Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001154

Physical Location & Seq

Genomic Coordinates Reverse (-)

228763 .. 233403

Gene Structure 4641 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG003400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 915 bp

ATGGATTTGCAAGCAAACTCAAGATCCTCAACTGCTAGAAGTGGAAGAAATAAAGAGAAGCAACCATCACACACCTGGACCCCTATTGAAGATGTAGCTCTAGTTGAGGCTTTGACTGAACTTTGTGTTTCTGGGGTATGGAAGGTTGACAATGGATTCAAGGCAGGATATTTGGGACAACTAGAAAAAATTATAGAGCAAAAGCTACCAAATTGTGGATTAAAGGCGAATCCCCACATTGAGTCTTGTGTTAAGACACTAAAGAAACAAACACTTGCAATCTCTAACATGATTGCTAACTCCAGTGGCTTCTCATGGGACCATGAAAATAAAATGGTTGTTTGTGAAAAACAAGTTTATGACGATTGGGTTAAGGTTCACAAGGAAGCCAAAGGACTAAGACTTAAACCATTCATTCATTATGATAGTTTGGTGGAAGCTTTTAGGAGAGATAGAGCCAATGGGTTAGGAGCTGAAGGACCTGCAGAAGCTGATGAATATGTGAATAATGATAATGAATTTGTTGATCTTGAAGGACCTGCAGAAGCTGAAAATATTGTTCCTACACCTGCTACTCGTACAACTTCCTCTGCTTCTAATTCAACTCGGACTAGAAAGCGAGCAAGGGACGCTTATGCTCAATGCTTGGGAGACATGGCTAGCACACTTCACTCCTTTGTGGATGTGACCAAGACACACTTGGAGACTATGAAAGAAGTACTTTTGAATGACCATGCAGCATCTACAAAAAGAGGTAAACTTGTCGAAGAGCTTATGAAAATTGAAGGTTTGAATGATTATGATGTGCTTGAGGCTGCTGCTTTAATTATTGGCGATGACTCCAAAATTGAGCTCTTGTTTAGCTTACCTGACAATTTGAAGAGCCAATGGATTTACAAGCTTCTGAACCAGTAG

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

DDE_Tnp_4 Myb_DNA-bind_3

Protein Analysis

304

Amino Acids

33.89

Weight (kDa)

5.7

Isoelectric Point (pI)

