Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0006991

Physical Location & Seq

Genomic Coordinates Forward (+)

49284409 .. 49290595

Gene Structure 6187 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG378300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGCATCACCTTGATCTTTTCTGTCTTGTGGAAACGCGTGTAAGGGAGGTAAATGCTGACTCCTTATCAAGATCTATTTTTCCTAATTGGAGCTTTATTAATAACTTTTGCAGTCATCCTAATGGAAGAATCTGGATTTTTTGGAACTCCACCAAAATTTCTCTTGACAAACTGGATGCTTCTAGTCAGGTTGTTCACTGCAAGCTTAGACTTTTAGACCTTCAGGTCGATGTCTTTGCCTCTTTTGTCTATGGTTCGAATGATGACTCAACTAGGAGAGAGCTTTGGCATAGCATGGAAAACTTTGCTGGTGTCTGTAGTAGTTCTCCTTGGTTAGTTATTGGTGACTTTAATGTTACTAGAAGATGTGAGGAAACTGTTGGTGGCAATAATCGTTTTAGTAATGCTATGAATGAGTTCAACTCTTGTCTTCATAATTCTGAGCTTGATGATCTTAACTACTCTGGTATTTACTATTCTTGGAGTAATAAGCAAGTTGATGGTAATTTTATTTCCAGAAAGTTGGACCGTGCCTTGGTTAATCAGTATTGGATGAACTCTTTTCCCAATTGTAGTACTGTGTTCTTGCCCCCTGGTATTTCTGACCATGCTGCTTTGGTGGTTAAATTTGGTTTACCTATCAGAACCCACAGAGCTCCCTTTAAGTTCTTTAACTTCTTAGCTGATAGGGAAGATTTCCTTACAATTGTCTCCGGTGTGTGGGCTACCAATGTTCGGGGATCTAAACAATTCCAAGTATGTTGGAAGCTGAAACTTGTAAAGGACCAATTCAAGCTCCTCAACCGCAACTCTATTGGCAATGTTTCGACCTTAGTTTCTAATTCCAAAGCAGCCTTAGATAACTGCCAGCGTTTGTTGGATGCTGATCCTTTTGATGGCTCTTTACGAATCCAAGAAAAAGCTCTCTGTAAATCTTATGCTAGTGCTCTTGCTACTGAAGAAAAGTTGTTGAAACAAAAGTCTAGAGTGCAATGGCTCAAGCATGGGGACAAAAACTCTGCTTTTTTCTTCAAGACCTTGACAAAGCATAGAAACAGGAATCAGATTGTTTCTATTAATCACAGTGATGGGTCTGTTGCTTCTTCGGATATTGAGATCAAAGATGAAGCTATAAACTTCTTTCAGAATCTCCTTGGTCAAAGTTTTCATCGTTCAAGACGGAGCTCCCCCTCATCGCTGATGAAGACAGAGACCTCGTCGCATGTGATGATGACAGATATCTAG

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

DUF4283 zf-CCHC_4

Protein Analysis

414

Amino Acids

47.3

Weight (kDa)

8.94

Isoelectric Point (pI)

