Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0011523

Physical Location & Seq

Genomic Coordinates Forward (+)

206525 .. 210829

Gene Structure 4305 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG001800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1434 bp

ATGAATTGTTCGCTAAGGTTGCTTCGTCTGCGTAAAAAGTCAACTACGTTCCGGAATATATCTACTCAGGTGGAAATCCTGGCAAAAAGAAAGTTCTTATACAGGCATCTTGCTCAGATAAAATTTATACTTCCTGAAGCCATAAAGATAGATTGGGTTTTGGTGTCCGACAAGGAAACTCAATTCATGAAGCCGGATATAAACATCAGCTTGCTATTTGATATTGTAAAAGGTCACCGTGAGATATCTGATTTTACAGCTTTGCGCCAAGTTTTTGCTTCTAGGCTTATGAGTTTCTTTGCAATGCATCCTGAGGCTTCTGATGTTCCGGAGGCCATATTGCCAGAGCCTTTTAGCAAAAGAAGTCAGATACCTGTCCTGAAGCAATTGTCTACAGATTCTTCGATGGAACCTAAACCAACTTCAATTGAAACTGAGCTGTTGTCAGAAAAAGTCTGTCCATATCCATATATCAGTAGACACTTTTCGCGGAATAATGTTATTGCTAAAACAGAAAAAACCCAAGTCTTATCATCTTCACTACCTCTGCCATCGGCTGATGGTATGAATAACCAAAGTATTAAAAGTGGGCTGCAGAAAGAGTTTCATGTTGTGTCTTACGATCCTGAGCAAGACATAAAAAATTGGCAGCGGAAAGAATCATGCTCCAAATCCAGTATTATTGACCACTCAATACATCTGAATCACCCTCAGCCTTCTATTGGTTCCAGCATACCTGATAGCCCTCTTGTGAAGCTCACCTCATCCGCCAATAGTTTGATGATAGAAACACCTCAACCATTGACACCAAGGAGATCAATGCCCAGTTGTGATGCCAAGCATGAGACCTTGAACACCCAAAAATCAACATCTTGTTATAAGCCTGCAAAAAGAGTTCTAGACTTCTCTGACCTAGAAGGTGATAAAAGTGCATTGGACTACACTGCAGATGAGTCAGGATGCTACAATATTGTACACCAAGACATCCCTAAAGCTATAGGAAAAACTGTCGGAGATAGATACCTCACTTGTTCTCCAGCAAGGCAAGAGGTAGAACGGGTCCTTGGTTGCTCTAATGAGGATGGCAAGAAGACTCAAACAAGCTCATTGATGCGCCTGCAGTTGTCTACTCGCCTAGCTGACATGGTTACTCTAATTTATGGTGTATTGAAGTCTTTTAACTGGTCTCCTATCACCAAAGAGGAGCTTGTGCACAAGATAATTATGAATAGTCTTGATATTACTGAAAGAAAAGAAGTTGAAGAACAGTTTGGGCTTCTTGAAAGGCATGTTCCAGATTGGATCCAGAGCAAGTTGCTTTCTAGTGGGGATATTATGTACACTGTCAAGAAAGTGCCAAATTTGGACGCAGTTCTATCAAAGCTCAAGCATCTGACTGTTTCAGACCAAAAGGTGGAAGCATCTGAGGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CDT1 CDT1_C

Protein Analysis

477

Amino Acids

53.9

Weight (kDa)

8.58

Isoelectric Point (pI)

