Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0002643

Physical Location & Seq

Genomic Coordinates Reverse (-)

13686132 .. 13686803

Gene Structure 672 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG080300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 672 bp

ATGGATGATAGTCTATACGACGAGTTCGGGAACTATATTGGACCCGAAATCGAGTCTGACCAGGAGAGTGATAGGGAGGAAGAAGATGAGGAGCTTCCGGATAGGTTAGAAGATAGAGGTGCGGCATCTGAAGGTGAGGATGCTCAGAATGGGTGGATGACTGCCTCTAATGATGTAGATATGGACAACCAGGTTGTTCTTGCTGAGGACAAGAAGTATTATCCTACAGCGGAGGAGGTGTACGGTGAAGATGTCGAGACGTTGGTCATGGATGAAGATGCACAGCCCCTTGAACAGCTGATTATCAAGCCGGTTCGGAATATTAAGTTTGAGGTTGGTGTCAAGGACTCCTCGACGTATGTGTCGACGCAGTTTCTTGTTGGGCTTATGTCGAACCCTGCTCTGGTTCGGAATGTGGCGCTGGTGGGGCACTTGCAGCATGGGAAGACGGTGTTTATGGATATGTTGGTGGAACAGACTCATCATATGTCTACTTTTGATGCAAATAGTGATAAGCACATGAGTACACTGATACGAGGATTGATGAACACGAGAGGAGGATATCTATTAAGGCTGTTCCCATGTCCCTTGTACTTGAGGATAGCAATTCAAAGTCGTACCTGTGCAATGTCATGGATACTCCTGGTCATGTCAATTTCTCTGATGAAATGA

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

223

Amino Acids

25.25

Weight (kDa)

4.37

Isoelectric Point (pI)

50.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EFTUD2	PF16004	3 - 116	4.3e-36	116 kDa U5 small nuclear ribonucleoprotein component N-terminus