35.34

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0006991)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G40390 AT1G43760
fragaria_vesca	FvH4_2g05581 FvH4_3g29012
rosa_laevigata	RLG00000017307
rosa_multiflora	Rmu_sc0000447.1_g000013 Rmu_sc0000647.1_g000017 Rmu_sc0001616.1_g000010 Rmu_sc0004932.1_g000002 Rmu_sc0032291.1_g000001 Rmu_sc0035385.1_g000001
rosa_roxburghii	Rroxscaffold_1G00031810
rosa_samantha	Rh3BG325500 Rh3BG325600 Rh3BG372000 Rh3BG372200 Rh4CG249400 Rh5CG378300 Rh6BG242500 Rh6CG069600 Rh6DG066600 Rh7CG451600 Rh7CG469200 Rh7DG357300
rosa_wichuraiana	Rw4G014200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	224
AccII	CGCG	1 cut(s)	37
AciI	CCGC	1 cut(s)	805
AclWI	GGATC	2 cut(s)	748, 881
AcsI	RAATTY	2 cut(s)	156, 626
AcuI	CTGAAG	2 cut(s)	206, 978
AfaI	GTAC	1 cut(s)	577
AfiI	CCNNNNNNNGG	4 cut(s)	535, 720, 735, 896
AflIII	ACRYGT	1 cut(s)	35
AgsI	TTSAA	5 cut(s)	421, 793, 973, 1033, 1176
AjnI	CCWGG	1 cut(s)	592
Alw21I	GWGCWC	3 cut(s)	658, 949, 1187
Alw26I	GTCTC	2 cut(s)	715, 1205
AlwI	GGATC	2 cut(s)	748, 881
ApeKI	GCWGC	2 cut(s)	611, 851
ApoI	RAATTY	2 cut(s)	156, 626
AseI	ATTAAT	2 cut(s)	99, 1077
Asp700I	GAANNNNTTC	1 cut(s)	416
AspS9I	GGNCC	2 cut(s)	526, 784
AsuHPI	GGTGA	1 cut(s)	356
AsuII	TTCGAA	1 cut(s)	257
AvaII	GGWCC	2 cut(s)	526, 784
BanII	GRGCYC	2 cut(s)	658, 1187
BbsI	GAAGAC	2 cut(s)	422, 1211
Bbv12I	GWGCWC	3 cut(s)	658, 949, 1187
BbvI	GCAGC	2 cut(s)	598, 863
BccI	CCATC	3 cut(s)	494, 890, 1082
BcgI	CGANNNNNNTGC	2 cut(s)	218, 252
BciT130I	CCWGG	1 cut(s)	594
BcoDI	GTCTC	2 cut(s)	715, 1205
BfaI	CTAG	6 cut(s)	183, 273, 360, 942, 984, 1243
BfmI	CTRYAG	1 cut(s)	316
BglII	AGATCT	1 cut(s)	71
BisI	GCNGC	2 cut(s)	612, 852
BlsI	GCNGC	2 cut(s)	613, 853
BmcAI	AGTACT	1 cut(s)	577
Bme1390I	CCNGG	1 cut(s)	594
Bme18I	GGWCC	2 cut(s)	526, 784
BmgT120I	GGNCC	2 cut(s)	526, 784
BmrFI	CCNGG	1 cut(s)	594
BmsI	GCATC	3 cut(s)	13, 166, 871
BpiI	GAAGAC	2 cut(s)	422, 1211
BplI	GAGNNNNNCTC	2 cut(s)	407, 439
Bpu14I	TTCGAA	1 cut(s)	257
BpuEI	CTTGAG	1 cut(s)	983
BsaBI	GATNNNNATC	1 cut(s)	885
BsaI	GGTCTC	1 cut(s)	1205
BsaJI	CCNNGG	4 cut(s)	329, 534, 592, 1153
BsaWI	WCCGGW	1 cut(s)	713
Bsc4I	CCNNNNNNNGG	4 cut(s)	535, 720, 735, 896
Bse1I	ACTGG	1 cut(s)	177
Bse3DI	GCAATG	2 cut(s)	826, 998
Bse8I	GATNNNNATC	1 cut(s)	885
