Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0002344

Physical Location & Seq

Genomic Coordinates Forward (+)

11977784 .. 11980838

Gene Structure 3055 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG141600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGCATGCTCTCATTAAGGAGTACAACTTGAAAGGTCAATTTCGATGGATATCTTCCCACACTAACCGAGCACGTAATGGTGAGCTATATCGTTACATTGCAGATACTGGAGGTGCTTTTGTTCAGCCTGCACTCACAGTTGTGGAGGTCATGACTTGTGGCCTTTCGACATTTGCCACAATCCACGGTGGTCCTGCAGAGATCATTGAGCACGGTATATTCGGATATCATATCGACCCTTATCACTCTGAACAGATGGCTGCAATTGTGGCTGATTTCTTTCAATGTAGTAAGGAGGATCCTAGCTACTGGAAGAAAATTACAGATGGGGGCCTGAAAAGAATTCCTAAAGACTTTGATGTGATCACTACATCTAATCTTAAGCAGATCAAGAGGCAGTTCCATAGTGCACAAATTGTCAGACAACGATTTGCTACATGTATGGTGCATATTAAAGGTTCTGTCATAGAGGTATCCAGTTTTGAAACGGTGGTAAAAGTGAAACACTCTGATAAAGAAGTTACTTTCTCTCAAATGCCAAAGGGTTGTGATAAGAAAGATTTCATCCGCTGGAGAAACAGCATGCATCGAGATTTCATAATTAACAATTTGTTCTTTGATCCTTTATCAAATAAAATCTTTGATTATGCAAATGGGATGGCAGATTTGAGATCCTTAAAGGTACGGTTGTTAGGCTCCGCCAAGTTGTCATTTAAAGAGGATTGCGCACGAATTTTACGTGGCTTAAGAATTGTTGCTTGTCTGAGTTTGTCAATTCCAAAAGAAACCGAGACAACTATATCTATGTTTTCTTCATCCATTTTGACATTGGCAACGAGTAGAATTATGATGGAAATGAACTATATGCTTTCTTATGGAGCTGCTGAGCCATCTCTCTGTCTGCTTTGGAGATTCAATCTACTCAGAGTTCTACTTCCAATTCATGTAGCATACTTGGATGAACAGAGTATTAGGAAGTTTCCTCATAATTCCACGATGTTGATGAAACTATTCTTTAATTTGGATAAAGTTGTCACAGTTGATCGACCTTCTGACTGTAGTTTATGGGTAGCTCTCCTAGCTTTTCACATGGCACTGGTCAGTCACCCTCAAGACGCTCCTGTGGTGTTCACCTTTGCTTTTATCCTGTATCATGGGGGATGCAAAAAGGGTCTTAAATTTGCTAGAGACAATGCTCAATGGAGGGAGATTTTGGTTTGGGTACAGCTTTGGGTGATGAATTTGTCTCACCATGACTTGGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004652 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006276 GO:0006378 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016740 GO:0016772 GO:0016779 GO:0031123 GO:0031124 GO:0034641 GO:0043170 GO:0043412 GO:0043631 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0070566 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PolyA_pol PolyA_pol_RNAbd

Protein Analysis

421

Amino Acids

48.17

Weight (kDa)

9.15

Isoelectric Point (pI)

41.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glycos_transf_1	PF00534	2 - 105	5.5e-09	Glycosyl transferases group 1
PolyA_pol	PF01743	109 - 229	3.8e-13	Poly A polymerase head domain
PolyA_pol_RNAbd	PF12627	258 - 315	4e-11	Probable RNA and SrmB- binding site of polymerase A