52.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CDT1	PF08839	6 - 54	4.3e-07	DNA replication factor CDT1 like
CDT1_C	PF16679	365 - 438	2.4e-08	DNA replication factor Cdt1 C-terminal domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0011523)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g21760 FvH4_5g18520 FvH4_5g18520
malus_domestica	MD10G1150800.v1.1 MD14G1246400.v1.1
prunus_persica	Prupe.5G244700_v2.0.a1 Prupe.5G244700_v2.0.a1 Prupe.5G244700_v2.0.a1 Prupe.8G198500_v2.0.a1
pyrus_communis	pycom05g17860
rosa_chinensis	RchiOBHm_Chr7g0176981
rosa_laevigata	RLG00000005566
rosa_multiflora	Rmu_sc0005310.1_g000033
rosa_roxburghii	Rroxscaffold_3G00276190
rosa_rugosa	Rorug06G0402800
rosa_samantha	Rh7AG002100 Rh7BG002500 Rh7CG001800 Rh7DG002400
rosa_wichuraiana	Rw7G000160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	879
AccB7I	CCANNNNNTGG	1 cut(s)	1414
AccI	GTMKAC	3 cut(s)	392, 478, 1127
AccII	CGCG	1 cut(s)	490
AccIII	TCCGGA	2 cut(s)	51, 328
AciI	CCGC	3 cut(s)	490, 652, 768
AclWI	GGATC	3 cut(s)	617, 1297, 1310
AcsI	RAATTY	2 cut(s)	122, 1360
AcuI	CTGAAG	2 cut(s)	156, 401
AfaI	GTAC	2 cut(s)	975, 1340
AfiI	CCNNNNNNNGG	2 cut(s)	722, 1414
AgsI	TTSAA	6 cut(s)	426, 431, 853, 1171, 1262, 1283
AjnI	CCWGG	1 cut(s)	78
AjuI	GAANNNNNNNTTGG	4 cut(s)	1047, 1079, 1254, 1286
AluBI	AGCT	9 cut(s)	210, 260, 439, 757, 995, 1104, 1139, 1207, 1384
AluI	AGCT	9 cut(s)	210, 260, 439, 757, 995, 1104, 1139, 1207, 1384
Alw21I	GWGCWC	1 cut(s)	1215
Alw26I	GTCTC	2 cut(s)	839, 1191
Alw44I	GTGCAC	1 cut(s)	1211
AlwI	GGATC	3 cut(s)	617, 1297, 1310
Aor13HI	TCCGGA	2 cut(s)	51, 328
AoxI	GGCC	1 cut(s)	333
ApaLI	GTGCAC	1 cut(s)	1211
ApeKI	GCWGC	2 cut(s)	592, 649
ApoI	RAATTY	2 cut(s)	122, 1360
AspLEI	GCGC	2 cut(s)	267, 1116
AspS9I	GGNCC	1 cut(s)	1060
AsuHPI	GGTGA	5 cut(s)	227, 698, 751, 932, 1186
AvaII	GGWCC	1 cut(s)	1060
AxyI	CCTNAGG	1 cut(s)	312
BaeGI	GKGCMC	1 cut(s)	1215
BamHI	GGATCC	1 cut(s)	1302
BbsI	GAAGAC	1 cut(s)	1097
Bbv12I	GWGCWC	1 cut(s)	1215
BbvCI	CCTCAGC	1 cut(s)	711
BbvI	GCAGC	2 cut(s)	579, 661
BccI	CCATC	4 cut(s)	400, 554, 559, 1076
