Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002643

Physical Location & Seq

Genomic Coordinates Reverse (-)

16516409 .. 16518103

Gene Structure 1695 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG078800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGGATGATAGTCTATACGACGAGTTCGGGAACTATATAGGACCCGAAATCGAGTCTGACCAGGAGAGTGATAGGGAGGAAGAAGATGAGGAGCTTCCGGATAGGGTAGAAGATAGAGGTGCGGCGTCCGACGGTGAGGATGCTCCGAATGGGTGGCTGACTGCCTCTAATGATGTAGATATGGACAACCAGGTTGTTCTTGCTGAGGATAAGAAGTATTATCCTACAGCGGAGGAGGTGTACGGTGAAGATGTCGAGACGTTGGTCATGGATGAAGATGCACAGCCCCTTGAACAGCTGATTATCAAGCCGGTTCGGAATATTAAGTTTGAGGTTGGTGTCAAGGACTCCTCGACGTATGTGTCGATGCAGTTTCTTGTTGGGCTTATGTCGAACCCTGCTCTGGTTCGGAATGTGGCGCTGGTGGGGCACTTGCAGCATGGGAAGACGGTGTTTATGGATATGTTGGTAGAACAGACTCATCATATGTCTACTTTTGATGCAAATAGCGATAAGCACATGAGGTACACTGATACGAGGATTGATGAACAAGAGAGGAGGATATCTATTAAGGCTGTTCCCATGTCCCTTGTACTTGAGGATAGCAATTCAAAGTCGTACCTGTGCAATGTCATGGATACTCCTGGTCATGTCAATTTCTCTGATGAAATGACTGTTTCACTTAGGCTCGCTGATGGTGCTGTCCTCATTGTTGATGCTGCAGAAGGGATGAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005730 GO:0005737 GO:0005829 GO:0005886 GO:0005911 GO:0007275 GO:0008150 GO:0009506 GO:0009790 GO:0009791 GO:0009793 GO:0009908 GO:0010154 GO:0015030 GO:0016020 GO:0016604 GO:0016607 GO:0022414 GO:0030054 GO:0030312 GO:0030532 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043900 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045694 GO:0046540 GO:0048316 GO:0048367 GO:0048437 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051239 GO:0055044 GO:0061458 GO:0065007 GO:0070013 GO:0071007 GO:0071013 GO:0071944 GO:0090567 GO:0097525 GO:0097526 GO:0099402 GO:0120114 GO:1902494 GO:1990904 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

EFG_C EFG_IV EFTUD2 GTP_EFTU GTP_EFTU_D2

Protein Analysis

245

Amino Acids

27.54

Weight (kDa)

4.22

Isoelectric Point (pI)