BseBI	CCWGG	1 cut(s)	594
BseDI	CCNNGG	4 cut(s)	329, 534, 592, 1153
BseGI	GGATG	4 cut(s)	115, 181, 558, 886
BseJI	GATNNNNATC	1 cut(s)	885
BseLI	CCNNNNNNNGG	4 cut(s)	535, 720, 735, 896
BseMI	GCAATG	2 cut(s)	826, 998
BseMII	CTCAG	1 cut(s)	432
BseNI	ACTGG	1 cut(s)	177
BseRI	GAGGAG	1 cut(s)	788
BseXI	GCAGC	2 cut(s)	598, 863
Bsh1236I	CGCG	1 cut(s)	37
BsiHKAI	GWGCWC	3 cut(s)	658, 949, 1187
BsiSI	CCGG	1 cut(s)	714
BslFI	GGGAC	1 cut(s)	1022
BslI	CCNNNNNNNGG	4 cut(s)	535, 720, 735, 896
BsmAI	GTCTC	2 cut(s)	715, 1205
BsmFI	GGGAC	1 cut(s)	1022
Bso31I	GGTCTC	1 cut(s)	1205
Bsp119I	TTCGAA	1 cut(s)	257
Bsp1286I	GDGCHC	3 cut(s)	658, 949, 1187
Bsp143I	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
BspACI	CCGC	1 cut(s)	805
BspCNI	CTCAG	1 cut(s)	433
BspFNI	CGCG	1 cut(s)	37
BspPI	GGATC	2 cut(s)	748, 881
BspT104I	TTCGAA	1 cut(s)	257
BspTNI	GGTCTC	1 cut(s)	1205
BsrDI	GCAATG	2 cut(s)	826, 998
BsrI	ACTGG	1 cut(s)	177
BssECI	CCNNGG	4 cut(s)	329, 534, 592, 1153
BssMI	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
BssT1I	CCWWGG	3 cut(s)	329, 534, 1153
Bst2UI	CCWGG	1 cut(s)	594
Bst4CI	ACNGT	4 cut(s)	379, 530, 580, 1085
BstBI	TTCGAA	1 cut(s)	257
BstC8I	GCNNGC	2 cut(s)	203, 869
BstDEI	CTNAG	5 cut(s)	206, 441, 679, 832, 856
BstF5I	GGATG	4 cut(s)	115, 181, 558, 886
BstFNI	CGCG	1 cut(s)	37
BstKTI	GATC	6 cut(s)	16, 74, 454, 743, 889, 1119
BstMAI	GTCTC	2 cut(s)	715, 1205
BstMBI	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
BstNI	CCWGG	1 cut(s)	594
BstNSI	RCATGY	1 cut(s)	1226
BstSCI	CCNGG	1 cut(s)	592
BstSFI	CTRYAG	1 cut(s)	316
BstUI	CGCG	1 cut(s)	37
BstV1I	GCAGC	2 cut(s)	598, 863
BstV2I	GAAGAC	2 cut(s)	422, 1211
BstX2I	RGATCY	2 cut(s)	71, 740
BstXI	CCANNNNNNTGG	1 cut(s)	523
BstYI	RGATCY	2 cut(s)	71, 740
BtgZI	GCGATG	1 cut(s)	1179
BtsCI	GGATG	4 cut(s)	115, 181, 558, 886
BtsI	GCAGTG	1 cut(s)	196
BtsIMutI	CAGTG	2 cut(s)	196, 1090
Cac8I	GCNNGC	2 cut(s)	203, 869
Cfr13I	GGNCC	2 cut(s)	526, 784
Csp6I	GTAC	1 cut(s)	576
CviAII	CATG	4 cut(s)	295, 608, 1004, 1223
CviQI	GTAC	1 cut(s)	576
DdeI	CTNAG	5 cut(s)	206, 441, 679, 832, 856
DpnI	GATC	6 cut(s)	15, 73, 453, 742, 888, 1118
DpnII	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
DrdI	GACNNNNNNGTC	1 cut(s)	224
DseDI	GACNNNNNNGTC	1 cut(s)	224
Ecl136II	GAGCTC	2 cut(s)	656, 1185