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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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	2 cut(s)	365, 491
AccIII	TCCGGA	1 cut(s)	97
AciI	CCGC	2 cut(s)	122, 230
AcuI	CTGAAG	1 cut(s)	150
AfaI	GTAC	4 cut(s)	242, 526, 593, 619
AfiI	CCNNNNNNNGG	1 cut(s)	403
AgsI	TTSAA	2 cut(s)	293, 611
AjnI	CCWGG	3 cut(s)	60, 189, 642
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	1 cut(s)	436
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
BauI	CACGAG	1 cut(s)	550
BbsI	GAAGAC	1 cut(s)	452
BbvCI	CCTCAGC	1 cut(s)	204
BbvI	GCAGC	1 cut(s)	448
BciT130I	CCWGG	3 cut(s)	62, 191, 644
BciVI	GTATCC	1 cut(s)	630
BcoDI	GTCTC	1 cut(s)	251
BfmI	CTRYAG	1 cut(s)	225
BfoI	RGCGCY	1 cut(s)	422
BfuI	GTATCC	1 cut(s)	630
BisI	GCNGC	2 cut(s)	123, 437
BlsI	GCNGC	2 cut(s)	124, 438
Bme1390I	CCNGG	3 cut(s)	62, 191, 644
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, 644
BmsI	GCATC	4 cut(s)	130, 134, 268, 490
BoxI	GACNNNNGTC	1 cut(s)	263
BpiI	GAAGAC	1 cut(s)	452
Bpu10I	CCTNAGC	1 cut(s)	204
BpuEI	CTTGAG	1 cut(s)	616
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)	633
BseAI	TCCGGA	1 cut(s)	97
BseBI	CCWGG	3 cut(s)	62, 191, 644
BseGI	GGATG	4 cut(s)	10, 145, 162, 277
BseLI	CCNNNNNNNGG	1 cut(s)	403
BseMI	GCAATG	1 cut(s)	633
BseMII	CTCAG	2 cut(s)	158, 195
BseRI	GAGGAG	4 cut(s)	104, 248, 340, 570
BseSI	GKGCMC	1 cut(s)	432
BseXI	GCAGC	1 cut(s)	448
BsiSI	CCGG	2 cut(s)	98, 311
BslFI	GGGAC	1 cut(s)	570
BslI	CCNNNNNNNGG	1 cut(s)	403
BsmAI	GTCTC	1 cut(s)	251
BsmBI	CGTCTC	1 cut(s)	251
BsmFI	GGGAC	1 cut(s)	570
Bsp1286I	GDGCHC	1 cut(s)	432
Bsp13I	TCCGGA	1 cut(s)	97
BspACI	CCGC	2 cut(s)	122, 230
BspCNI	CTCAG	2 cut(s)	157, 196
BspEI	TCCGGA	1 cut(s)	97
BspLI	GGNNCC	1 cut(s)	43
BsrDI	GCAATG	1 cut(s)	633
BsrFI	RCCGGY	1 cut(s)	310
BssAI	RCCGGY	1 cut(s)	310
BssSI	CACGAG	1 cut(s)	550
Bst2BI	CACGAG	1 cut(s)	550
Bst2UI	CCWGG	3 cut(s)	62, 191, 644
Bst4CI	ACNGT	2 cut(s)	245, 451
BstDEI	CTNAG	2 cut(s)	144, 204
BstF5I	GGATG	4 cut(s)	10, 145, 162, 277
BstH2I	RGCGCY	1 cut(s)	422
BstHHI	GCGC	1 cut(s)	421
BstMAI	GTCTC	1 cut(s)	251
BstMWI	GCNNNNNNNGC	2 cut(s)	427, 436
BstNI	CCWGG	3 cut(s)	62, 191, 644
BstPAI	GACNNNNGTC	1 cut(s)	263
BstSCI	CCNGG	3 cut(s)	60, 189, 642
BstSFI	CTRYAG	1 cut(s)	225
BstSLI	GKGCMC	1 cut(s)	432
BstV1I	GCAGC	1 cut(s)	448
BstV2I	GAAGAC	1 cut(s)	452
BsuI	GTATCC	1 cut(s)	630
BtsCI	GGATG	4 cut(s)	10, 145, 162, 277
BtsIMutI	CAGTG	1 cut(s)	527
CfoI	GCGC	1 cut(s)	421
Cfr10I	RCCGGY	1 cut(s)	310
Cfr13I	GGNCC	1 cut(s)	41
CseI	GACGC	1 cut(s)	376
CsiI	ACCWGGT	1 cut(s)	189
Csp6I	GTAC	4 cut(s)	241, 525, 592, 618
CviAII	CATG	6 cut(s)	268, 440, 520, 582, 633, 649
CviJI	RGCY	6 cut(s)	94, 286, 298, 310, 385, 574
CviKI_1	RGCY	6 cut(s)	94, 286, 298, 310, 385, 574
CviQI	GTAC	4 cut(s)	241, 525, 592, 618
DdeI	CTNAG	2 cut(s)	144, 204
DrdI	GACNNNNNNGTC	1 cut(s)	361
DseDI	GACNNNNNNGTC	1 cut(s)	361
Eco32I	GATATC	1 cut(s)	563
Eco47I	GGWCC	1 cut(s)	41
Eco57I	CTGAAG	1 cut(s)	150
EcoRII	CCWGG	3 cut(s)	60, 189, 642
EcoRV	GATATC	1 cut(s)	563
Esp3I	CGTCTC	1 cut(s)	251