38.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EFTUD2	PF16004	3 - 116	2e-35	116 kDa U5 small nuclear ribonucleoprotein component N-terminus
GTP_EFTU	PF00009	136 - 244	8.9e-28	Elongation factor Tu GTP 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: OG0002643)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06220 AT1G06220 AT1G06220 AT5G25230 AT5G25230
fragaria_vesca	FvH4_2g24581 FvH4_7g03790 FvH4_7g03790 FvH4_7g03790
malus_domestica	MD02G1013600.v1.1 MD15G1160400.v1.1
prunus_persica	Prupe.3G036300_v2.0.a1
pyrus_communis	pycom02g01260 pycom15g14420
rosa_chinensis	RchiOBHm_Chr1g0327101 RchiOBHm_Chr1g0327121 RchiOBHm_Chr2g0127751
rosa_laevigata	RLG00000012029 RLG00000012030 RLG00000030043
rosa_multiflora	Rmu_sc0000795.1_g000050 Rmu_sc0004240.1_g000007
rosa_roxburghii	Rroxscaffold_4G00323330 Rroxscaffold_6G00399840 Rroxscaffold_6G00400180
rosa_rugosa	Rorug01G0063500
rosa_samantha	Rh1AG080100 Rh1AG080300 Rh1AG080700 Rh1AG080900 Rh1BG064100 Rh1CG078700 Rh1CG078800 Rh1DG085100 Rh1DG085200 Rh2AG323400 Rh2BG332600 Rh2DG350900
rosa_wichuraiana	Rw1G006400 Rw2G026250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	361
AccI	GTMKAC	1 cut(s)	491
AccIII	TCCGGA	1 cut(s)	97
AciI	CCGC	2 cut(s)	122, 230
AcyI	GRCGYC	1 cut(s)	125
AfaI	GTAC	4 cut(s)	242, 527, 594, 620
AfiI	CCNNNNNNNGG	1 cut(s)	403
AgsI	TTSAA	2 cut(s)	293, 612
AjnI	CCWGG	3 cut(s)	60, 189, 643
AluBI	AGCT	2 cut(s)	94, 298
AluI	AGCT	2 cut(s)	94, 298
Alw26I	GTCTC	1 cut(s)	251
Aor13HI	TCCGGA	1 cut(s)	97
ApeKI	GCWGC	2 cut(s)	436, 719
AspLEI	GCGC	1 cut(s)	421
AspS9I	GGNCC	1 cut(s)	41
AsuHPI	GGTGA	2 cut(s)	146, 257
AvaII	GGWCC	1 cut(s)	41
BaeGI	GKGCMC	1 cut(s)	432
BbsI	GAAGAC	1 cut(s)	452
BbvCI	CCTCAGC	1 cut(s)	204
BbvI	GCAGC	2 cut(s)	448, 706
BccI	CCATC	1 cut(s)	689
BciT130I	CCWGG	3 cut(s)	62, 191, 645
BciVI	GTATCC	1 cut(s)	631
BcoDI	GTCTC	1 cut(s)	251
BfmI	CTRYAG	2 cut(s)	225, 720
BfoI	RGCGCY	1 cut(s)	422
BfuI	GTATCC	1 cut(s)	631
BisI	GCNGC	3 cut(s)	123, 437, 720
BlsI	GCNGC	3 cut(s)	124, 438, 721
Bme1390I	CCNGG	3 cut(s)	62, 191, 645
Bme18I	GGWCC	1 cut(s)	41
BmgT120I	GGNCC	1 cut(s)	41
BmiI	GGNNCC	1 cut(s)	43
BmrFI	CCNGG	3 cut(s)	62, 191, 645
BmsI	GCATC	5 cut(s)	130, 268, 357, 490, 706
BoxI	GACNNNNGTC	1 cut(s)	263
BpiI	GAAGAC	1 cut(s)	452
Bpu10I	CCTNAGC	1 cut(s)	204
BpuEI	CTTGAG	1 cut(s)	617
BsaHI	GRCGYC	1 cut(s)	125
BsaWI	WCCGGW	1 cut(s)	97
BsaXI	ACNNNNNCTCC	2 cut(s)	224, 254
Bsc4I	CCNNNNNNNGG	1 cut(s)	403
Bse118I	RCCGGY	1 cut(s)	310
Bse3DI	GCAATG	1 cut(s)	634
BseAI	TCCGGA	1 cut(s)	97
BseBI	CCWGG	3 cut(s)	62, 191, 645
BseGI	GGATG	4 cut(s)	10, 145, 277, 735
BseLI	CCNNNNNNNGG	1 cut(s)	403