BciT130I	CCWGG	1 cut(s)	80
BcoDI	GTCTC	2 cut(s)	839, 1191
BfaI	CTAG	5 cut(s)	282, 899, 914, 1136, 1323
BfmI	CTRYAG	5 cut(s)	393, 593, 945, 996, 1118
BisI	GCNGC	2 cut(s)	593, 650
BlsI	GCNGC	2 cut(s)	594, 651
Bme1390I	CCNGG	1 cut(s)	80
Bme18I	GGWCC	1 cut(s)	1060
BmgT120I	GGNCC	1 cut(s)	1060
BmiI	GGNNCC	4 cut(s)	411, 727, 1061, 1304
BmrFI	CCNGG	1 cut(s)	80
BmrI	ACTGGG	1 cut(s)	819
BmsI	GCATC	7 cut(s)	115, 316, 823, 950, 1101, 1399, 1430
BmuI	ACTGGG	1 cut(s)	819
BpiI	GAAGAC	1 cut(s)	1097
BpmI	CTGGAG	1 cut(s)	1020
Bpu10I	CCTNAGC	3 cut(s)	14, 627, 711
BpuEI	CTTGAG	1 cut(s)	1370
BsaI	GGTCTC	2 cut(s)	839, 1191
BsaJI	CCNNGG	2 cut(s)	809, 1063
BsaWI	WCCGGW	2 cut(s)	51, 328
BsaXI	ACNNNNNCTCC	2 cut(s)	1018, 1048
Bsc4I	CCNNNNNNNGG	2 cut(s)	722, 1414
Bse1I	ACTGG	3 cut(s)	675, 825, 1187
Bse21I	CCTNAGG	1 cut(s)	312
Bse3DI	GCAATG	1 cut(s)	309
BseAI	TCCGGA	2 cut(s)	51, 328
BseBI	CCWGG	1 cut(s)	80
BseDI	CCNNGG	2 cut(s)	809, 1063
BseGI	GGATG	5 cut(s)	307, 764, 965, 984, 1087
BseLI	CCNNNNNNNGG	2 cut(s)	722, 1414
BseMI	GCAATG	1 cut(s)	309
BseMII	CTCAG	7 cut(s)	80, 128, 303, 426, 618, 725, 1416
BseNI	ACTGG	3 cut(s)	675, 825, 1187
BseRI	GAGGAG	1 cut(s)	1217
BseSI	GKGCMC	1 cut(s)	1215
BseXI	GCAGC	2 cut(s)	579, 661
Bsh1236I	CGCG	1 cut(s)	490
BshFI	GGCC	1 cut(s)	335
BsiHKAI	GWGCWC	1 cut(s)	1215
BsiSI	CCGG	3 cut(s)	52, 194, 329
BslI	CCNNNNNNNGG	2 cut(s)	722, 1414
BsmAI	GTCTC	2 cut(s)	839, 1191
BsnI	GGCC	1 cut(s)	335
Bso31I	GGTCTC	2 cut(s)	839, 1191
Bsp1286I	GDGCHC	1 cut(s)	1215
Bsp13I	TCCGGA	2 cut(s)	51, 328
Bsp1407I	TGTACA	2 cut(s)	973, 1338
Bsp143I	GATC	3 cut(s)	622, 815, 1302
BspACI	CCGC	3 cut(s)	490, 652, 768
BspANI	GGCC	1 cut(s)	335
BspCNI	CTCAG	7 cut(s)	79, 127, 304, 427, 619, 724, 1417
BspEI	TCCGGA	2 cut(s)	51, 328
BspFNI	CGCG	1 cut(s)	490
BspHI	TCATGA	1 cut(s)	186
BspLI	GGNNCC	4 cut(s)	411, 727, 1061, 1304
BspMAI	CTGCAG	3 cut(s)	597, 949, 1122
BspPI	GGATC	3 cut(s)	617, 1297, 1310
BspTNI	GGTCTC	2 cut(s)	839, 1191
BsrDI	GCAATG	1 cut(s)	309
BsrGI	TGTACA	2 cut(s)	973, 1338
BsrI	ACTGG	3 cut(s)	675, 825, 1187
BssECI	CCNNGG	2 cut(s)	809, 1063
