Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0014130

Physical Location & Seq

Genomic Coordinates Forward (+)

3013511 .. 3016006

Gene Structure 2496 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG017900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 999 bp

ATGAGAAAGCCAGAGTTGTCCGTGGGAAAAGACGTAAAAGCGAACAGTAACAGCAAGAATAAGATGATGAATAATAAGCTCAGGAAGGGATTGTGGTCGCCGGAGGAAGACGAGAAGTTGATGAGGTACATGTTGAGCAATGGACAAGGGTGTTGGAGTGACATTGCTAGAAACTCTGGTCTCCAAAGGTGTGGAAAGAGTTGTCGTCTTCGTTGGATTAACTACTTGAGACCTGATCTCAAGCGTGGTGCATTTTCGCCTCAGGAAGAACACCTTATCATCCATTTTCATTCCATTCTTGGCAACAAGTGGTCACAGATTGCTGCACGTCTTCCAGGACGAACAGACAATGAAATCAAGAATTTTTGGAACTCTGCATTGAAAAAAAGGTTGAAAAATAACAACATTTCCACATCGGCATCTTCACCGAACGAGAGTGATCATTCGTCGGAGCCGAATGTCAATATTGGGGGAGCAACGCCATTTATCCCCATGCACAATGAACATGACATGTTGATGAGCATGATGTACATGGACTCATCATCGTCCTCATCCTCAGCATCCATGCAAGTCATCAACAACAGCACATTCGCTCCTAACTTCTCTGTGCTTGACAGTTCCTCTTTACTGAACTACGTGAATCACACAGGCTTGACACAGCTACCAGAAGCGCAGTATGGGGATTACGGAAATTACTTGGAGGCTGGTCATAAAATGGGGATAGAAGGTGATCTTTGTCTTCCTCATCTTGAGACTAGTAGAAGAAGTTTAATAGAGAAGAATAATGGTCAAGTAGTTGACAATCTAAGCAATAACAATATCAACCACTTCCATAATGATAACAATAATAATTGCTTTACTAACACGGCGAGTAATATGAGCTTTAAAGTAGATGACGGGGACATATTTGAGCAAGCTGAAGCTGGAGGAAGCTCAAGAGTTGGAGAAGAATGGGATTTTGAGGGTTTCATGCAAGATATATCCTGCTTTCTTTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000981 GO:0000988 GO:0000989 GO:0001067 GO:0001076 GO:0001101 GO:0001134 GO:0001135 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0006950 GO:0006952 GO:0008150 GO:0009605 GO:0009607 GO:0009620 GO:0009719 GO:0009725 GO:0009751 GO:0009832 GO:0009834 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0014070 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032502 GO:0042221 GO:0042493 GO:0042546 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044085 GO:0044087 GO:0044089 GO:0044212 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0046677 GO:0048518 GO:0048522 GO:0048869 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0071554 GO:0071669 GO:0071840 GO:0080090 GO:0097159 GO:0098542 GO:0140110 GO:1901348 GO:1901363 GO:1901700 GO:1902680 GO:1903338 GO:1903340 GO:1903506 GO:1903508 GO:2000112 GO:2000652 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_DNA-binding

Protein Analysis

332

Amino Acids

37.29

Weight (kDa)

6.13

Isoelectric Point (pI)