BseMI	GCAATG	1 cut(s)	634
BseMII	CTCAG	1 cut(s)	195
BseRI	GAGGAG	4 cut(s)	104, 248, 340, 571
BseSI	GKGCMC	1 cut(s)	432
BseXI	GCAGC	2 cut(s)	448, 706
BsiSI	CCGG	2 cut(s)	98, 311
BslFI	GGGAC	1 cut(s)	571
BslI	CCNNNNNNNGG	1 cut(s)	403
BsmAI	GTCTC	1 cut(s)	251
BsmBI	CGTCTC	1 cut(s)	251
BsmFI	GGGAC	1 cut(s)	571
Bsp1286I	GDGCHC	1 cut(s)	432
Bsp13I	TCCGGA	1 cut(s)	97
BspACI	CCGC	2 cut(s)	122, 230
BspCNI	CTCAG	1 cut(s)	196
BspEI	TCCGGA	1 cut(s)	97
BspLI	GGNNCC	1 cut(s)	43
BspMAI	CTGCAG	1 cut(s)	724
BsrDI	GCAATG	1 cut(s)	634
BsrFI	RCCGGY	1 cut(s)	310
BssAI	RCCGGY	1 cut(s)	310
BssNI	GRCGYC	1 cut(s)	125
Bst2UI	CCWGG	3 cut(s)	62, 191, 645
Bst4CI	ACNGT	4 cut(s)	134, 245, 451, 676
BstACI	GRCGYC	1 cut(s)	125
BstC8I	GCNNGC	1 cut(s)	690
BstDEI	CTNAG	2 cut(s)	204, 683
BstF5I	GGATG	4 cut(s)	10, 145, 277, 735
BstH2I	RGCGCY	1 cut(s)	422
BstHHI	GCGC	1 cut(s)	421
BstMAI	GTCTC	1 cut(s)	251
BstMWI	GCNNNNNNNGC	3 cut(s)	427, 436, 698
BstNI	CCWGG	3 cut(s)	62, 191, 645
BstPAI	GACNNNNGTC	1 cut(s)	263
BstSCI	CCNGG	3 cut(s)	60, 189, 643
BstSFI	CTRYAG	2 cut(s)	225, 720
BstSLI	GKGCMC	1 cut(s)	432
BstV1I	GCAGC	2 cut(s)	448, 706
BstV2I	GAAGAC	1 cut(s)	452
BsuI	GTATCC	1 cut(s)	631
BtsCI	GGATG	4 cut(s)	10, 145, 277, 735
BtsIMutI	CAGTG	1 cut(s)	528
Cac8I	GCNNGC	1 cut(s)	690
CfoI	GCGC	1 cut(s)	421
Cfr10I	RCCGGY	1 cut(s)	310
Cfr13I	GGNCC	1 cut(s)	41
CseI	GACGC	1 cut(s)	114
CsiI	ACCWGGT	1 cut(s)	189
Csp6I	GTAC	4 cut(s)	241, 526, 593, 619
CviAII	CATG	6 cut(s)	268, 440, 520, 583, 634, 650
CviJI	RGCY	8 cut(s)	94, 157, 286, 298, 310, 385, 575, 688
CviKI_1	RGCY	8 cut(s)	94, 157, 286, 298, 310, 385, 575, 688
CviQI	GTAC	4 cut(s)	241, 526, 593, 619
DdeI	CTNAG	2 cut(s)	204, 683
DrdI	GACNNNNNNGTC	1 cut(s)	361
DseDI	GACNNNNNNGTC	1 cut(s)	361
Eco32I	GATATC	1 cut(s)	564
Eco47I	GGWCC	1 cut(s)	41
EcoO109I	RGGNCCY	1 cut(s)	41
EcoRII	CCWGG	3 cut(s)	60, 189, 643
EcoRV	GATATC	1 cut(s)	564
Esp3I	CGTCTC	1 cut(s)	251
FaeI	CATG	6 cut(s)	271, 443, 523, 586, 637, 653
FaqI	GGGAC	1 cut(s)	571
FatI	CATG	6 cut(s)	267, 439, 519, 582, 633, 649
FauNDI	CATATG	1 cut(s)	486
FblI	GTMKAC	1 cut(s)	491
Fnu4HI	GCNGC	3 cut(s)	123, 437, 720
FokI	GGATG	3 cut(s)	17, 152, 284
Fsp4HI	GCNGC	3 cut(s)	123, 437, 720
GlaI	GCGC	1 cut(s)	420
GluI	GCNGC	3 cut(s)	123, 437, 720
HaeII	RGCGCY	1 cut(s)	422
HapII	CCGG	2 cut(s)	98, 311
HgaI	GACGC	1 cut(s)	114
HhaI	GCGC	1 cut(s)	421
Hin1I	GRCGYC	1 cut(s)	125
Hin1II	CATG	6 cut(s)	271, 443, 523, 586, 637, 653
Hin6I	GCGC	1 cut(s)	419
HinP1I	GCGC	1 cut(s)	419
HinfI	GANTC	3 cut(s)	53, 347, 478
HpaII	CCGG	2 cut(s)	98, 311
HphI	GGTGA	2 cut(s)	146, 257
Hpy166II	GTNNAC	3 cut(s)	241, 492, 528
