Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0000573

Physical Location & Seq

Genomic Coordinates Reverse (-)

1904118 .. 1909335

Gene Structure 5218 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG027100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 993 bp

ATGGAGAGGGGGATGGAGTTGATGGGGAGGATGAAGGGTGATGAGTGTGAGCCGGATGTTCAGACGTATAATGTTGTGATTCGGTACTTTTGTGATGATGGGGAGATTGATAAGGCGTTGGATGTGTTTGAGAAGATGGGTAGGGGAGAGTGCTTGCCTAATTTGGATACATACAATGTGTTGATTAGTGCCATGTTTGTGAGGAAGAAACCTGAAGATTTGTTAGTGGCAGGGAAGTTGCTGATTGAGATGGTTGATAGAGGATTTTTGCCCCGCAAGTACACCTTTAATCGGGTTCTGGATGGGCTTTTGTTAACTGGTAATCAAGGTTTTGCAAAAGAGATTCTGAGATTGCAGAGCAAATGTGGCCGTCTTCCTCGTCAGGTAGAATCCATCTCCCTTGACGAAGCTGCAAGGTTATTACTTGGGGATGCACACAATGCATCTGTAATGAGAACTAAAGTAAGGCGGATTTATGATATTGCAAATGTTTTGTCCTCCATGAATCTTATTGAAAAGACCCACACAGCAGATACAAGGAAGCCTGCATATAAATGGTTGGGATTAAGAGGAAAAGATGCTGCGAGTTCAGCTTCAGACGAGTCTAGAAAAAGAGCCTTTGGAACAGACATCACAAACGTCAGTTGTAAGAGGGGCAAAGTAGAATCTTCCACTGCTGGGAAATTGGAAGCTCAGAAACAAAAGCAACATGAGAGTACATTACGGCAACGTGAGAGCATAGTACGTAAGGTTGATAGGAACAATTTAGAGGAGTCGAAAGAAAATACAAAGAGCTACCAGTTTGGCCCTTTTGCTCCAGTTACTATTGCCAGACCTGGGAATTTCAGCATGAAGAAGGTTGACTGGGACAATTTGTCGTCTACTTACCGTCCCCAGTATCAGAATCAAGCTTTGAAGGAGCTGTTTTCTCATTACATGGAAGCATGGAAGTCATGGTACTCTGAAGTTGTTGAGAAGCCAATCCAGACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0008156 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032875 GO:0032876 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044786 GO:0045786 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051252 GO:0051726 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1901576 GO:1903506 GO:2000104 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

E2F_TDP

Protein Analysis

330

Amino Acids

37.71

Weight (kDa)

9.17

Isoelectric Point (pI)