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

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

Orthologous Genes (Group: OG0002344)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17580
fragaria_vesca	FvH4_1g10510 FvH4_1g10510 FvH4_1g10510 FvH4_1g10510 FvH4_1g29700
malus_domestica	MD02G1119000.v1.1 MD15G1233000.v1.1
prunus_persica	Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1 Prupe.7G180900_v2.0.a1
pyrus_communis	pycom02g09260 pycom02g09270 pycom15g20750
rosa_chinensis	RchiOBHm_Chr2g0097411 RchiOBHm_Chr2g0097511 RchiOBHm_Chr3g0465401
rosa_laevigata	RLG00000016724
rosa_multiflora	Rmu_sc0001060.1_g000002 Rmu_sc0004220.1_g000008 Rmu_sc0011781.1_g000006
rosa_roxburghii	Rroxscaffold_2G00144710
rosa_rugosa	Rorug02G0066800 Rorug02G0066800 Rorug02G0066800
rosa_samantha	Rh2AG113200 Rh2BG116200 Rh2BG116300 Rh2CG118200 Rh2CG118300 Rh2DG117300 Rh3BG141600 Rh3CG142700 Rh3DG142700
rosa_wichuraiana	Rw2G008870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	727
AccB7I	CCANNNNNTGG	1 cut(s)	1258
AciI	CCGC	2 cut(s)	568, 699
AclWI	GGATC	4 cut(s)	293, 306, 614, 666
AcsI	RAATTY	4 cut(s)	342, 732, 1178, 1240
AfaI	GTAC	3 cut(s)	23, 684, 1224
AfiI	CCNNNNNNNGG	1 cut(s)	1258
AflII	CTTAAG	2 cut(s)	380, 745
AflIII	ACRYGT	1 cut(s)	437
AgsI	TTSAA	4 cut(s)	31, 284, 485, 916
AleI	CACNNNNGTG	1 cut(s)	140
AluBI	AGCT	6 cut(s)	85, 306, 881, 1073, 1082, 1228
AluI	AGCT	6 cut(s)	85, 306, 881, 1073, 1082, 1228
Alw21I	GWGCWC	3 cut(s)	73, 213, 412
Alw26I	GTCTC	3 cut(s)	785, 1182, 1251
Alw44I	GTGCAC	1 cut(s)	408
AlwI	GGATC	4 cut(s)	293, 306, 614, 666
AlwNI	CAGNNNCTG	1 cut(s)	107
AoxI	GGCC	2 cut(s)	160, 331
ApaLI	GTGCAC	1 cut(s)	408
ApeKI	GCWGC	2 cut(s)	260, 881
ApoI	RAATTY	4 cut(s)	342, 732, 1178, 1240
Asp700I	GAANNNNTTC	2 cut(s)	560, 1010
AspLEI	GCGC	1 cut(s)	728
AspS9I	GGNCC	2 cut(s)	191, 331
AsuHPI	GGTGA	5 cut(s)	92, 1097, 1123, 1241, 1246
AvaII	GGWCC	1 cut(s)	191
BaeGI	GKGCMC	1 cut(s)	412
BaeI	ACNNNNGTAYC	2 cut(s)	674, 707
BamHI	GGATCC	1 cut(s)	298
Bbv12I	GWGCWC	3 cut(s)	73, 213, 412
BbvI	GCAGC	2 cut(s)	247, 868
BccI	CCATC	6 cut(s)	39, 250, 320, 652, 844, 898
BciVI	GTATCC	1 cut(s)	484
BclI	TGATCA	1 cut(s)	363
BcoDI	GTCTC	3 cut(s)	785, 1182, 1251
BfaI	CTAG	3 cut(s)	303, 1079, 1185
BfmI	CTRYAG	2 cut(s)	195, 1057
BfrI	CTTAAG	2 cut(s)	380, 745
BfuI	GTATCC	1 cut(s)	484
BisI	GCNGC	2 cut(s)	261, 882
BlpI	GCTNAGC	1 cut(s)	885
BlsI	GCNGC	2 cut(s)	262, 883