43.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-bind_3	PF12776	25 - 121	3.1e-06	Myb/SANT-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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001154)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g08194
prunus_persica	Prupe.4G257700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0343671 RchiOBHm_Chr5g0072391 RchiOBHm_Chr6g0274461 RchiOBHm_Chr6g0284621
rosa_laevigata	RLG00000001201 RLG00000008793 RLG00000013285 RLG00000013580 RLG00000015412 RLG00000020159 RLG00000022735 RLG00000029912 RLG00000030782 RLG00000032954
rosa_multiflora	Rmu_sc0000233.1_g000006 Rmu_sc0001240.1_g000006 Rmu_sc0002352.1_g000014 Rmu_sc0003882.1_g000036 Rmu_sc0004016.1_g000017 Rmu_sc0004698.1_g000002 Rmu_sc0006651.1_g000003 Rmu_sc0009984.1_g000002 Rmu_sc0010945.1_g000001
rosa_roxburghii	Rroxscaffold_2G00083960 Rroxscaffold_2G00137540 Rroxscaffold_2G00137550 Rroxscaffold_3G00226540 Rroxscaffold_3G00276350 Rroxscaffold_7G00175350
rosa_rugosa	Rorug02G0052000 Rorug04G0314300 Rorug05G0057300 Rorug06G0033500
rosa_samantha	Rh1CG381500 Rh2DG003400 Rh3BG333400 Rh4AG123000 Rh4AG311600 Rh4AG339700 Rh4CG303900 Rh4CG334100 Rh5AG318400 Rh5BG324000 Rh6AG407700 Rh6BG340400 Rh7AG126300 Rh7CG042400 Rh7CG042500 Rh7CG154400 Rh7CG166300 Rh7CG315500
rosa_wichuraiana	Rw5G010820 Rw5G026590 Rw6G003280 Rw6G021230 Rw7G013220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	577
Acc36I	ACCTGC	3 cut(s)	490, 547, 577
AccB7I	CCANNNNNTGG	1 cut(s)	215
AclWI	GGATC	1 cut(s)	18
AcsI	RAATTY	1 cut(s)	518
AcuI	CTGAAG	1 cut(s)	495
AfaI	GTAC	2 cut(s)	580, 720
AfiI	CCNNNNNNNGG	1 cut(s)	215
AgsI	TTSAA	8 cut(s)	89, 160, 533, 603, 727, 785, 793, 880
AjnI	CCWGG	1 cut(s)	74
Alw21I	GWGCWC	1 cut(s)	855
Alw26I	GTCTC	2 cut(s)	645, 698
AlwI	GGATC	1 cut(s)	18
AlwNI	CAGNNNCTG	2 cut(s)	491, 548
ApeKI	GCWGC	3 cut(s)	737, 815, 818
ApoI	RAATTY	1 cut(s)	518
AspS9I	GGNCC	4 cut(s)	78, 319, 479, 536
AsuNHI	GCTAGC	1 cut(s)	659
AvaII	GGWCC	4 cut(s)	78, 319, 479, 536
BanII	GRGCYC	1 cut(s)	855
Bbv12I	GWGCWC	1 cut(s)	855
BbvI	GCAGC	3 cut(s)	749, 802, 805
BccI	CCATC	1 cut(s)	73
BciT130I	CCWGG	1 cut(s)	76
BcoDI	GTCTC	2 cut(s)	645, 698
BfaI	CTAG	5 cut(s)	36, 101, 182, 612, 660
BfmI	CTRYAG	2 cut(s)	483, 540
BfuAI	ACCTGC	3 cut(s)	490, 547, 577
BisI	GCNGC	3 cut(s)	738, 816, 819
BlsI	GCNGC	3 cut(s)	739, 817, 820
BmcAI	AGTACT	1 cut(s)	720
Bme1390I	CCNGG	1 cut(s)	76
Bme18I	GGWCC	4 cut(s)	78, 319, 479, 536
BmgT120I	GGNCC	4 cut(s)	78, 319, 479, 536
BmiI	GGNNCC	2 cut(s)	80, 320
BmrFI	CCNGG	1 cut(s)	76
BmsI	GCATC	1 cut(s)	749
BmtI	GCTAGC	1 cut(s)	663
BpmI	CTGGAG	1 cut(s)	286
BpuEI	CTTGAG	2 cut(s)	4, 830
Bsc4I	CCNNNNNNNGG	1 cut(s)	215
Bse1I	ACTGG	2 cut(s)	303, 910
BseBI	CCWGG	1 cut(s)	76
