Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0006601

Physical Location & Seq

Genomic Coordinates Forward (+)

41479243 .. 41485255

Gene Structure 6013 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG213500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1050 bp

ATGGCTACGACGTCGTATTTGGACCTCAATCGCTGCGGGCCACTCCCGCACTCTCTCTCCTCTCTCTCCGCCTGTCCCTGCCGTCCCTCCGCCGTTACTCTCCCTCGTTCCCGCGCCAGATTGGGTGGTCTAGACTTTTCCATCGATGGAACTAGACCTGTTGTTGGGCTCGGCCCAACTAGAGGCTTCTTGGGCCGCCACCGCCGCCGCCTAATCGCCGCCGTGGCTCGAGCCGACCCGGACCATCTGCCCGACGGCAATGCCAAACAGGAAGTCCACAAAGACCATGAATTGTCGGTGAATGAAGATGCGGTCGCGGAGAATCAAGAGAAGGCGAATCAGTTAAAAAAAAGGATTGTTTTTGGACTTGGCATTGGATTATCTATTGGAATTGTTGTGTTGGCTGGAGGATGGGTATTCACAACAGTTGTGGCTGCAGCTGTATTTGTTGGCGCACGGGAGTATTTTGAATTGGTTAGGAGTCGTGGAATTACTGCAGGAATGACCCCTCCACCTAGATACGTTTCACGAGTTTGTTCTGTTATTTGTGCTCTCATGCCCTTACTTACCTTGTATCGCGGTCAGATTGATGTTTCTGTGACATCTGCTGCCTTTTTGGTTGCTATGGCATTGCATTTGCAGAGAGGAAATCCTCGCTTTGCACAGCTCAGTAGCACCATGTTTGGGCTATTTTATTGTGGATATCTTCCCTGCTTTTGGGTTAAGCTTCGATGTGGTTTAGCGGCCCCAGCCTTAAACACTGGAATTGGAGCATCATGGCCCATCCTTCTCGGTGGACAAGCTCAGTGGACCGTTGGCCTTGTTGCAACCTTGATTTCATTCAGCAGCATTATTGCAGCCGACACTTATGCTTTTATGGGTGGCAAGGTATCTTGGCTCTTGAAATTGCTCTGCAGCACATCTACAATGAAATTTGTTATAGATCTATGGTTGTTCATTTGGAAATTTTCTTTTAAGTTTAGTTTTCTTGGTATTCTCAATTCTTATGAAATATGCCATGCAACTGAGGTCCGAGAGTGGGCTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004605 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006220 GO:0006221 GO:0006629 GO:0006644 GO:0006650 GO:0006655 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0008654 GO:0009058 GO:0009117 GO:0009165 GO:0009507 GO:0009526 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009941 GO:0009987 GO:0016020 GO:0016024 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0019637 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0034357 GO:0034641 GO:0034654 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0045017 GO:0046341 GO:0046471 GO:0046474 GO:0046483 GO:0046486 GO:0055035 GO:0055086 GO:0070567 GO:0071704 GO:0072527 GO:0072528 GO:0090407 GO:1901293 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00564 ko01100 ko01110 ko04070 map00564 map01100 map01110 map04070

Pfam Domains

Protein Families

CTP_transf_1

Protein Analysis

349

Amino Acids

37.96

Weight (kDa)

9.48

Isoelectric Point (pI)