36.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	10 - 65	5.6e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	15 - 46	8e-10	PPR repeat
PPR_2	PF13041	18 - 65	7.1e-15	PPR repeat family
WHD_E2F_TDP	PF02319	128 - 188	7.8e-13	E2F/DP family winged-helix 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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000573)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48160 AT3G48160
fragaria_vesca	FvH4_3g21790 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330
malus_domestica	MD06G1181700.v1.1 MD14G1187600.v1.1
prunus_persica	Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1
pyrus_communis	pycom06g16070 pycom14g15550
rosa_chinensis	RchiOBHm_Chr2g0100091 RchiOBHm_Chr2g0131211 RchiOBHm_Chr2g0131231 RchiOBHm_Chr2g0155761 RchiOBHm_Chr5g0037341 RchiOBHm_Chr6g0286771 RchiOBHm_Chr7g0179801
rosa_laevigata	RLG00000005323 RLG00000033775
rosa_multiflora	Rmu_co8405049.1_g000002 Rmu_sc0003547.1_g000004 Rmu_sc0004156.1_g000008 Rmu_sc0007546.1_g000012 Rmu_sc0026307.1_g000001 Rmu_sc0032585.1_g000001 Rmu_ssc0000019.1_g000022
rosa_roxburghii	Rroxscaffold_1G00027620 Rroxscaffold_1G00027630 Rroxscaffold_1G00043630 Rroxscaffold_2G00107640 Rroxscaffold_3G00273460 Rroxscaffold_5G00347960 Rroxscaffold_5G00350580 Rroxscaffold_5G00366890 Rroxscaffold_6G00391730 Rroxscaffold_6G00392580 Rroxscaffold_7G00170270 Rroxscaffold_7G00170280
rosa_rugosa	Rorug02G0499800 Rorug04G0099000 Rorug04G0116000 Rorug05G0129300 Rorug05G0164200 Rorug06G0428300 Rorug06G0428400
rosa_samantha	Rh1DG306200 Rh2AG348600 Rh2CG139500 Rh2CG334400 Rh2CG334500 Rh2CG334700 Rh2DG139800 Rh2DG373800 Rh5BG255900 Rh5CG289000 Rh5DG264300 Rh5DG449300 Rh6AG295400 Rh6BG299400 Rh6CG299300 Rh6DG291200 Rh7AG028200 Rh7BG027100 Rh7BG173900 Rh7CG029000 Rh7DG028500
rosa_wichuraiana	Rw5G023500 Rw7G002240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	881
AciI	CCGC	2 cut(s)	274, 469
AcoI	YGGCCR	1 cut(s)	367
AcsI	RAATTY	1 cut(s)	841
AcuI	CTGAAG	3 cut(s)	234, 579, 984
AfaI	GTAC	5 cut(s)	86, 281, 718, 744, 959
AfiI	CCNNNNNNNGG	3 cut(s)	291, 678, 837
AgsI	TTSAA	2 cut(s)	515, 916
AhdI	GACNNNNNGTC	1 cut(s)	874
AjnI	CCWGG	1 cut(s)	835
AluBI	AGCT	6 cut(s)	410, 593, 692, 795, 911, 922
AluI	AGCT	6 cut(s)	410, 593, 692, 795, 911, 922
AoxI	GGCC	2 cut(s)	367, 805
ApeKI	GCWGC	2 cut(s)	410, 581
ApoI	RAATTY	1 cut(s)	841
ArsI	GACNNNNNNTTYG	2 cut(s)	479, 511
AspS9I	GGNCC	1 cut(s)	806
AsuHPI	GGTGA	1 cut(s)	50
BaeI	ACNNNNGTAYC	2 cut(s)	76, 109
BarI	GAAGNNNNNNTAC	2 cut(s)	941, 973
BbsI	GAAGAC	1 cut(s)	365
BbvI	GCAGC	2 cut(s)	397, 568
BccI	CCATC	7 cut(s)	7, 16, 92, 130, 244, 296, 401
BceAI	ACGGC	2 cut(s)	354, 740
BciT130I	CCWGG	1 cut(s)	837
BciVI	GTATCC	1 cut(s)	160
BfaI	CTAG	1 cut(s)	606