FaeI	CATG	6 cut(s)	271, 443, 523, 585, 636, 652
FaqI	GGGAC	1 cut(s)	570
FatI	CATG	6 cut(s)	267, 439, 519, 581, 632, 648
FauNDI	CATATG	1 cut(s)	486
FblI	GTMKAC	2 cut(s)	365, 491
Fnu4HI	GCNGC	2 cut(s)	123, 437
FokI	GGATG	4 cut(s)	17, 152, 169, 284
Fsp4HI	GCNGC	2 cut(s)	123, 437
GlaI	GCGC	1 cut(s)	420
GluI	GCNGC	2 cut(s)	123, 437
HaeII	RGCGCY	1 cut(s)	422
HapII	CCGG	2 cut(s)	98, 311
HgaI	GACGC	1 cut(s)	376
HhaI	GCGC	1 cut(s)	421
Hin1II	CATG	6 cut(s)	271, 443, 523, 585, 636, 652
Hin6I	GCGC	1 cut(s)	419
HinP1I	GCGC	1 cut(s)	419
HincII	GTYRAC	1 cut(s)	366
HindII	GTYRAC	1 cut(s)	366
HinfI	GANTC	3 cut(s)	53, 347, 478
HpaII	CCGG	2 cut(s)	98, 311
HphI	GGTGA	2 cut(s)	146, 257
Hpy166II	GTNNAC	4 cut(s)	241, 366, 492, 527
Hpy188I	TCNGA	6 cut(s)	58, 130, 147, 318, 411, 663
Hpy188III	TCNNGA	3 cut(s)	28, 98, 256
Hpy8I	GTNNAC	4 cut(s)	241, 366, 492, 527
Hpy99I	CGWCG	3 cut(s)	23, 358, 370
HpyAV	CCTTC	1 cut(s)	125
HpyCH4III	ACNGT	2 cut(s)	245, 451
HpyCH4IV	ACGT	2 cut(s)	260, 356
HpyCH4V	TGCA	4 cut(s)	281, 436, 503, 626
HpyF10VI	GCNNNNNNNGC	2 cut(s)	427, 436
HpyF3I	CTNAG	2 cut(s)	144, 204
HpySE526I	ACGT	2 cut(s)	260, 356
Hsp92II	CATG	6 cut(s)	271, 443, 523, 585, 636, 652
HspAI	GCGC	1 cut(s)	419
Kpn2I	TCCGGA	1 cut(s)	97
LmnI	GCTCC	1 cut(s)	91
Lsp1109I	GCAGC	1 cut(s)	448
LweI	GCATC	4 cut(s)	130, 134, 268, 490
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)	606, 654
MlyI	GAGTC	3 cut(s)	62, 341, 472
MroI	TCCGGA	1 cut(s)	97
MseI	TTAA	2 cut(s)	324, 569
MspA1I	CMGCKG	2 cut(s)	230, 298
MspI	CCGG	2 cut(s)	98, 311
MspR9I	CCNGG	3 cut(s)	62, 191, 644
MvaI	CCWGG	3 cut(s)	62, 191, 644
MwoI	GCNNNNNNNGC	2 cut(s)	427, 436
NdeI	CATATG	1 cut(s)	486
NlaIII	CATG	6 cut(s)	271, 443, 523, 585, 636, 652
NlaIV	GGNNCC	1 cut(s)	43
PcsI	WCGNNNNNNNCGW	1 cut(s)	362
PkrI	GCNGC	2 cut(s)	124, 438
PleI	GAGTC	3 cut(s)	61, 341, 472
PpsI	GAGTC	3 cut(s)	61, 341, 472
PshAI	GACNNNNGTC	1 cut(s)	263
Psp6I	CCWGG	3 cut(s)	60, 189, 642
PspGI	CCWGG	3 cut(s)	60, 189, 642
PspN4I	GGNNCC	1 cut(s)	43
PspPI	GGNCC	1 cut(s)	41
PvuII	CAGCTG	1 cut(s)	298
RsaI	GTAC	4 cut(s)	242, 526, 593, 619
RsaNI	GTAC	4 cut(s)	241, 525, 592, 618
SalI	GTCGAC	1 cut(s)	364
SaqAI	TTAA	2 cut(s)	324, 569
SatI	GCNGC	2 cut(s)	123, 437
Sau96I	GGNCC	1 cut(s)	41
SchI	GAGTC	3 cut(s)	62, 341, 472
ScrFI	CCNGG	3 cut(s)	62, 191, 644
SduI	GDGCHC	1 cut(s)	432
SexAI	ACCWGGT	1 cut(s)	189
SfaNI	GCATC	4 cut(s)	130, 134, 268, 490
SfcI	CTRYAG	1 cut(s)	225
SinI	GGWCC	1 cut(s)	41
SmlI	CTYRAG	1 cut(s)	595
SmoI	CTYRAG	1 cut(s)	595
Sse9I	AATT	2 cut(s)	606, 654
SsiI	CCGC	2 cut(s)	122, 230
SspI	AATATT	1 cut(s)	322
StyD4I	CCNGG	3 cut(s)	60, 189, 642
TaaI	ACNGT	2 cut(s)	245, 451
TaiI	ACGT	2 cut(s)	263, 359
TaqI	TCGA	5 cut(s)	51, 255, 353, 365, 392
TasI	AATT	2 cut(s)	606, 654
TatI	WGTACW	2 cut(s)	524, 591
TauI	GCSGC	1 cut(s)	125
Tru1I	TTAA	2 cut(s)	324, 569
Tru9I	TTAA	2 cut(s)	324, 569
TscAI	CASTG	1 cut(s)	534
TseI	GCWGC	1 cut(s)	436
TspDTI	ATGAA	2 cut(s)	288, 560
TspRI	CASTG	1 cut(s)	534
VpaK11BI	GGWCC	1 cut(s)	41
XmiI	GTMKAC	2 cut(s)	365, 491

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