BseGI	GGATG	1 cut(s)	688
BseLI	CCNNNNNNNGG	1 cut(s)	215
BseNI	ACTGG	2 cut(s)	303, 910
BseXI	GCAGC	3 cut(s)	749, 802, 805
BsiHKAI	GWGCWC	1 cut(s)	855
BslFI	GGGAC	3 cut(s)	189, 332, 641
BslI	CCNNNNNNNGG	1 cut(s)	215
BsmAI	GTCTC	2 cut(s)	645, 698
BsmFI	GGGAC	3 cut(s)	189, 332, 641
Bsp1286I	GDGCHC	1 cut(s)	855
Bsp143I	GATC	2 cut(s)	23, 526
BspLI	GGNNCC	2 cut(s)	80, 320
BspMAI	CTGCAG	2 cut(s)	487, 544
BspMI	ACCTGC	3 cut(s)	490, 547, 577
BspOI	GCTAGC	1 cut(s)	663
BspPI	GGATC	1 cut(s)	18
BspQI	GCTCTTC	2 cut(s)	762, 875
BsrI	ACTGG	2 cut(s)	303, 910
BssMI	GATC	2 cut(s)	23, 526
Bst2UI	CCWGG	1 cut(s)	76
Bst6I	CTCTTC	2 cut(s)	762, 875
BstC8I	GCNNGC	3 cut(s)	12, 621, 661
BstDEI	CTNAG	1 cut(s)	398
BstF5I	GGATG	1 cut(s)	688
BstKTI	GATC	2 cut(s)	26, 529
BstMAI	GTCTC	2 cut(s)	645, 698
BstMBI	GATC	2 cut(s)	23, 526
BstMWI	GCNNNNNNNGC	1 cut(s)	629
BstNI	CCWGG	1 cut(s)	76
BstSCI	CCNGG	1 cut(s)	74
BstSFI	CTRYAG	2 cut(s)	483, 540
BstV1I	GCAGC	3 cut(s)	749, 802, 805
BstX2I	RGATCY	1 cut(s)	23
BstYI	RGATCY	1 cut(s)	23
BtgZI	GCGATG	1 cut(s)	849
BtsCI	GGATG	1 cut(s)	688
BtsIMutI	CAGTG	1 cut(s)	310
BveI	ACCTGC	3 cut(s)	490, 547, 577
Cac8I	GCNNGC	3 cut(s)	12, 621, 661
CaiI	CAGNNNCTG	2 cut(s)	491, 548
Cfr13I	GGNCC	4 cut(s)	78, 319, 479, 536
CseI	GACGC	1 cut(s)	638
Csp6I	GTAC	2 cut(s)	579, 719
CviAII	CATG	5 cut(s)	289, 315, 323, 655, 734
CviQI	GTAC	2 cut(s)	579, 719
DdeI	CTNAG	1 cut(s)	398
DpnI	GATC	2 cut(s)	25, 528
DpnII	GATC	2 cut(s)	23, 526
Eam1104I	CTCTTC	2 cut(s)	762, 875
EarI	CTCTTC	2 cut(s)	762, 875
Ecl136II	GAGCTC	1 cut(s)	853
Eco24I	GRGCYC	1 cut(s)	855
Eco47I	GGWCC	4 cut(s)	78, 319, 479, 536
Eco53kI	GAGCTC	1 cut(s)	853
Eco57I	CTGAAG	1 cut(s)	495
EcoICRI	GAGCTC	1 cut(s)	853
EcoO109I	RGGNCCY	2 cut(s)	479, 536
EcoRII	CCWGG	1 cut(s)	74
EcoT38I	GRGCYC	1 cut(s)	855
FaeI	CATG	5 cut(s)	292, 318, 326, 658, 737
FalI	AAGNNNNNCTT	6 cut(s)	616, 648, 683, 715, 705, 737
FaqI	GGGAC	3 cut(s)	189, 332, 641
FatI	CATG	5 cut(s)	288, 314, 322, 654, 733
Fnu4HI	GCNGC	3 cut(s)	738, 816, 819
FokI	GGATG	1 cut(s)	695
FriOI	GRGCYC	1 cut(s)	855
Fsp4HI	GCNGC	3 cut(s)	738, 816, 819
FspBI	CTAG	5 cut(s)	36, 101, 182, 612, 660
GluI	GCNGC	3 cut(s)	738, 816, 819
GsuI	CTGGAG	1 cut(s)	286
HgaI	GACGC	1 cut(s)	638
Hin1II	CATG	5 cut(s)	292, 318, 326, 658, 737
HincII	GTYRAC	1 cut(s)	148
HindII	GTYRAC	1 cut(s)	148
HindIII	AAGCTT	2 cut(s)	438, 899
HinfI	GANTC	4 cut(s)	156, 229, 242, 839
Hpy166II	GTNNAC	3 cut(s)	148, 379, 758
Hpy188I	TCNGA	2 cut(s)	609, 906
Hpy188III	TCNNGA	2 cut(s)	21, 530
Hpy8I	GTNNAC	3 cut(s)	148, 379, 758
HpyAV	CCTTC	4 cut(s)	136, 470, 527, 779
HpyCH4V	TGCA	5 cut(s)	10, 278, 485, 542, 737
HpyF10VI	GCNNNNNNNGC	1 cut(s)	629
HpyF3I	CTNAG	1 cut(s)	398
Hsp92II	CATG	5 cut(s)	292, 318, 326, 658, 737
Kzo9I	GATC	2 cut(s)	23, 526