Eco130I	CCWWGG	3 cut(s)	329, 534, 1153
Eco24I	GRGCYC	2 cut(s)	658, 1187
Eco31I	GGTCTC	1 cut(s)	1205
Eco32I	GATATC	1 cut(s)	1240
Eco47I	GGWCC	2 cut(s)	526, 784
Eco53kI	GAGCTC	2 cut(s)	656, 1185
Eco57I	CTGAAG	2 cut(s)	206, 978
EcoICRI	GAGCTC	2 cut(s)	656, 1185
EcoRII	CCWGG	1 cut(s)	592
EcoRV	GATATC	1 cut(s)	1240
EcoT14I	CCWWGG	3 cut(s)	329, 534, 1153
EcoT22I	ATGCAT	1 cut(s)	6
EcoT38I	GRGCYC	2 cut(s)	658, 1187
ErhI	CCWWGG	3 cut(s)	329, 534, 1153
FaeI	CATG	4 cut(s)	298, 611, 1007, 1226
FalI	AAGNNNNNCTT	2 cut(s)	684, 716
FaqI	GGGAC	1 cut(s)	1022
FatI	CATG	4 cut(s)	294, 607, 1003, 1222
Fnu4HI	GCNGC	2 cut(s)	612, 852
FokI	GGATG	4 cut(s)	102, 188, 565, 893
FriOI	GRGCYC	2 cut(s)	658, 1187
Fsp4HI	GCNGC	2 cut(s)	612, 852
FspBI	CTAG	6 cut(s)	183, 273, 360, 942, 984, 1243
GluI	GCNGC	2 cut(s)	612, 852
HapII	CCGG	1 cut(s)	714
Hin1II	CATG	4 cut(s)	298, 611, 1007, 1226
HindIII	AAGCTT	1 cut(s)	203
HinfI	GANTC	6 cut(s)	59, 129, 266, 909, 1060, 1147
HpaII	CCGG	1 cut(s)	714
HphI	GGTGA	1 cut(s)	356
Hpy166II	GTNNAC	2 cut(s)	196, 635
Hpy188I	TCNGA	6 cut(s)	442, 604, 644, 1065, 1108, 1146
Hpy188III	TCNNGA	7 cut(s)	69, 133, 164, 516, 984, 1033, 1176
Hpy8I	GTNNAC	2 cut(s)	196, 635
Hpy99I	CGWCG	1 cut(s)	1222
HpyAV	CCTTC	1 cut(s)	230
HpyCH4III	ACNGT	4 cut(s)	379, 530, 580, 1085
HpyCH4V	TGCA	4 cut(s)	4, 111, 201, 991
HpyF3I	CTNAG	5 cut(s)	206, 441, 679, 832, 856
Hsp92II	CATG	4 cut(s)	298, 611, 1007, 1226
Kzo9I	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
LmnI	GCTCC	5 cut(s)	90, 661, 801, 1182, 1190
Lsp1109I	GCAGC	2 cut(s)	598, 863
LweI	GCATC	3 cut(s)	13, 166, 871
MaeI	CTAG	6 cut(s)	183, 273, 360, 942, 984, 1243
MaeIII	GTNAC	2 cut(s)	344, 355
MalI	GATC	6 cut(s)	15, 73, 453, 742, 888, 1118
MboI	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
MboII	GAAGA	8 cut(s)	138, 375, 422, 704, 971, 1021, 1095, 1216
MfeI	CAATTG	2 cut(s)	568, 705
MflI	RGATCY	2 cut(s)	71, 740
MhlI	GDGCHC	3 cut(s)	658, 949, 1187
MluI	ACGCGT	1 cut(s)	35
MlyI	GAGTC	2 cut(s)	53, 260
MmeI	TCCRAC	3 cut(s)	504, 743, 858
MnlI	CCTC	6 cut(s)	40, 250, 364, 809, 1201, 1225
Mph1103I	ATGCAT	1 cut(s)	6
MroXI	GAANNNNTTC	1 cut(s)	416
MseI	TTAA	8 cut(s)	99, 351, 456, 540, 624, 663, 672, 1077
MslI	CAYNNNNRTG	2 cut(s)	120, 1086
MspI	CCGG	1 cut(s)	714
MspR9I	CCNGG	1 cut(s)	594
MunI	CAATTG	2 cut(s)	568, 705