58.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	29 - 76	3.7e-14	Myb-like DNA-binding domain
Myb_DNA-bind_6	PF13921	32 - 91	8.1e-14	Myb-like DNA-binding domain
Myb_DNA-binding	PF00249	82 - 126	8.3e-16	Myb-like DNA-binding domain
Myb_DNA-bind_6	PF13921	85 - 138	8.8e-07	Myb-like DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Orthologous Genes (Group: OG0014130)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G08500
fragaria_vesca	FvH4_7g01020
malus_domestica	MD02G1312700.v1.1 MD07G1010500.v1.1
prunus_persica	Prupe.2G012800_v2.0.a1
pyrus_communis	pycom02g26240 pycom07g00860
rosa_chinensis	RchiOBHm_Chr1g0315931
rosa_laevigata	RLG00000030722
rosa_multiflora	Rmu_ssc0000154.1_g000025
rosa_roxburghii	Rroxscaffold_4G00331300
rosa_rugosa	Rorug01G0007100
rosa_samantha	Rh1AG017900 Rh1BG010900 Rh1CG015200 Rh1DG010900
rosa_wichuraiana	Rw1G001090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	361
AcuI	CTGAAG	1 cut(s)	939
AfaI	GTAC	2 cut(s)	128, 530
AflIII	ACRYGT	2 cut(s)	129, 510
AgsI	TTSAA	2 cut(s)	382, 394
AhlI	ACTAGT	1 cut(s)	755
AjiI	CACGTC	1 cut(s)	329
AjnI	CCWGG	1 cut(s)	334
AluBI	AGCT	6 cut(s)	79, 661, 882, 917, 923, 933
AluI	AGCT	6 cut(s)	79, 661, 882, 917, 923, 933
Alw26I	GTCTC	3 cut(s)	185, 223, 746
ApeKI	GCWGC	1 cut(s)	323
ApoI	RAATTY	1 cut(s)	361
AspLEI	GCGC	1 cut(s)	673
AsuHPI	GGTGA	2 cut(s)	417, 740
AxyI	CCTNAGG	1 cut(s)	261
BbsI	GAAGAC	4 cut(s)	114, 200, 323, 731
BbvCI	CCTCAGC	1 cut(s)	556
BbvI	GCAGC	1 cut(s)	310
BceAI	ACGGC	1 cut(s)	882
BciT130I	CCWGG	1 cut(s)	336
BclI	TGATCA	1 cut(s)	439
BcoDI	GTCTC	3 cut(s)	185, 223, 746
BcuI	ACTAGT	1 cut(s)	755
BfaI	CTAG	2 cut(s)	168, 756
BisI	GCNGC	1 cut(s)	324
BlsI	GCNGC	1 cut(s)	325
Bme1390I	CCNGG	1 cut(s)	336
BmgBI	CACGTC	1 cut(s)	329
BmiI	GGNNCC	1 cut(s)	453
BmrFI	CCNGG	1 cut(s)	336
BmsI	GCATC	2 cut(s)	428, 569
BpiI	GAAGAC	4 cut(s)	114, 200, 323, 731
BpmI	CTGGAG	1 cut(s)	945
Bpu10I	CCTNAGC	2 cut(s)	80, 556
BpuEI	CTTGAG	4 cut(s)	224, 247, 770, 919
BsaAI	YACGTR	1 cut(s)	637
BsaI	GGTCTC	2 cut(s)	185, 223
BsaJI	CCNNGG	1 cut(s)	21
BsaXI	ACNNNNNCTCC	2 cut(s)	577, 607
Bse21I	CCTNAGG	1 cut(s)	261
Bse3DI	GCAATG	2 cut(s)	145, 162
BseBI	CCWGG	1 cut(s)	336
BseDI	CCNNGG	1 cut(s)	21
BseGI	GGATG	3 cut(s)	279, 551, 560
BseMI	GCAATG	2 cut(s)	145, 162
BseMII	CTCAG	3 cut(s)	94, 275, 570
BseXI	GCAGC	1 cut(s)	310
BsgI	GTGCAG	1 cut(s)	309
BsiSI	CCGG	1 cut(s)	101
BslFI	GGGAC	1 cut(s)	914