Bme18I	GGWCC	1 cut(s)	191
BmgT120I	GGNCC	2 cut(s)	191, 331
BmiI	GGNNCC	3 cut(s)	300, 332, 697
BmsI	GCATC	2 cut(s)	595, 1151
BpmI	CTGGAG	2 cut(s)	129, 592
Bpu1102I	GCTNAGC	1 cut(s)	885
BpuEI	CTTGAG	1 cut(s)	1095
BsaAI	YACGTR	2 cut(s)	74, 740
BsaBI	GATNNNNATC	1 cut(s)	49
BsaJI	CCNNGG	1 cut(s)	184
Bsc4I	CCNNNNNNNGG	1 cut(s)	1258
Bse1I	ACTGG	4 cut(s)	112, 314, 477, 1101
Bse3DI	GCAATG	1 cut(s)	96
Bse8I	GATNNNNATC	1 cut(s)	49
BseDI	CCNNGG	1 cut(s)	184
BseGI	GGATG	5 cut(s)	564, 663, 815, 964, 1166
BseJI	GATNNNNATC	1 cut(s)	49
BseLI	CCNNNNNNNGG	1 cut(s)	1258
BseMI	GCAATG	1 cut(s)	96
BseMII	CTCAG	3 cut(s)	755, 876, 937
BseNI	ACTGG	4 cut(s)	112, 314, 477, 1101
BseSI	GKGCMC	1 cut(s)	412
BseXI	GCAGC	2 cut(s)	247, 868
BsgI	GTGCAG	1 cut(s)	114
BshFI	GGCC	2 cut(s)	162, 333
BsiHKAI	GWGCWC	3 cut(s)	73, 213, 412
BslI	CCNNNNNNNGG	1 cut(s)	1258
BsmAI	GTCTC	3 cut(s)	785, 1182, 1251
BsnI	GGCC	2 cut(s)	162, 333
Bsp1286I	GDGCHC	3 cut(s)	73, 213, 412
Bsp143I	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
Bsp1720I	GCTNAGC	1 cut(s)	885
BspACI	CCGC	2 cut(s)	568, 699
BspANI	GGCC	2 cut(s)	162, 333
BspCNI	CTCAG	3 cut(s)	756, 877, 936
BspHI	TCATGA	1 cut(s)	150
BspLI	GGNNCC	3 cut(s)	300, 332, 697
BspMAI	CTGCAG	1 cut(s)	199
BspPI	GGATC	4 cut(s)	293, 306, 614, 666
BspTI	CTTAAG	2 cut(s)	380, 745
BsrDI	GCAATG	1 cut(s)	96
BsrI	ACTGG	4 cut(s)	112, 314, 477, 1101
BssECI	CCNNGG	1 cut(s)	184
BssMI	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
Bst4CI	ACNGT	7 cut(s)	139, 188, 215, 490, 687, 1039, 1058
BstAFI	CTTAAG	2 cut(s)	380, 745
BstBAI	YACGTR	2 cut(s)	74, 740
BstC8I	GCNNGC	3 cut(s)	6, 129, 584
BstDEI	CTNAG	4 cut(s)	764, 885, 923, 1263
BstDSI	CCRYGG	1 cut(s)	184
BstF5I	GGATG	5 cut(s)	564, 663, 815, 964, 1166
BstHHI	GCGC	1 cut(s)	728
BstKTI	GATC	7 cut(s)	204, 301, 366, 390, 622, 674, 1045
BstMAI	GTCTC	3 cut(s)	785, 1182, 1251
BstMBI	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
BstMWI	GCNNNNNNNGC	2 cut(s)	269, 1079
BstNSI	RCATGY	3 cut(s)	8, 441, 586
BstSFI	CTRYAG	2 cut(s)	195, 1057
BstSLI	GKGCMC	1 cut(s)	412
BstV1I	GCAGC	2 cut(s)	247, 868
BstX2I	RGATCY	2 cut(s)	298, 671
BstYI	RGATCY	2 cut(s)	298, 671
BsuI	GTATCC	1 cut(s)	484
BsuRI	GGCC	2 cut(s)	162, 333
BtgI	CCRYGG	1 cut(s)	184
BtsCI	GGATG	5 cut(s)	564, 663, 815, 964, 1166
BtsIMutI	CAGTG	1 cut(s)	1094
Cac8I	GCNNGC	3 cut(s)	6, 129, 584
CaiI	CAGNNNCTG	1 cut(s)	107
CciI	TCATGA	1 cut(s)	150
CfoI	GCGC	1 cut(s)	728
Cfr13I	GGNCC	2 cut(s)	191, 331