BssMI	GATC	3 cut(s)	622, 815, 1302
BssT1I	CCWWGG	2 cut(s)	809, 1063
Bst2UI	CCWGG	1 cut(s)	80
Bst4CI	ACNGT	5 cut(s)	239, 1009, 1269, 1345, 1399
BstAUI	TGTACA	2 cut(s)	973, 1338
BstC8I	GCNNGC	3 cut(s)	212, 885, 1118
BstDEI	CTNAG	8 cut(s)	14, 66, 114, 312, 435, 627, 711, 1425
BstEII	GGTNACC	1 cut(s)	233
BstF5I	GGATG	5 cut(s)	307, 764, 965, 984, 1087
BstFNI	CGCG	1 cut(s)	490
BstHHI	GCGC	2 cut(s)	267, 1116
BstKTI	GATC	3 cut(s)	625, 818, 1305
BstMAI	GTCTC	2 cut(s)	839, 1191
BstMBI	GATC	3 cut(s)	622, 815, 1302
BstMWI	GCNNNNNNNGC	2 cut(s)	19, 28
BstNI	CCWGG	1 cut(s)	80
BstNSI	RCATGY	1 cut(s)	1292
BstPI	GGTNACC	1 cut(s)	233
BstSCI	CCNGG	1 cut(s)	78
BstSFI	CTRYAG	5 cut(s)	393, 593, 945, 996, 1118
BstSLI	GKGCMC	1 cut(s)	1215
BstUI	CGCG	1 cut(s)	490
BstV1I	GCAGC	2 cut(s)	579, 661
BstV2I	GAAGAC	1 cut(s)	1097
BstX2I	RGATCY	1 cut(s)	1302
BstYI	RGATCY	1 cut(s)	1302
Bsu36I	CCTNAGG	1 cut(s)	312
BsuRI	GGCC	1 cut(s)	335
BtsCI	GGATG	5 cut(s)	307, 764, 965, 984, 1087
BtsI	GCAGTG	1 cut(s)	942
BtsIMutI	CAGTG	2 cut(s)	942, 1341
Cac8I	GCNNGC	3 cut(s)	212, 885, 1118
CciI	TCATGA	1 cut(s)	186
CfoI	GCGC	2 cut(s)	267, 1116
Cfr13I	GGNCC	1 cut(s)	1060
CseI	GACGC	1 cut(s)	1376
Csp6I	GTAC	2 cut(s)	974, 1339
CviAII	CATG	6 cut(s)	187, 608, 663, 842, 1144, 1289
CviQI	GTAC	2 cut(s)	974, 1339
DdeI	CTNAG	8 cut(s)	14, 66, 114, 312, 435, 627, 711, 1425
DpnI	GATC	3 cut(s)	624, 817, 1304
DpnII	GATC	3 cut(s)	622, 815, 1302
EciI	GGCGGA	1 cut(s)	757
Eco130I	CCWWGG	2 cut(s)	809, 1063
Eco31I	GGTCTC	2 cut(s)	839, 1191
Eco32I	GATATC	1 cut(s)	246
Eco47I	GGWCC	1 cut(s)	1060
Eco57I	CTGAAG	2 cut(s)	156, 401
Eco81I	CCTNAGG	1 cut(s)	312
Eco91I	GGTNACC	1 cut(s)	233
EcoO109I	RGGNCCY	1 cut(s)	1060
EcoO65I	GGTNACC	1 cut(s)	233
EcoRII	CCWGG	1 cut(s)	78
EcoRV	GATATC	1 cut(s)	246
EcoT14I	CCWWGG	2 cut(s)	809, 1063
EcoT22I	ATGCAT	1 cut(s)	309
ErhI	CCWWGG	2 cut(s)	809, 1063
FaeI	CATG	6 cut(s)	190, 611, 666, 845, 1147, 1292
FalI	AAGNNNNNCTT	2 cut(s)	1191, 1223
FatI	CATG	6 cut(s)	186, 607, 662, 841, 1143, 1288
FblI	GTMKAC	3 cut(s)	392, 478, 1127
Fnu4HI	GCNGC	2 cut(s)	593, 650
FokI	GGATG	5 cut(s)	294, 751, 971, 972, 1094