BsmAI	GTCTC	3 cut(s)	185, 223, 746
BsmFI	GGGAC	1 cut(s)	914
Bso31I	GGTCTC	2 cut(s)	185, 223
Bsp1407I	TGTACA	1 cut(s)	528
Bsp143I	GATC	3 cut(s)	235, 439, 730
BspCNI	CTCAG	3 cut(s)	93, 274, 569
BspLI	GGNNCC	1 cut(s)	453
BspTNI	GGTCTC	2 cut(s)	185, 223
BsrDI	GCAATG	2 cut(s)	145, 162
BsrGI	TGTACA	1 cut(s)	528
BssECI	CCNNGG	1 cut(s)	21
BssMI	GATC	3 cut(s)	235, 439, 730
Bst2UI	CCWGG	1 cut(s)	336
Bst4CI	ACNGT	2 cut(s)	47, 617
BstAUI	TGTACA	1 cut(s)	528
BstBAI	YACGTR	1 cut(s)	637
BstC8I	GCNNGC	1 cut(s)	915
BstDEI	CTNAG	5 cut(s)	80, 261, 556, 806, 996
BstDSI	CCRYGG	1 cut(s)	21
BstF5I	GGATG	3 cut(s)	279, 551, 560
BstHHI	GCGC	1 cut(s)	673
BstKTI	GATC	3 cut(s)	238, 442, 733
BstMAI	GTCTC	3 cut(s)	185, 223, 746
BstMBI	GATC	3 cut(s)	235, 439, 730
BstNI	CCWGG	1 cut(s)	336
BstNSI	RCATGY	2 cut(s)	133, 514
BstSCI	CCNGG	1 cut(s)	334
BstV1I	GCAGC	1 cut(s)	310
BstV2I	GAAGAC	4 cut(s)	114, 200, 323, 731
BstXI	CCANNNNNNTGG	1 cut(s)	191
Bsu36I	CCTNAGG	1 cut(s)	261
BtgI	CCRYGG	1 cut(s)	21
BtrI	CACGTC	1 cut(s)	329
BtsCI	GGATG	3 cut(s)	279, 551, 560
Cac8I	GCNNGC	1 cut(s)	915
CfoI	GCGC	1 cut(s)	673
Csp6I	GTAC	2 cut(s)	127, 529
CviAII	CATG	8 cut(s)	130, 493, 506, 511, 523, 532, 565, 970
CviQI	GTAC	2 cut(s)	127, 529
DdeI	CTNAG	5 cut(s)	80, 261, 556, 806, 996
DpnI	GATC	3 cut(s)	237, 441, 732
DpnII	GATC	3 cut(s)	235, 439, 730
DraI	TTTAAA	1 cut(s)	886
Eco31I	GGTCTC	2 cut(s)	185, 223
Eco57I	CTGAAG	1 cut(s)	939
Eco81I	CCTNAGG	1 cut(s)	261
EcoRII	CCWGG	1 cut(s)	334
FaeI	CATG	8 cut(s)	133, 496, 509, 514, 526, 535, 568, 973
FalI	AAGNNNNNCTT	4 cut(s)	258, 290, 717, 749
FaqI	GGGAC	1 cut(s)	914
FatI	CATG	8 cut(s)	129, 492, 505, 510, 522, 531, 564, 969
FbaI	TGATCA	1 cut(s)	439
Fnu4HI	GCNGC	1 cut(s)	324
FokI	GGATG	3 cut(s)	266, 538, 547
Fsp4HI	GCNGC	1 cut(s)	324
FspBI	CTAG	2 cut(s)	168, 756
GlaI	GCGC	1 cut(s)	672
GluI	GCNGC	1 cut(s)	324
GsuI	CTGGAG	1 cut(s)	945
HapII	CCGG	1 cut(s)	101
HhaI	GCGC	1 cut(s)	673
Hin1II	CATG	8 cut(s)	133, 496, 509, 514, 526, 535, 568, 973
Hin6I	GCGC	1 cut(s)	671
HinP1I	GCGC	1 cut(s)	671
HincII	GTYRAC	1 cut(s)	799
HindII	GTYRAC	1 cut(s)	799
HinfI	GANTC	2 cut(s)	536, 640
HpaII	CCGG	1 cut(s)	101
HphI	GGTGA	2 cut(s)	417, 740
Hpy166II	GTNNAC	1 cut(s)	799
Hpy188I	TCNGA	1 cut(s)	451
Hpy188III	TCNNGA	5 cut(s)	82, 263, 358, 749, 936
Hpy8I	GTNNAC	1 cut(s)	799
Hpy99I	CGWCG	1 cut(s)	451
HpyAV	CCTTC	2 cut(s)	79, 719
HpyCH4III	ACNGT	2 cut(s)	47, 617