BfuI	GTATCC	1 cut(s)	160
BisI	GCNGC	2 cut(s)	411, 582
BlsI	GCNGC	2 cut(s)	412, 583
Bme1390I	CCNGG	1 cut(s)	837
BmeRI	GACNNNNNGTC	1 cut(s)	874
BmgT120I	GGNCC	1 cut(s)	806
BmrFI	CCNGG	1 cut(s)	837
BmrI	ACTGGG	2 cut(s)	874, 889
BmsI	GCATC	3 cut(s)	421, 452, 568
BmuI	ACTGGG	2 cut(s)	874, 889
BpiI	GAAGAC	1 cut(s)	365
BpmI	CTGGAG	1 cut(s)	801
BsaAI	YACGTR	1 cut(s)	746
BsaJI	CCNNGG	1 cut(s)	836
Bsc4I	CCNNNNNNNGG	3 cut(s)	291, 678, 837
Bse1I	ACTGG	5 cut(s)	322, 799, 818, 869, 895
BseBI	CCWGG	1 cut(s)	837
BseDI	CCNNGG	1 cut(s)	836
BseGI	GGATG	6 cut(s)	18, 36, 61, 127, 307, 436
BseLI	CCNNNNNNNGG	3 cut(s)	291, 678, 837
BseMII	CTCAG	2 cut(s)	338, 707
BseNI	ACTGG	5 cut(s)	322, 799, 818, 869, 895
BseRI	GAGGAG	1 cut(s)	785
BseXI	GCAGC	2 cut(s)	397, 568
BseYI	CCCAGC	1 cut(s)	677
BshFI	GGCC	2 cut(s)	369, 807
BsiSI	CCGG	1 cut(s)	53
BslFI	GGGAC	2 cut(s)	876, 881
BslI	CCNNNNNNNGG	3 cut(s)	291, 678, 837
BsmFI	GGGAC	2 cut(s)	876, 881
BsnI	GGCC	2 cut(s)	369, 807
BspACI	CCGC	2 cut(s)	274, 469
BspANI	GGCC	2 cut(s)	369, 807
BspCNI	CTCAG	2 cut(s)	339, 706
BsrI	ACTGG	5 cut(s)	322, 799, 818, 869, 895
BssECI	CCNNGG	1 cut(s)	836
Bst2UI	CCWGG	1 cut(s)	837
Bst4CI	ACNGT	1 cut(s)	890
BstAPI	GCANNNNNTGC	1 cut(s)	440
BstBAI	YACGTR	1 cut(s)	746
BstC8I	GCNNGC	2 cut(s)	155, 546
BstDEI	CTNAG	2 cut(s)	347, 693
BstF5I	GGATG	6 cut(s)	18, 36, 61, 127, 307, 436
BstMWI	GCNNNNNNNGC	3 cut(s)	366, 440, 590
BstNI	CCWGG	1 cut(s)	837
BstSCI	CCNGG	1 cut(s)	835
BstSNI	TACGTA	1 cut(s)	746
BstV1I	GCAGC	2 cut(s)	397, 568
BstV2I	GAAGAC	1 cut(s)	365
BsuI	GTATCC	1 cut(s)	160
BsuRI	GGCC	2 cut(s)	369, 807
BtsCI	GGATG	6 cut(s)	18, 36, 61, 127, 307, 436
BtsI	GCAGTG	1 cut(s)	672
BtsIMutI	CAGTG	1 cut(s)	672
Cac8I	GCNNGC	2 cut(s)	155, 546
Cfr13I	GGNCC	1 cut(s)	806
Csp6I	GTAC	5 cut(s)	85, 280, 717, 743, 958
CviAII	CATG	7 cut(s)	193, 502, 710, 850, 937, 945, 954
CviQI	GTAC	5 cut(s)	85, 280, 717, 743, 958
DdeI	CTNAG	2 cut(s)	347, 693
DriI	GACNNNNNGTC	1 cut(s)	874
EaeI	YGGCCR	1 cut(s)	367
Eam1105I	GACNNNNNGTC	1 cut(s)	874
EciI	GGCGGA	1 cut(s)	484
Eco105I	TACGTA	1 cut(s)	746
Eco57I	CTGAAG	3 cut(s)	234, 579, 984
EcoRII	CCWGG	1 cut(s)	835
EcoT22I	ATGCAT	1 cut(s)	445
FaeI	CATG	7 cut(s)	196, 505, 713, 853, 940, 948, 957
FalI	AAGNNNNNCTT	2 cut(s)	269, 301
FaqI	GGGAC	2 cut(s)	876, 881
FatI	CATG	7 cut(s)	192, 501, 709, 849, 936, 944, 953
FauI	CCCGC	1 cut(s)	281
FblI	GTMKAC	1 cut(s)	881
Fnu4HI	GCNGC	2 cut(s)	411, 582
FokI	GGATG	6 cut(s)	25, 43, 68, 134, 314, 443
Fsp4HI	GCNGC	2 cut(s)	411, 582
FspBI	CTAG	1 cut(s)	606
GluI	GCNGC	2 cut(s)	411, 582
GsaI	CCCAGC	1 cut(s)	681
GsuI	CTGGAG	1 cut(s)	801
HaeIII	GGCC	2 cut(s)	369, 807
HapII	CCGG	1 cut(s)	53
Hin1II	CATG	7 cut(s)	196, 505, 713, 853, 940, 948, 957
HincII	GTYRAC	2 cut(s)	315, 862