Fsp4HI	GCNGC	2 cut(s)	593, 650
FspBI	CTAG	5 cut(s)	282, 899, 914, 1136, 1323
GlaI	GCGC	2 cut(s)	266, 1115
GluI	GCNGC	2 cut(s)	593, 650
GsuI	CTGGAG	1 cut(s)	1020
HaeIII	GGCC	1 cut(s)	335
HapII	CCGG	3 cut(s)	52, 194, 329
HgaI	GACGC	1 cut(s)	1376
HhaI	GCGC	2 cut(s)	267, 1116
Hin1II	CATG	6 cut(s)	190, 611, 666, 845, 1147, 1292
Hin6I	GCGC	2 cut(s)	265, 1114
HinP1I	GCGC	2 cut(s)	265, 1114
HincII	GTYRAC	1 cut(s)	42
HindII	GTYRAC	1 cut(s)	42
HinfI	GANTC	5 cut(s)	398, 659, 703, 953, 1093
HpaII	CCGG	3 cut(s)	52, 194, 329
HphI	GGTGA	5 cut(s)	227, 698, 751, 932, 1186
Hpy166II	GTNNAC	7 cut(s)	42, 393, 479, 976, 1128, 1213, 1341
Hpy8I	GTNNAC	7 cut(s)	42, 393, 479, 976, 1128, 1213, 1341
HpyAV	CCTTC	2 cut(s)	726, 911
HpyCH4III	ACNGT	5 cut(s)	239, 1009, 1269, 1345, 1399
HpyCH4IV	ACGT	1 cut(s)	47
HpyCH4V	TGCA	8 cut(s)	302, 307, 595, 887, 932, 947, 1120, 1213
HpyF10VI	GCNNNNNNNGC	2 cut(s)	19, 28
HpyF3I	CTNAG	8 cut(s)	14, 66, 114, 312, 435, 627, 711, 1425
HpySE526I	ACGT	1 cut(s)	47
Hsp92II	CATG	6 cut(s)	190, 611, 666, 845, 1147, 1292
HspAI	GCGC	2 cut(s)	265, 1114
Kpn2I	TCCGGA	2 cut(s)	51, 328
Kzo9I	GATC	3 cut(s)	622, 815, 1302
LmnI	GCTCC	2 cut(s)	671, 1204
Lsp1109I	GCAGC	2 cut(s)	579, 661
LweI	GCATC	7 cut(s)	115, 316, 823, 950, 1101, 1399, 1430
MaeI	CTAG	5 cut(s)	282, 899, 914, 1136, 1323
MaeII	ACGT	1 cut(s)	47
MaeIII	GTNAC	2 cut(s)	233, 1147
MalI	GATC	3 cut(s)	624, 817, 1304
MboI	GATC	3 cut(s)	622, 815, 1302
MboII	GAAGA	4 cut(s)	393, 528, 1102, 1274
MfeI	CAATTG	2 cut(s)	386, 426
MflI	RGATCY	1 cut(s)	1302
MhlI	GDGCHC	1 cut(s)	1215
MluCI	AATT	9 cut(s)	4, 122, 182, 386, 426, 643, 1155, 1221, 1360
MlyI	GAGTC	2 cut(s)	962, 1087
MmeI	TCCRAC	2 cut(s)	192, 991
Mph1103I	ATGCAT	1 cut(s)	309
MroI	TCCGGA	2 cut(s)	51, 328
MseI	TTAA	2 cut(s)	582, 1179
MspA1I	CMGCKG	1 cut(s)	652
MspI	CCGG	3 cut(s)	52, 194, 329
MspR9I	CCNGG	1 cut(s)	80
MunI	CAATTG	2 cut(s)	386, 426
MvaI	CCWGG	1 cut(s)	80
MvnI	CGCG	1 cut(s)	490
MwoI	GCNNNNNNNGC	2 cut(s)	19, 28
NdeII	GATC	3 cut(s)	622, 815, 1302
NlaIII	CATG	6 cut(s)	190, 611, 666, 845, 1147, 1292
NlaIV	GGNNCC	4 cut(s)	411, 727, 1061, 1304