LguI	GCTCTTC	2 cut(s)	762, 875
LmnI	GCTCC	1 cut(s)	470
LpnPI	CCDG	9 cut(s)	61, 88, 117, 150, 316, 495, 552, 582, 882
Lsp1109I	GCAGC	3 cut(s)	749, 802, 805
LweI	GCATC	1 cut(s)	749
MaeI	CTAG	5 cut(s)	36, 101, 182, 612, 660
MaeIII	GTNAC	1 cut(s)	685
MalI	GATC	2 cut(s)	25, 528
MboI	GATC	2 cut(s)	23, 526
MboII	GAAGA	4 cut(s)	57, 101, 779, 892
MflI	RGATCY	1 cut(s)	23
MhlI	GDGCHC	1 cut(s)	855
MluCI	AATT	8 cut(s)	189, 211, 518, 598, 780, 825, 846, 874
MlyI	GAGTC	2 cut(s)	251, 833
MnlI	CCTC	5 cut(s)	37, 100, 598, 746, 805
MseI	TTAA	5 cut(s)	221, 252, 372, 405, 824
MspR9I	CCNGG	1 cut(s)	76
MvaI	CCWGG	1 cut(s)	76
MwoI	GCNNNNNNNGC	1 cut(s)	629
NdeII	GATC	2 cut(s)	23, 526
NheI	GCTAGC	1 cut(s)	659
NlaIII	CATG	5 cut(s)	292, 318, 326, 658, 737
NlaIV	GGNNCC	2 cut(s)	80, 320
NmuCI	GTSAC	1 cut(s)	685
PaqCI	CACCTGC	1 cut(s)	577
PciSI	GCTCTTC	2 cut(s)	762, 875
PfeI	GAWTC	2 cut(s)	156, 229
PflMI	CCANNNNNTGG	1 cut(s)	215
PkrI	GCNGC	3 cut(s)	739, 817, 820
PleI	GAGTC	2 cut(s)	250, 833
PpsI	GAGTC	2 cut(s)	250, 833
PpuMI	RGGWCCY	2 cut(s)	479, 536
Psp124BI	GAGCTC	1 cut(s)	855
Psp5II	RGGWCCY	2 cut(s)	479, 536
Psp6I	CCWGG	1 cut(s)	74
PspGI	CCWGG	1 cut(s)	74
PspN4I	GGNNCC	2 cut(s)	80, 320
PspPI	GGNCC	4 cut(s)	78, 319, 479, 536
PspPPI	RGGWCCY	2 cut(s)	479, 536
PstI	CTGCAG	2 cut(s)	487, 544
PstNI	CAGNNNCTG	2 cut(s)	491, 548
PsuI	RGATCY	1 cut(s)	23
RsaI	GTAC	2 cut(s)	580, 720
RsaNI	GTAC	2 cut(s)	579, 719
SacI	GAGCTC	1 cut(s)	855
SapI	GCTCTTC	2 cut(s)	762, 875
SaqAI	TTAA	5 cut(s)	221, 252, 372, 405, 824
SatI	GCNGC	3 cut(s)	738, 816, 819
Sau3AI	GATC	2 cut(s)	23, 526
Sau96I	GGNCC	4 cut(s)	78, 319, 479, 536
ScaI	AGTACT	1 cut(s)	720
SchI	GAGTC	2 cut(s)	251, 833
ScrFI	CCNGG	1 cut(s)	76
SduI	GDGCHC	1 cut(s)	855
SfaNI	GCATC	1 cut(s)	749
SfcI	CTRYAG	2 cut(s)	483, 540
SinI	GGWCC	4 cut(s)	78, 319, 479, 536
SmlI	CTYRAG	2 cut(s)	19, 809
SmoI	CTYRAG	2 cut(s)	19, 809
Sse9I	AATT	8 cut(s)	189, 211, 518, 598, 780, 825, 846, 874
SspI	AATATT	1 cut(s)	556
SspMI	CTAG	5 cut(s)	36, 101, 182, 612, 660
SstI	GAGCTC	1 cut(s)	855
StyD4I	CCNGG	1 cut(s)	74
TaqI	TCGA	1 cut(s)	765
TasI	AATT	8 cut(s)	189, 211, 518, 598, 780, 825, 846, 874
TatI	WGTACW	1 cut(s)	718
TfiI	GAWTC	2 cut(s)	156, 229
Tru1I	TTAA	5 cut(s)	221, 252, 372, 405, 824
Tru9I	TTAA	5 cut(s)	221, 252, 372, 405, 824
TscAI	CASTG	1 cut(s)	310
TseFI	GTSAC	1 cut(s)	685
TseI	GCWGC	3 cut(s)	737, 815, 818
Tsp45I	GTSAC	1 cut(s)	685
TspDTI	ATGAA	7 cut(s)	339, 403, 407, 510, 531, 725, 791
TspRI	CASTG	1 cut(s)	310
Van91I	CCANNNNNTGG	1 cut(s)	215
VpaK11BI	GGWCC	4 cut(s)	78, 319, 479, 536
XapI	RAATTY	1 cut(s)	518
XcmI	CCANNNNNNNNNTGG	2 cut(s)	72, 697
XspI	CTAG	5 cut(s)	36, 101, 182, 612, 660
ZrmI	AGTACT	1 cut(s)	720

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