cut(s)	272, 437, 491, 506
CviQI	GTAC	4 cut(s)	405, 579, 633, 755
DdeI	CTNAG	3 cut(s)	165, 290, 296
DpnI	GATC	6 cut(s)	144, 190, 441, 489, 495, 765
DpnII	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
EaeI	YGGCCR	1 cut(s)	463
Eco47I	GGWCC	1 cut(s)	300
Eco81I	CCTNAGG	1 cut(s)	165
EcoNI	CCTNNNNNAGG	1 cut(s)	568
EcoRII	CCWGG	2 cut(s)	563, 792
FaeI	CATG	4 cut(s)	275, 440, 494, 509
FaqI	GGGAC	1 cut(s)	581
FatI	CATG	4 cut(s)	271, 436, 490, 505
FbaI	TGATCA	2 cut(s)	142, 487
Fnu4HI	GCNGC	7 cut(s)	42, 155, 158, 558, 639, 642, 744
FokI	GGATG	3 cut(s)	393, 397, 746
Fsp4HI	GCNGC	7 cut(s)	42, 155, 158, 558, 639, 642, 744
FspBI	CTAG	3 cut(s)	576, 597, 758
GluI	GCNGC	7 cut(s)	42, 155, 158, 558, 639, 642, 744
GsuI	CTGGAG	1 cut(s)	331
HaeIII	GGCC	1 cut(s)	465
HapII	CCGG	1 cut(s)	330
Hin1II	CATG	4 cut(s)	275, 440, 494, 509
HindIII	AAGCTT	1 cut(s)	18
HinfI	GANTC	3 cut(s)	127, 203, 593
HpaII	CCGG	1 cut(s)	330
Hpy188I	TCNGA	1 cut(s)	202
Hpy188III	TCNNGA	9 cut(s)	121, 366, 374, 437, 443, 491, 506, 716, 731
HpyAV	CCTTC	4 cut(s)	371, 473, 541, 652
HpyCH4V	TGCA	3 cut(s)	16, 638, 650
HpyF10VI	GCNNNNNNNGC	2 cut(s)	47, 647
HpyF3I	CTNAG	3 cut(s)	165, 290, 296
Hsp92II	CATG	4 cut(s)	275, 440, 494, 509
Ksp22I	TGATCA	2 cut(s)	142, 487
Kzo9I	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
Lsp1109I	GCAGC	7 cut(s)	53, 166, 169, 544, 628, 650, 730
MaeI	CTAG	3 cut(s)	576, 597, 758
MaeIII	GTNAC	2 cut(s)	29, 421
MalI	GATC	6 cut(s)	144, 190, 441, 489, 495, 765
MboI	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
MboII	GAAGA	4 cut(s)	121, 124, 136, 458
MlsI	TGGCCA	1 cut(s)	465
MluCI	AATT	6 cut(s)	6, 88, 217, 586, 776, 786
MluNI	TGGCCA	1 cut(s)	465
MlyI	GAGTC	1 cut(s)	197
Mox20I	TGGCCA	1 cut(s)	465
MscI	TGGCCA	1 cut(s)	465
MseI	TTAA	1 cut(s)	552
MslI	CAYNNNNRTG	1 cut(s)	441
Msp20I	TGGCCA	1 cut(s)	465
MspA1I	CMGCKG	2 cut(s)	137, 641
MspI	CCGG	1 cut(s)	330
MspR9I	CCNGG	2 cut(s)	565, 794
Mva1269I	GAATGC	1 cut(s)	512
MvaI	CCWGG	2 cut(s)	565, 794
MvnI	CGCG	1 cut(s)	367
MwoI	GCNNNNNNNGC	2 cut(s)	47, 647
NdeII	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
NlaIII	CATG	4 cut(s)	275, 440, 494, 509
NruI	TCGCGA	1 cut(s)	367
PagI	TCATGA	3 cut(s)	436, 490, 505
PaqCI	CACCTGC	1 cut(s)	601
PctI	GAATGC	1 cut(s)	512
PfeI	GAWTC	2 cut(s)	127, 593
PflMI	CCANNNNNTGG	1 cut(s)	461
PkrI	GCNGC	7 cut(s)	43, 156, 159, 559, 640, 643, 745
PleI	GAGTC	1 cut(s)	197
PpsI	GAGTC	1 cut(s)	197
Psp6I	CCWGG	2 cut(s)	563, 792
PspGI	CCWGG	2 cut(s)	563, 792
PspPI	GGNCC	1 cut(s)	300
PstI	CTGCAG	1 cut(s)	640
PvuII	CAGCTG	2 cut(s)	137, 641
RruI	TCGCGA	1 cut(s)	367
RsaI	GTAC	4 cut(s)	406, 580, 634, 756
RsaNI	GTAC	4 cut(s)	405, 579, 633, 755
RseI	CAYNNNNRTG	1 cut(s)	441
SaqAI	TTAA	1 cut(s)	552
SatI	GCNGC	7 cut(s)	42, 155, 158, 558, 639, 642, 744
Sau3AI	GATC	6 cut(s)	142, 188, 439, 487, 493, 763
Sau96I	GGNCC	1 cut(s)	300
ScaI	AGTACT	4 cut(s)	406, 580, 634, 756
SchI	GAGTC	1 cut(s)	197
ScrFI	CCNGG	2 cut(s)	565, 794
SfcI	CTRYAG	2 cut(s)	45, 636
SinI	GGWCC	1 cut(s)	300
SmiMI	CAYNNNNRTG	1 cut(s)	441
SmlI	CTYRAG	2 cut(s)	119, 716
SmoI	CTYRAG	2 cut(s)	119, 716
Sse9I	AATT	6 cut(s)	6, 88, 217, 586, 776, 786
SspMI	CTAG	3 cut(s)	576, 597, 758
StyD4I	CCNGG	2 cut(s)	563, 792
TaqI	TCGA	5 cut(s)	206, 278, 521, 534, 766
TasI	AATT	6 cut(s)	6, 88, 217, 586, 776, 786
TatI	WGTACW	4 cut(s)	404, 578, 632, 754
TfiI	GAWTC	2 cut(s)	127, 593
Tru1I	TTAA	1 cut(s)	552
Tru9I	TTAA	1 cut(s)	552
TseI	GCWGC	7 cut(s)	41, 154, 157, 557, 638, 641, 743
TspDTI	ATGAA	3 cut(s)	492, 522, 750
Van91I	CCANNNNNTGG	1 cut(s)	461
VpaK11BI	GGWCC	1 cut(s)	300
XagI	CCTNNNNNAGG	1 cut(s)	568
XspI	CTAG	3 cut(s)	576, 597, 758
ZrmI	AGTACT	4 cut(s)	406, 580, 634, 756

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