29.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CTP_transf_1	PF01148	116 - 298	1.6e-15	Cytidylyltransferase family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006601)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G45150 AT2G45150 AT2G45150 AT3G60620 AT3G60620
fragaria_vesca	FvH4_7g11110 FvH4_7g11110
malus_domestica	MD02G1210300.v1.1 MD07G1115700.v1.1
prunus_persica	Prupe.2G138300_v2.0.a1 Prupe.2G138300_v2.0.a1
pyrus_communis	pycom02g17210 pycom07g10870
rosa_chinensis	RchiOBHm_Chr1g0349131
rosa_laevigata	RLG00000028603
rosa_multiflora	Rmu_sc0008324.1_g000008 Rmu_sc0012100.1_g000013
rosa_roxburghii	Rroxscaffold_4G00306080
rosa_rugosa	Rorug01G0200400 Rorug01G0200500 Rorug01G0200600
rosa_samantha	Rh1AG218300 Rh1BG183700 Rh1CG202800 Rh1DG213500
rosa_wichuraiana	Rw1G018540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	14
AccII	CGCG	3 cut(s)	114, 317, 579
AcsI	RAATTY	2 cut(s)	932, 965
AcyI	GRCGYC	1 cut(s)	11
AfiI	CCNNNNNNNGG	5 cut(s)	164, 182, 684, 717, 1039
AgsI	TTSAA	2 cut(s)	470, 904
AluBI	AGCT	4 cut(s)	440, 667, 727, 803
AluI	AGCT	4 cut(s)	440, 667, 727, 803
Alw21I	GWGCWC	1 cut(s)	553
Ama87I	CYCGRG	1 cut(s)	228
AoxI	GGCC	6 cut(s)	38, 172, 193, 744, 779, 817
ApeKI	GCWGC	7 cut(s)	33, 434, 437, 608, 846, 857, 915
ApoI	RAATTY	2 cut(s)	932, 965
ArsI	GACNNNNNNTTYG	3 cut(s)	33, 258, 290
AspLEI	GCGC	2 cut(s)	116, 455
AspS9I	GGNCC	9 cut(s)	22, 38, 173, 193, 241, 745, 780, 810, 1030
AsuC2I	CCSGG	1 cut(s)	239
AsuHPI	GGTGA	1 cut(s)	310
AvaI	CYCGRG	1 cut(s)	228
AvaII	GGWCC	4 cut(s)	22, 241, 810, 1030
BanII	GRGCYC	1 cut(s)	171
BauI	CACGAG	1 cut(s)	528
Bbv12I	GWGCWC	1 cut(s)	553
BbvI	GCAGC	7 cut(s)	20, 421, 449, 595, 858, 869, 927
BccI	CCATC	5 cut(s)	140, 149, 252, 405, 791
BceAI	ACGGC	4 cut(s)	66, 77, 206, 271
BcgI	CGANNNNNNTGC	4 cut(s)	242, 276, 851, 885
BcnI	CCSGG	1 cut(s)	239
BfaI	CTAG	4 cut(s)	131, 153, 180, 516
BfmI	CTRYAG	3 cut(s)	435, 495, 913
BglI	GCCNNNNNGGC	1 cut(s)	224
BglII	AGATCT	1 cut(s)	943
Bme1390I	CCNGG	1 cut(s)	239
Bme18I	GGWCC	4 cut(s)	22, 241, 810, 1030
BmeT110I	CYCGRG	1 cut(s)	228
BmgT120I	GGNCC	9 cut(s)	22, 38, 173, 193, 241, 745, 780, 810, 1030
BmiI	GGNNCC	1 cut(s)	747
BmrFI	CCNGG	1 cut(s)	239