CseI	GACGC	1 cut(s)	1124
Csp6I	GTAC	3 cut(s)	22, 683, 1223
CviAII	CATG	8 cut(s)	5, 151, 438, 583, 944, 1090, 1154, 1253
CviQI	GTAC	3 cut(s)	22, 683, 1223
DdeI	CTNAG	4 cut(s)	764, 885, 923, 1263
DpnI	GATC	7 cut(s)	203, 300, 365, 389, 621, 673, 1044
DpnII	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
DraI	TTTAAA	1 cut(s)	715
EciI	GGCGGA	1 cut(s)	688
Eco32I	GATATC	2 cut(s)	51, 227
Eco47I	GGWCC	1 cut(s)	191
EcoO109I	RGGNCCY	1 cut(s)	331
EcoRI	GAATTC	1 cut(s)	342
EcoRV	GATATC	2 cut(s)	51, 227
EcoT22I	ATGCAT	2 cut(s)	6, 588
FaeI	CATG	8 cut(s)	8, 154, 441, 586, 947, 1093, 1157, 1256
FatI	CATG	8 cut(s)	4, 150, 437, 582, 943, 1089, 1153, 1252
FbaI	TGATCA	1 cut(s)	363
Fnu4HI	GCNGC	2 cut(s)	261, 882
FokI	GGATG	5 cut(s)	551, 670, 802, 971, 1173
Fsp4HI	GCNGC	2 cut(s)	261, 882
FspBI	CTAG	3 cut(s)	303, 1079, 1185
FspI	TGCGCA	1 cut(s)	727
GlaI	GCGC	1 cut(s)	727
GluI	GCNGC	2 cut(s)	261, 882
GsuI	CTGGAG	2 cut(s)	129, 592
HaeIII	GGCC	2 cut(s)	162, 333
HgaI	GACGC	1 cut(s)	1124
HhaI	GCGC	1 cut(s)	728
Hin1II	CATG	8 cut(s)	8, 154, 441, 586, 947, 1093, 1157, 1256
Hin6I	GCGC	1 cut(s)	726
HinP1I	GCGC	1 cut(s)	726
HinfI	GANTC	1 cut(s)	912
HphI	GGTGA	5 cut(s)	92, 1097, 1123, 1241, 1246
Hpy166II	GTNNAC	2 cut(s)	410, 1131
Hpy188I	TCNGA	7 cut(s)	224, 250, 422, 511, 765, 926, 1054
Hpy188III	TCNNGA	4 cut(s)	151, 391, 590, 1112
Hpy8I	GTNNAC	2 cut(s)	410, 1131
HpyAV	CCTTC	1 cut(s)	1059
HpyCH4III	ACNGT	7 cut(s)	139, 188, 215, 490, 687, 1039, 1058
HpyCH4IV	ACGT	2 cut(s)	73, 739
HpyF10VI	GCNNNNNNNGC	2 cut(s)	269, 1079
HpyF3I	CTNAG	4 cut(s)	764, 885, 923, 1263
HpySE526I	ACGT	2 cut(s)	73, 739
Hsp92II	CATG	8 cut(s)	8, 154, 441, 586, 947, 1093, 1157, 1256
HspAI	GCGC	1 cut(s)	726
Ksp22I	TGATCA	1 cut(s)	363
Kzo9I	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
LmnI	GCTCC	3 cut(s)	701, 878, 1123
Lsp1109I	GCAGC	2 cut(s)	247, 868
LweI	GCATC	2 cut(s)	595, 1151
MaeI	CTAG	3 cut(s)	303, 1079, 1185
MaeII	ACGT	2 cut(s)	73, 739
MaeIII	GTNAC	4 cut(s)	92, 520, 1033, 1103
MalI	GATC	7 cut(s)	203, 300, 365, 389, 621, 673, 1044
MboI	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
MboII	GAAGA	3 cut(s)	45, 325, 804
MfeI	CAATTG	1 cut(s)	264
MflI	RGATCY	2 cut(s)	298, 671
MhlI	GDGCHC	3 cut(s)	73, 213, 412
MnlI	CCTC	9 cut(s)	104, 139, 289, 387, 463, 712, 993, 1119, 1197
Mph1103I	ATGCAT	2 cut(s)	6, 588
MroXI	GAANNNNTTC	2 cut(s)	560, 1010
MseI	TTAA	9 cut(s)	15, 381, 453, 603, 677, 714, 746, 1017, 1176