HindII	GTYRAC	2 cut(s)	315, 862
HindIII	AAGCTT	1 cut(s)	909
HinfI	GANTC	8 cut(s)	79, 343, 389, 505, 602, 665, 773, 904
HpaI	GTTAAC	1 cut(s)	315
HpaII	CCGG	1 cut(s)	53
HphI	GGTGA	1 cut(s)	50
Hpy166II	GTNNAC	4 cut(s)	282, 315, 862, 882
Hpy188I	TCNGA	6 cut(s)	63, 348, 598, 696, 903, 964
Hpy188III	TCNNGA	3 cut(s)	299, 606, 985
Hpy8I	GTNNAC	4 cut(s)	282, 315, 862, 882
HpyAV	CCTTC	3 cut(s)	28, 850, 910
HpyCH4III	ACNGT	1 cut(s)	890
HpyCH4IV	ACGT	4 cut(s)	65, 639, 730, 745
HpyCH4V	TGCA	7 cut(s)	335, 355, 413, 434, 443, 485, 548
HpyF10VI	GCNNNNNNNGC	3 cut(s)	366, 440, 590
HpyF3I	CTNAG	2 cut(s)	347, 693
HpySE526I	ACGT	4 cut(s)	65, 639, 730, 745
Hsp92II	CATG	7 cut(s)	196, 505, 713, 853, 940, 948, 957
KspAI	GTTAAC	1 cut(s)	315
LmnI	GCTCC	2 cut(s)	820, 919
Lsp1109I	GCAGC	2 cut(s)	397, 568
LweI	GCATC	3 cut(s)	421, 452, 568
MaeI	CTAG	1 cut(s)	606
MaeII	ACGT	4 cut(s)	65, 639, 730, 745
MaeIII	GTNAC	1 cut(s)	820
MboII	GAAGA	6 cut(s)	145, 217, 227, 365, 660, 865
MluCI	AATT	5 cut(s)	160, 683, 763, 841, 871
MlyI	GAGTC	2 cut(s)	611, 782
MmeI	TCCRAC	1 cut(s)	99
MnlI	CCTC	8 cut(s)	21, 195, 254, 387, 508, 563, 645, 763
Mph1103I	ATGCAT	1 cut(s)	445
MseI	TTAA	3 cut(s)	288, 314, 566
MslI	CAYNNNNRTG	2 cut(s)	197, 553
MspI	CCGG	1 cut(s)	53
MspR9I	CCNGG	1 cut(s)	837
MvaI	CCWGG	1 cut(s)	837
MwoI	GCNNNNNNNGC	3 cut(s)	366, 440, 590
NlaIII	CATG	7 cut(s)	196, 505, 713, 853, 940, 948, 957
NsiI	ATGCAT	1 cut(s)	445
PfeI	GAWTC	6 cut(s)	79, 343, 389, 505, 665, 904
PkrI	GCNGC	2 cut(s)	412, 583
PleI	GAGTC	2 cut(s)	610, 781
PpsI	GAGTC	2 cut(s)	610, 781
Ppu21I	YACGTR	1 cut(s)	746
Psp6I	CCWGG	1 cut(s)	835
PspFI	CCCAGC	1 cut(s)	677
PspGI	CCWGG	1 cut(s)	835
PspPI	GGNCC	1 cut(s)	806
RsaI	GTAC	5 cut(s)	86, 281, 718, 744, 959
RsaNI	GTAC	5 cut(s)	85, 280, 717, 743, 958
RseI	CAYNNNNRTG	2 cut(s)	197, 553
SaqAI	TTAA	3 cut(s)	288, 314, 566
SatI	GCNGC	2 cut(s)	411, 582
Sau96I	GGNCC	1 cut(s)	806
SchI	GAGTC	2 cut(s)	611, 782
ScrFI	CCNGG	1 cut(s)	837
SfaNI	GCATC	3 cut(s)	421, 452, 568
SmiMI	CAYNNNNRTG	2 cut(s)	197, 553
SnaBI	TACGTA	1 cut(s)	746
Sse9I	AATT	5 cut(s)	160, 683, 763, 841, 871
SsiI	CCGC	2 cut(s)	274, 469
SspMI	CTAG	1 cut(s)	606
StyD4I	CCNGG	1 cut(s)	835
TaaI	ACNGT	1 cut(s)	890
TaiI	ACGT	4 cut(s)	68, 642, 733, 748
TaqI	TCGA	1 cut(s)	776
TasI	AATT	5 cut(s)	160, 683, 763, 841, 871
TatI	WGTACW	2 cut(s)	279, 716
TfiI	GAWTC	6 cut(s)	79, 343, 389, 505, 665, 904
Tru1I	TTAA	3 cut(s)	288, 314, 566
Tru9I	TTAA	3 cut(s)	288, 314, 566
TscAI	CASTG	1 cut(s)	679
TseI	GCWGC	2 cut(s)	410, 581
TspDTI	ATGAA	3 cut(s)	47, 518, 866
TspRI	CASTG	1 cut(s)	679
XapI	RAATTY	1 cut(s)	841
XbaI	TCTAGA	1 cut(s)	605
XmiI	GTMKAC	1 cut(s)	881
XspI	CTAG	1 cut(s)	606
Zsp2I	ATGCAT	1 cut(s)	445

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