BmsI	GCATC	2 cut(s)	298, 782
BpmI	CTGGAG	1 cut(s)	426
BpuMI	CCSGG	1 cut(s)	239
Bsa29I	ATCGAT	1 cut(s)	144
BsaHI	GRCGYC	1 cut(s)	11
BsaJI	CCNNGG	1 cut(s)	222
BsaXI	ACNNNNNCTCC	4 cut(s)	41, 71, 399, 429
Bsc4I	CCNNNNNNNGG	5 cut(s)	164, 182, 684, 717, 1039
Bse1I	ACTGG	1 cut(s)	766
Bse3DI	GCAATG	2 cut(s)	265, 629
BseCI	ATCGAT	1 cut(s)	144
BseDI	CCNNGG	1 cut(s)	222
BseGI	GGATG	2 cut(s)	416, 783
BseLI	CCNNNNNNNGG	5 cut(s)	164, 182, 684, 717, 1039
BseMI	GCAATG	2 cut(s)	265, 629
BseMII	CTCAG	3 cut(s)	682, 818, 1017
BseNI	ACTGG	1 cut(s)	766
BseRI	GAGGAG	1 cut(s)	49
BseXI	GCAGC	7 cut(s)	20, 421, 449, 595, 858, 869, 927
BseYI	CCCAGC	1 cut(s)	748
Bsh1236I	CGCG	3 cut(s)	114, 317, 579
Bsh1285I	CGRYCG	1 cut(s)	315
BshFI	GGCC	6 cut(s)	40, 174, 195, 746, 781, 819
BshVI	ATCGAT	1 cut(s)	144
BsiEI	CGRYCG	1 cut(s)	315
BsiHKAI	GWGCWC	1 cut(s)	553
BsiHKCI	CYCGRG	1 cut(s)	228
BsiSI	CCGG	1 cut(s)	239
BslFI	GGGAC	2 cut(s)	60, 69
BslI	CCNNNNNNNGG	5 cut(s)	164, 182, 684, 717, 1039
BsmFI	GGGAC	2 cut(s)	60, 69
BsnI	GGCC	6 cut(s)	40, 174, 195, 746, 781, 819
BsoBI	CYCGRG	1 cut(s)	228
Bsp1286I	GDGCHC	2 cut(s)	171, 553
Bsp143I	GATC	1 cut(s)	943
BspANI	GGCC	6 cut(s)	40, 174, 195, 746, 781, 819
BspCNI	CTCAG	3 cut(s)	681, 817, 1018
BspDI	ATCGAT	1 cut(s)	144
BspFNI	CGCG	3 cut(s)	114, 317, 579
BspLI	GGNNCC	1 cut(s)	747
BspMAI	CTGCAG	3 cut(s)	439, 499, 917
BsrDI	GCAATG	2 cut(s)	265, 629
BsrI	ACTGG	1 cut(s)	766
BssECI	CCNNGG	1 cut(s)	222
BssMI	GATC	1 cut(s)	943
BssNI	GRCGYC	1 cut(s)	11
BssSI	CACGAG	1 cut(s)	528
Bst2BI	CACGAG	1 cut(s)	528
Bst4CI	ACNGT	2 cut(s)	427, 814
BstACI	GRCGYC	1 cut(s)	11
BstC8I	GCNNGC	1 cut(s)	38
BstDEI	CTNAG	3 cut(s)	668, 804, 1026
BstDSI	CCRYGG	1 cut(s)	222
BstF5I	GGATG	2 cut(s)	416, 783
BstFNI	CGCG	3 cut(s)	114, 317, 579
BstHHI	GCGC	2 cut(s)	116, 455
BstKTI	GATC	1 cut(s)	946
BstMBI	GATC	1 cut(s)	943
BstMCI	CGRYCG	1 cut(s)	315
BstMWI	GCNNNNNNNGC	6 cut(s)	46, 192, 201, 204, 224, 749
BstSCI	CCNGG	1 cut(s)	237
BstSFI	CTRYAG	3 cut(s)	435, 495, 913
BstUI	CGCG	3 cut(s)	114, 317, 579
BstV1I	GCAGC	7 cut(s)	20, 421, 449, 595, 858, 869, 927
BstX2I	RGATCY	1 cut(s)	943
BstYI	RGATCY	1 cut(s)	943
Bsu15I	ATCGAT	1 cut(s)	144
BsuRI	GGCC	6 cut(s)	40, 174, 195, 746, 781, 819