MslI	CAYNNNNRTG	1 cut(s)	140
MspA1I	CMGCKG	1 cut(s)	570
MspCI	CTTAAG	2 cut(s)	380, 745
MunI	CAATTG	1 cut(s)	264
MwoI	GCNNNNNNNGC	2 cut(s)	269, 1079
NdeII	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
NlaIII	CATG	8 cut(s)	8, 154, 441, 586, 947, 1093, 1157, 1256
NlaIV	GGNNCC	3 cut(s)	300, 332, 697
NmuCI	GTSAC	2 cut(s)	1033, 1103
NsbI	TGCGCA	1 cut(s)	727
NsiI	ATGCAT	2 cut(s)	6, 588
NspI	RCATGY	3 cut(s)	8, 441, 586
OliI	CACNNNNGTG	1 cut(s)	140
PaeI	GCATGC	2 cut(s)	8, 586
PagI	TCATGA	1 cut(s)	150
PciI	ACATGT	1 cut(s)	437
PcsI	WCGNNNNNNNCGW	1 cut(s)	736
PdmI	GAANNNNTTC	2 cut(s)	560, 1010
PfeI	GAWTC	1 cut(s)	912
PflMI	CCANNNNNTGG	1 cut(s)	1258
PkrI	GCNGC	2 cut(s)	262, 883
Ppu21I	YACGTR	2 cut(s)	74, 740
PscI	ACATGT	1 cut(s)	437
PspN4I	GGNNCC	3 cut(s)	300, 332, 697
PspPI	GGNCC	2 cut(s)	191, 331
PstI	CTGCAG	1 cut(s)	199
PstNI	CAGNNNCTG	1 cut(s)	107
PsuI	RGATCY	2 cut(s)	298, 671
RsaI	GTAC	3 cut(s)	23, 684, 1224
RsaNI	GTAC	3 cut(s)	22, 683, 1223
RseI	CAYNNNNRTG	1 cut(s)	140
SaqAI	TTAA	9 cut(s)	15, 381, 453, 603, 677, 714, 746, 1017, 1176
SatI	GCNGC	2 cut(s)	261, 882
Sau3AI	GATC	7 cut(s)	201, 298, 363, 387, 619, 671, 1042
Sau96I	GGNCC	2 cut(s)	191, 331
SduI	GDGCHC	3 cut(s)	73, 213, 412
SfaNI	GCATC	2 cut(s)	595, 1151
SfcI	CTRYAG	2 cut(s)	195, 1057
SinI	GGWCC	1 cut(s)	191
SmiMI	CAYNNNNRTG	1 cut(s)	140
SmlI	CTYRAG	3 cut(s)	380, 745, 1110
SmoI	CTYRAG	3 cut(s)	380, 745, 1110
SphI	GCATGC	2 cut(s)	8, 586
SsiI	CCGC	2 cut(s)	568, 699
SspMI	CTAG	3 cut(s)	303, 1079, 1185
TaaI	ACNGT	7 cut(s)	139, 188, 215, 490, 687, 1039, 1058
TaiI	ACGT	2 cut(s)	76, 742
TaqI	TCGA	5 cut(s)	43, 167, 234, 589, 1045
TatI	WGTACW	1 cut(s)	21
TfiI	GAWTC	1 cut(s)	912
Tru1I	TTAA	9 cut(s)	15, 381, 453, 603, 677, 714, 746, 1017, 1176
Tru9I	TTAA	9 cut(s)	15, 381, 453, 603, 677, 714, 746, 1017, 1176
TscAI	CASTG	1 cut(s)	1101
TseFI	GTSAC	2 cut(s)	1033, 1103
TseI	GCWGC	2 cut(s)	260, 881
Tsp45I	GTSAC	2 cut(s)	1033, 1103
TspDTI	ATGAA	8 cut(s)	553, 586, 804, 872, 932, 975, 1019, 1253
TspRI	CASTG	1 cut(s)	1101
Van91I	CCANNNNNTGG	1 cut(s)	1258
Vha464I	CTTAAG	2 cut(s)	380, 745
VneI	GTGCAC	1 cut(s)	408
VpaK11BI	GGWCC	1 cut(s)	191
XapI	RAATTY	4 cut(s)	342, 732, 1178, 1240
XceI	RCATGY	3 cut(s)	8, 441, 586
XcmI	CCANNNNNNNNNTGG	1 cut(s)	826
XmnI	GAANNNNTTC	2 cut(s)	560, 1010
XspI	CTAG	3 cut(s)	303, 1079, 1185
Zsp2I	ATGCAT	2 cut(s)	6, 588

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