MvaI	CCWGG	1 cut(s)	594
MvnI	CGCG	1 cut(s)	37
NdeII	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
NlaIII	CATG	4 cut(s)	298, 611, 1007, 1226
NmuCI	GTSAC	1 cut(s)	344
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	1226
NspV	TTCGAA	1 cut(s)	257
PdmI	GAANNNNTTC	1 cut(s)	416
PfeI	GAWTC	4 cut(s)	129, 909, 1060, 1147
PflFI	GACNNNGTC	1 cut(s)	1216
PkrI	GCNGC	2 cut(s)	613, 853
PleI	GAGTC	2 cut(s)	53, 260
PpsI	GAGTC	2 cut(s)	53, 260
PshBI	ATTAAT	2 cut(s)	99, 1077
Psp124BI	GAGCTC	2 cut(s)	658, 1187
Psp6I	CCWGG	1 cut(s)	592
PspGI	CCWGG	1 cut(s)	592
PspPI	GGNCC	2 cut(s)	526, 784
PsuI	RGATCY	2 cut(s)	71, 740
PsyI	GACNNNGTC	1 cut(s)	1216
RsaI	GTAC	1 cut(s)	577
RsaNI	GTAC	1 cut(s)	576
RseI	CAYNNNNRTG	2 cut(s)	120, 1086
SacI	GAGCTC	2 cut(s)	658, 1187
SaqAI	TTAA	8 cut(s)	99, 351, 456, 540, 624, 663, 672, 1077
SatI	GCNGC	2 cut(s)	612, 852
Sau3AI	GATC	6 cut(s)	13, 71, 451, 740, 886, 1116
Sau96I	GGNCC	2 cut(s)	526, 784
ScaI	AGTACT	1 cut(s)	577
SchI	GAGTC	2 cut(s)	53, 260
ScrFI	CCNGG	1 cut(s)	594
SduI	GDGCHC	3 cut(s)	658, 949, 1187
SfaNI	GCATC	3 cut(s)	13, 166, 871
SfcI	CTRYAG	1 cut(s)	316
SfuI	TTCGAA	1 cut(s)	257
SinI	GGWCC	2 cut(s)	526, 784
SmiMI	CAYNNNNRTG	2 cut(s)	120, 1086
SmlI	CTYRAG	1 cut(s)	998
SmoI	CTYRAG	1 cut(s)	998
SsiI	CCGC	1 cut(s)	805
SspMI	CTAG	6 cut(s)	183, 273, 360, 942, 984, 1243
SstI	GAGCTC	2 cut(s)	658, 1187
StyD4I	CCNGG	1 cut(s)	592
StyI	CCWWGG	3 cut(s)	329, 534, 1153
TaaI	ACNGT	4 cut(s)	379, 530, 580, 1085
TaqI	TCGA	3 cut(s)	228, 257, 827
TatI	WGTACW	1 cut(s)	575
TfiI	GAWTC	4 cut(s)	129, 909, 1060, 1147
Tru1I	TTAA	8 cut(s)	99, 351, 456, 540, 624, 663, 672, 1077
Tru9I	TTAA	8 cut(s)	99, 351, 456, 540, 624, 663, 672, 1077
TscAI	CASTG	2 cut(s)	203, 1090
TseFI	GTSAC	1 cut(s)	344
TseI	GCWGC	2 cut(s)	611, 851
Tsp45I	GTSAC	1 cut(s)	344
TspDTI	ATGAA	6 cut(s)	422, 425, 569, 1140, 1157, 1217
TspGWI	ACGGA	1 cut(s)	1195
TspRI	CASTG	2 cut(s)	203, 1090
Tth111I	GACNNNGTC	1 cut(s)	1216
VpaK11BI	GGWCC	2 cut(s)	526, 784
VspI	ATTAAT	2 cut(s)	99, 1077
XapI	RAATTY	2 cut(s)	156, 626
XbaI	TCTAGA	1 cut(s)	983
XceI	RCATGY	1 cut(s)	1226
XmnI	GAANNNNTTC	1 cut(s)	416
XspI	CTAG	6 cut(s)	183, 273, 360, 942, 984, 1243
ZrmI	AGTACT	1 cut(s)	577
Zsp2I	ATGCAT	1 cut(s)	6

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