BsuTUI	ATCGAT	1 cut(s)	144
BtgI	CCRYGG	1 cut(s)	222
BtsCI	GGATG	2 cut(s)	416, 783
BtsIMutI	CAGTG	2 cut(s)	759, 812
Cac8I	GCNNGC	1 cut(s)	38
CfoI	GCGC	2 cut(s)	116, 455
Cfr13I	GGNCC	9 cut(s)	22, 38, 173, 193, 241, 745, 780, 810, 1030
ClaI	ATCGAT	1 cut(s)	144
CspCI	CAANNNNNGTGG	4 cut(s)	411, 446, 788, 823
CviAII	CATG	5 cut(s)	287, 556, 679, 777, 1019
DdeI	CTNAG	3 cut(s)	668, 804, 1026
DpnI	GATC	1 cut(s)	945
DpnII	GATC	1 cut(s)	943
EciI	GGCGGA	2 cut(s)	58, 79
Eco24I	GRGCYC	1 cut(s)	171
Eco32I	GATATC	1 cut(s)	704
Eco47I	GGWCC	4 cut(s)	22, 241, 810, 1030
Eco88I	CYCGRG	1 cut(s)	228
EcoRV	GATATC	1 cut(s)	704
EcoT38I	GRGCYC	1 cut(s)	171
FaeI	CATG	5 cut(s)	290, 559, 682, 780, 1022
FaqI	GGGAC	2 cut(s)	60, 69
FatI	CATG	5 cut(s)	286, 555, 678, 776, 1018
FauI	CCCGC	3 cut(s)	29, 54, 119
FokI	GGATG	2 cut(s)	423, 770
FriOI	GRGCYC	1 cut(s)	171
FspBI	CTAG	4 cut(s)	131, 153, 180, 516
GlaI	GCGC	2 cut(s)	115, 454
GsaI	CCCAGC	1 cut(s)	752
GsuI	CTGGAG	1 cut(s)	426
HaeIII	GGCC	6 cut(s)	40, 174, 195, 746, 781, 819
HapII	CCGG	1 cut(s)	239
HhaI	GCGC	2 cut(s)	116, 455
Hin1I	GRCGYC	1 cut(s)	11
Hin1II	CATG	5 cut(s)	290, 559, 682, 780, 1022
Hin6I	GCGC	2 cut(s)	114, 453
HinP1I	GCGC	2 cut(s)	114, 453
HindIII	AAGCTT	1 cut(s)	725
HinfI	GANTC	3 cut(s)	322, 337, 481
HpaII	CCGG	1 cut(s)	239
HphI	GGTGA	1 cut(s)	310
Hpy166II	GTNNAC	3 cut(s)	277, 797, 810
Hpy188I	TCNGA	2 cut(s)	585, 1034
Hpy188III	TCNNGA	5 cut(s)	131, 326, 528, 901, 1047
Hpy8I	GTNNAC	3 cut(s)	277, 797, 810
Hpy99I	CGWCG	3 cut(s)	13, 16, 257
HpyAV	CCTTC	2 cut(s)	325, 797
HpyCH4III	ACNGT	2 cut(s)	427, 814
HpyCH4IV	ACGT	2 cut(s)	11, 522
HpyCH4V	TGCA	9 cut(s)	437, 497, 634, 640, 662, 827, 857, 915, 1022
HpyF10VI	GCNNNNNNNGC	6 cut(s)	46, 192, 201, 204, 224, 749
HpyF3I	CTNAG	3 cut(s)	668, 804, 1026
HpySE526I	ACGT	2 cut(s)	11, 522
Hsp92I	GRCGYC	1 cut(s)	11
Hsp92II	CATG	5 cut(s)	290, 559, 682, 780, 1022
HspAI	GCGC	2 cut(s)	114, 453
Kzo9I	GATC	1 cut(s)	943
LmnI	GCTCC	1 cut(s)	770
Lsp1109I	GCAGC	7 cut(s)	20, 421, 449, 595, 858, 869, 927
LweI	GCATC	2 cut(s)	298, 782
MaeI	CTAG	4 cut(s)	131, 153, 180, 516
MaeII	ACGT	2 cut(s)	11, 522
MaeIII	GTNAC	2 cut(s)	94, 598
MalI	GATC	1 cut(s)	945
MboI	GATC	1 cut(s)	943