NmuCI	GTSAC	1 cut(s)	233
NsiI	ATGCAT	1 cut(s)	309
NspI	RCATGY	1 cut(s)	1292
PagI	TCATGA	1 cut(s)	186
PfeI	GAWTC	3 cut(s)	398, 659, 703
PflMI	CCANNNNNTGG	1 cut(s)	1414
PkrI	GCNGC	2 cut(s)	594, 651
PleI	GAGTC	2 cut(s)	961, 1087
PpsI	GAGTC	2 cut(s)	961, 1087
PpuMI	RGGWCCY	1 cut(s)	1060
PsiI	TTATAA	1 cut(s)	879
Psp5II	RGGWCCY	1 cut(s)	1060
Psp6I	CCWGG	1 cut(s)	78
PspEI	GGTNACC	1 cut(s)	233
PspGI	CCWGG	1 cut(s)	78
PspN4I	GGNNCC	4 cut(s)	411, 727, 1061, 1304
PspPI	GGNCC	1 cut(s)	1060
PspPPI	RGGWCCY	1 cut(s)	1060
PstI	CTGCAG	3 cut(s)	597, 949, 1122
PsuI	RGATCY	1 cut(s)	1302
RsaI	GTAC	2 cut(s)	975, 1340
RsaNI	GTAC	2 cut(s)	974, 1339
SaqAI	TTAA	2 cut(s)	582, 1179
SatI	GCNGC	2 cut(s)	593, 650
Sau3AI	GATC	3 cut(s)	622, 815, 1302
Sau96I	GGNCC	1 cut(s)	1060
SchI	GAGTC	2 cut(s)	962, 1087
ScrFI	CCNGG	1 cut(s)	80
SduI	GDGCHC	1 cut(s)	1215
SfaNI	GCATC	7 cut(s)	115, 316, 823, 950, 1101, 1399, 1430
SfcI	CTRYAG	5 cut(s)	393, 593, 945, 996, 1118
SinI	GGWCC	1 cut(s)	1060
SmlI	CTYRAG	1 cut(s)	1385
SmoI	CTYRAG	1 cut(s)	1385
Sse9I	AATT	9 cut(s)	4, 122, 182, 386, 426, 643, 1155, 1221, 1360
SsiI	CCGC	3 cut(s)	490, 652, 768
SspI	AATATT	1 cut(s)	970
SspMI	CTAG	5 cut(s)	282, 899, 914, 1136, 1323
StyD4I	CCNGG	1 cut(s)	78
StyI	CCWWGG	2 cut(s)	809, 1063
TaaI	ACNGT	5 cut(s)	239, 1009, 1269, 1345, 1399
TaiI	ACGT	1 cut(s)	50
TaqI	TCGA	1 cut(s)	404
TasI	AATT	9 cut(s)	4, 122, 182, 386, 426, 643, 1155, 1221, 1360
TatI	WGTACW	2 cut(s)	973, 1338
TfiI	GAWTC	3 cut(s)	398, 659, 703
Tru1I	TTAA	2 cut(s)	582, 1179
Tru9I	TTAA	2 cut(s)	582, 1179
TscAI	CASTG	2 cut(s)	949, 1348
TseFI	GTSAC	1 cut(s)	233
TseI	GCWGC	2 cut(s)	592, 649
Tsp45I	GTSAC	1 cut(s)	233
TspDTI	ATGAA	6 cut(s)	17, 175, 203, 581, 596, 1241
TspRI	CASTG	2 cut(s)	949, 1348
Van91I	CCANNNNNTGG	1 cut(s)	1414
VneI	GTGCAC	1 cut(s)	1211
VpaK11BI	GGWCC	1 cut(s)	1060
XapI	RAATTY	2 cut(s)	122, 1360
XbaI	TCTAGA	1 cut(s)	898
XceI	RCATGY	1 cut(s)	1292
XmiI	GTMKAC	3 cut(s)	392, 478, 1127
XspI	CTAG	5 cut(s)	282, 899, 914, 1136, 1323
Zsp2I	ATGCAT	1 cut(s)	309

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