HpyCH4IV	ACGT	3 cut(s)	33, 328, 636
HpyCH4V	TGCA	6 cut(s)	251, 326, 377, 496, 568, 973
HpyF3I	CTNAG	5 cut(s)	80, 261, 556, 806, 996
HpySE526I	ACGT	3 cut(s)	33, 328, 636
Hsp92II	CATG	8 cut(s)	133, 496, 509, 514, 526, 535, 568, 973
HspAI	GCGC	1 cut(s)	671
Ksp22I	TGATCA	1 cut(s)	439
Kzo9I	GATC	3 cut(s)	235, 439, 730
LmnI	GCTCC	3 cut(s)	451, 473, 598
Lsp1109I	GCAGC	1 cut(s)	310
LweI	GCATC	2 cut(s)	428, 569
MaeI	CTAG	2 cut(s)	168, 756
MaeII	ACGT	3 cut(s)	33, 328, 636
MaeIII	GTNAC	3 cut(s)	47, 158, 312
MalI	GATC	3 cut(s)	237, 441, 732
MboI	GATC	3 cut(s)	235, 439, 730
MboII	GAAGA	9 cut(s)	119, 200, 278, 323, 414, 731, 774, 790, 959
MluCI	AATT	3 cut(s)	361, 691, 850
MlyI	GAGTC	1 cut(s)	530
MmeI	TCCRAC	4 cut(s)	134, 194, 429, 922
MseI	TTAA	3 cut(s)	219, 770, 885
MslI	CAYNNNNRTG	1 cut(s)	515
MspI	CCGG	1 cut(s)	101
MspR9I	CCNGG	1 cut(s)	336
MvaI	CCWGG	1 cut(s)	336
NdeII	GATC	3 cut(s)	235, 439, 730
NlaIII	CATG	8 cut(s)	133, 496, 509, 514, 526, 535, 568, 973
NlaIV	GGNNCC	1 cut(s)	453
NmuCI	GTSAC	2 cut(s)	158, 312
NspI	RCATGY	2 cut(s)	133, 514
PciI	ACATGT	2 cut(s)	129, 510
PcsI	WCGNNNNNNNCGW	1 cut(s)	452
PfeI	GAWTC	1 cut(s)	640
PfoI	TCCNGGA	1 cut(s)	334
PkrI	GCNGC	1 cut(s)	325
PleI	GAGTC	1 cut(s)	530
PpsI	GAGTC	1 cut(s)	530
Ppu21I	YACGTR	1 cut(s)	637
PscI	ACATGT	2 cut(s)	129, 510
Psp6I	CCWGG	1 cut(s)	334
PspGI	CCWGG	1 cut(s)	334
PspN4I	GGNNCC	1 cut(s)	453
RsaI	GTAC	2 cut(s)	128, 530
RsaNI	GTAC	2 cut(s)	127, 529
RseI	CAYNNNNRTG	1 cut(s)	515
SaqAI	TTAA	3 cut(s)	219, 770, 885
SatI	GCNGC	1 cut(s)	324
Sau3AI	GATC	3 cut(s)	235, 439, 730
SchI	GAGTC	1 cut(s)	530
ScrFI	CCNGG	1 cut(s)	336
SfaNI	GCATC	2 cut(s)	428, 569
SmiMI	CAYNNNNRTG	1 cut(s)	515
SmlI	CTYRAG	4 cut(s)	226, 239, 749, 934
SmoI	CTYRAG	4 cut(s)	226, 239, 749, 934
SpeI	ACTAGT	1 cut(s)	755
Sse9I	AATT	3 cut(s)	361, 691, 850
SspI	AATATT	1 cut(s)	466
SspMI	CTAG	2 cut(s)	168, 756
StyD4I	CCNGG	1 cut(s)	334
TaaI	ACNGT	2 cut(s)	47, 617
TaiI	ACGT	3 cut(s)	36, 331, 639
TasI	AATT	3 cut(s)	361, 691, 850
TatI	WGTACW	1 cut(s)	528
TfiI	GAWTC	1 cut(s)	640
Tru1I	TTAA	3 cut(s)	219, 770, 885
Tru9I	TTAA	3 cut(s)	219, 770, 885
TseFI	GTSAC	2 cut(s)	158, 312
TseI	GCWGC	1 cut(s)	323
Tsp45I	GTSAC	2 cut(s)	158, 312
TspDTI	ATGAA	5 cut(s)	83, 278, 366, 516, 958
TspGWI	ACGGA	2 cut(s)	10, 702
XapI	RAATTY	1 cut(s)	361
XceI	RCATGY	2 cut(s)	133, 514
XspI	CTAG	2 cut(s)	168, 756

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