MboII	GAAGA	2 cut(s)	317, 698
MflI	RGATCY	1 cut(s)	943
MhlI	GDGCHC	2 cut(s)	171, 553
MluCI	AATT	9 cut(s)	290, 390, 470, 489, 765, 905, 932, 965, 1000
MlyI	GAGTC	1 cut(s)	490
MseI	TTAA	4 cut(s)	344, 723, 755, 975
MspA1I	CMGCKG	1 cut(s)	440
MspI	CCGG	1 cut(s)	239
MspR9I	CCNGG	1 cut(s)	239
MvnI	CGCG	3 cut(s)	114, 317, 579
MwoI	GCNNNNNNNGC	6 cut(s)	46, 192, 201, 204, 224, 749
NciI	CCSGG	1 cut(s)	239
NdeII	GATC	1 cut(s)	943
NlaIII	CATG	5 cut(s)	290, 559, 682, 780, 1022
NlaIV	GGNNCC	1 cut(s)	747
NmeAIII	GCCGAG	1 cut(s)	150
NmuCI	GTSAC	1 cut(s)	598
PaeR7I	CTCGAG	1 cut(s)	228
PfeI	GAWTC	2 cut(s)	322, 337
PleI	GAGTC	1 cut(s)	489
PpsI	GAGTC	1 cut(s)	489
PspFI	CCCAGC	1 cut(s)	748
PspN4I	GGNNCC	1 cut(s)	747
PspPI	GGNCC	9 cut(s)	22, 38, 173, 193, 241, 745, 780, 810, 1030
PspXI	VCTCGAGB	1 cut(s)	228
PstI	CTGCAG	3 cut(s)	439, 499, 917
PsuI	RGATCY	1 cut(s)	943
PvuII	CAGCTG	1 cut(s)	440
SaqAI	TTAA	4 cut(s)	344, 723, 755, 975
Sau3AI	GATC	1 cut(s)	943
Sau96I	GGNCC	9 cut(s)	22, 38, 173, 193, 241, 745, 780, 810, 1030
SchI	GAGTC	1 cut(s)	490
ScrFI	CCNGG	1 cut(s)	239
SduI	GDGCHC	2 cut(s)	171, 553
SfaNI	GCATC	2 cut(s)	298, 782
SfcI	CTRYAG	3 cut(s)	435, 495, 913
Sfr274I	CTCGAG	1 cut(s)	228
SinI	GGWCC	4 cut(s)	22, 241, 810, 1030
SlaI	CTCGAG	1 cut(s)	228
SmlI	CTYRAG	1 cut(s)	228
SmoI	CTYRAG	1 cut(s)	228
Sse9I	AATT	9 cut(s)	290, 390, 470, 489, 765, 905, 932, 965, 1000
SspMI	CTAG	4 cut(s)	131, 153, 180, 516
StyD4I	CCNGG	1 cut(s)	237
TaaI	ACNGT	2 cut(s)	427, 814
TaiI	ACGT	2 cut(s)	14, 525
TaqI	TCGA	3 cut(s)	144, 229, 730
TasI	AATT	9 cut(s)	290, 390, 470, 489, 765, 905, 932, 965, 1000
TauI	GCSGC	5 cut(s)	198, 207, 210, 221, 746
TfiI	GAWTC	2 cut(s)	322, 337
Tru1I	TTAA	4 cut(s)	344, 723, 755, 975
Tru9I	TTAA	4 cut(s)	344, 723, 755, 975
TscAI	CASTG	2 cut(s)	766, 812
TseFI	GTSAC	1 cut(s)	598
TseI	GCWGC	7 cut(s)	33, 434, 437, 608, 846, 857, 915
Tsp45I	GTSAC	1 cut(s)	598
TspDTI	ATGAA	6 cut(s)	303, 318, 828, 944, 946, 1023
TspRI	CASTG	2 cut(s)	766, 812
VpaK11BI	GGWCC	4 cut(s)	22, 241, 810, 1030
XapI	RAATTY	2 cut(s)	932, 965
XbaI	TCTAGA	1 cut(s)	130
XhoI	CTCGAG	1 cut(s)	228
XspI	CTAG	4 cut(s)	131, 153, 180, 516
ZraI	GACGTC	1 cut(s)	12

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