Hpy188I	TCNGA	6 cut(s)	58, 130, 147, 318, 411, 664
Hpy188III	TCNNGA	3 cut(s)	28, 98, 256
Hpy8I	GTNNAC	3 cut(s)	241, 492, 528
Hpy99I	CGWCG	3 cut(s)	23, 134, 358
HpyAV	CCTTC	1 cut(s)	719
HpyCH4III	ACNGT	4 cut(s)	134, 245, 451, 676
HpyCH4IV	ACGT	2 cut(s)	260, 356
HpyCH4V	TGCA	6 cut(s)	281, 370, 436, 503, 627, 722
HpyF10VI	GCNNNNNNNGC	3 cut(s)	427, 436, 698
HpyF3I	CTNAG	2 cut(s)	204, 683
HpySE526I	ACGT	2 cut(s)	260, 356
Hsp92I	GRCGYC	1 cut(s)	125
Hsp92II	CATG	6 cut(s)	271, 443, 523, 586, 637, 653
HspAI	GCGC	1 cut(s)	419
Kpn2I	TCCGGA	1 cut(s)	97
LmnI	GCTCC	2 cut(s)	91, 148
Lsp1109I	GCAGC	2 cut(s)	448, 706
LweI	GCATC	5 cut(s)	130, 268, 357, 490, 706
MabI	ACCWGGT	1 cut(s)	189
MaeII	ACGT	2 cut(s)	260, 356
MboII	GAAGA	6 cut(s)	92, 95, 122, 260, 287, 457
MhlI	GDGCHC	1 cut(s)	432
MluCI	AATT	2 cut(s)	607, 655
MlyI	GAGTC	3 cut(s)	62, 341, 472
MmeI	TCCRAC	1 cut(s)	153
MroI	TCCGGA	1 cut(s)	97
MseI	TTAA	2 cut(s)	324, 570
MspA1I	CMGCKG	2 cut(s)	230, 298
MspI	CCGG	2 cut(s)	98, 311
MspR9I	CCNGG	3 cut(s)	62, 191, 645
MvaI	CCWGG	3 cut(s)	62, 191, 645
MwoI	GCNNNNNNNGC	3 cut(s)	427, 436, 698
NdeI	CATATG	1 cut(s)	486
NlaIII	CATG	6 cut(s)	271, 443, 523, 586, 637, 653
NlaIV	GGNNCC	1 cut(s)	43
PcsI	WCGNNNNNNNCGW	1 cut(s)	362
PkrI	GCNGC	3 cut(s)	124, 438, 721
PleI	GAGTC	3 cut(s)	61, 341, 472
PpsI	GAGTC	3 cut(s)	61, 341, 472
PpuMI	RGGWCCY	1 cut(s)	41
PshAI	GACNNNNGTC	1 cut(s)	263
Psp5II	RGGWCCY	1 cut(s)	41
Psp6I	CCWGG	3 cut(s)	60, 189, 643
PspGI	CCWGG	3 cut(s)	60, 189, 643
PspN4I	GGNNCC	1 cut(s)	43
PspPI	GGNCC	1 cut(s)	41
PspPPI	RGGWCCY	1 cut(s)	41
PstI	CTGCAG	1 cut(s)	724
PvuII	CAGCTG	1 cut(s)	298
RsaI	GTAC	4 cut(s)	242, 527, 594, 620
RsaNI	GTAC	4 cut(s)	241, 526, 593, 619
SaqAI	TTAA	2 cut(s)	324, 570
SatI	GCNGC	3 cut(s)	123, 437, 720
Sau96I	GGNCC	1 cut(s)	41
SchI	GAGTC	3 cut(s)	62, 341, 472
ScrFI	CCNGG	3 cut(s)	62, 191, 645
SduI	GDGCHC	1 cut(s)	432
SexAI	ACCWGGT	1 cut(s)	189
SfaNI	GCATC	5 cut(s)	130, 268, 357, 490, 706
SfcI	CTRYAG	2 cut(s)	225, 720
SinI	GGWCC	1 cut(s)	41
SmlI	CTYRAG	1 cut(s)	596
SmoI	CTYRAG	1 cut(s)	596
Sse9I	AATT	2 cut(s)	607, 655
SsiI	CCGC	2 cut(s)	122, 230
SspI	AATATT	1 cut(s)	322
StyD4I	CCNGG	3 cut(s)	60, 189, 643
TaaI	ACNGT	4 cut(s)	134, 245, 451, 676
TaiI	ACGT	2 cut(s)	263, 359
TaqI	TCGA	5 cut(s)	51, 255, 353, 365, 392
TasI	AATT	2 cut(s)	607, 655
TatI	WGTACW	1 cut(s)	592
TauI	GCSGC	1 cut(s)	125
Tru1I	TTAA	2 cut(s)	324, 570
Tru9I	TTAA	2 cut(s)	324, 570
TscAI	CASTG	1 cut(s)	535
TseI	GCWGC	2 cut(s)	436, 719
TspDTI	ATGAA	3 cut(s)	288, 561, 681
TspRI	CASTG	1 cut(s)	535
VpaK11BI	GGWCC	1 cut(s)	41
XmiI	GTMKAC	1 cut(s)	491

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