Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0001359

Physical Location & Seq

Genomic Coordinates Forward (+)

54832942 .. 54841439

Gene Structure 8498 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG433300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1377 bp

ATGTCCAAATCGCAAGCGTTCTCGTGGTCGCGTCTCATCTTCAATCAAGCAATCAACAAAACCCGCAACGCCCCACTCCCCTTCATCTCCTCCACCTTACCACACTTGCTCAGTTCCTCTGGGCAGACCCATTACTATTCCACAGTATCAGACAGAGTAGTCCGTGACCTTCTGGCCGAGGTCGAGAGAGAAAAGCAGAGAGAAAGGGAACAGAGGAAAAGGGCTGGTCTCGACACCAAAGACATTGACCAAGAAGATGAGGAGGACTACATGCGTGTCACTCCATTGATAGACAAGCTTGAGAAGGAGAAGCTCAAGGCCACTGGGGATCTCAATTCCTATGAGGAGCCCACCGATTCGGATAGTGACGACGACGACGAGCGCTTTACTCCCGATGCTGTCAAGAAGAGGTTTGATGAGTTTCAGAGGAAGTTCACGCGACACGAGGAATTGCTCAAGAATTTCACACAGGCTGAGACACTTGATGATGCTTTTAAATGGATGAATAAAATTGACAAGTTTGAGCAAAAGCATTTCCGGCTTCGCCCTGAATATAGAGTCATTGGTGAATTGATGAACCGTCTAAAAGTAGCTGAGGGCAAGGATAAATTCATTCTGCAGCACAAACTAAACAGGGCTATGCGATTGCTGCAGTGGAAGGAAGCCTATGATCCAAACGATCCTGCCAACTATGGAGTCATTCAGGAACAACTGGAGCCCTCATTTGATGTTCTAGAAGATGCTGGATTTGAAAAAGAAAAAAAAATTATTCGAGGAGTTGATGATGATGATGATGAAGAATTCAATGACATGAAGGAGAAAGATGACATACTATTAGAGAAGCTAAATGCTATTGACAAGAAACTTGAAGAGAAGCTAGCAGAGTTGGATCATACTTTTGGAAAGAAGGGAAAGGTTCTAGAGGAAGAGATCAGAGATCTAGCAGAGGAAAGAAATGATTTGACTGAGAAGAAGAGAAGACCTCTCTATAGGAAAGGTTTCGATGTTAGATTAATTGATGTGAACCGGACTTGTAAAGTTACAAAGGGAGGACAAGTGGTCAAATACACTGCTATATTAGTTTGTGGAAACTATCATGGTGTTGTAGGTTATGCTAAAGCAAAAGGTCCAGCTGTCCCCCTCGCCCTCCAGAAGGCATATGAGAAATGCTTTCAGAATCTCCACTATGTAGAACGACATGAGGAGCATACAATTGCGCATGCAATACAAACTACATATAAAAAAACAAAGGTAATAACCTCGTCTTGCATTGGTTTTTCTTTTGGTTGTATCATTTCTTCTGCTCTGCCCTATGGTTTTGGTTTTTTAGTAAATACACAGCCTGTTGTGTTTATTCTTTCACTCCCTATCTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_S5 Ribosomal_S5_C

Protein Analysis

458

Amino Acids

53.19

Weight (kDa)

5.99

Isoelectric Point (pI)

38.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S5	PF00333	334 - 398	1.6e-18	Ribosomal protein S5, N-terminal domain

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

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Orthologous Genes (Group: OG0001359)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G64880
fragaria_vesca	FvH4_7g34290
malus_domestica	MD06G1015700.v1.1 MD07G1311200.v1.1 MD14G1141700.v1.1
prunus_persica	Prupe.2G329900_v2.0.a1 Prupe.2G329900_v2.0.a1
pyrus_communis	pycom07g28350
rosa_chinensis	RchiOBHm_Chr1g0384661 RchiOBHm_Chr3g0482781 RchiOBHm_Chr3g0482791 RchiOBHm_Chr3g0482801 RchiOBHm_Chr4g0404671
rosa_laevigata	RLG00000023329 RLG00000023333 RLG00000026022
rosa_multiflora	Rmu_co8059324.1_g000001 Rmu_co8197734.1_g000001 Rmu_co8237749.1_g000001 Rmu_co8374597.1_g000001 Rmu_sc0014854.1_g000001 Rmu_sc0026287.1_g000001
rosa_roxburghii	Rroxscaffold_2G00113600 Rroxscaffold_2G00131740 Rroxscaffold_3G00246900 Rroxscaffold_3G00264250 Rroxscaffold_4G00276480 Rroxscaffold_4G00310280 Rroxscaffold_5G00348850 Rroxscaffold_5G00354050 Rroxscaffold_6G00398930 Rroxscaffold_6G00398960 Rroxscaffold_7G00210840
rosa_rugosa	Rorug01G0450500 Rorug01G0450600 Rorug03G0198300 Rorug03G0198400 Rorug04G0048600
rosa_samantha	Rh1AG475100 Rh1BG433300 Rh1CG446500 Rh1CG446700 Rh1DG465800 Rh3AG249900 Rh3BG285100 Rh3BG285500 Rh3CG282800 Rh3CG283100 Rh3DG278600 Rh3DG278900 Rh4BG118500
rosa_wichuraiana	Rw1G039750 Rw3G022540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	158
Acc16I	TGCGCA	1 cut(s)	1218
AccII	CGCG	2 cut(s)	31, 439
AciI	CCGC	1 cut(s)	64
AclWI	GGATC	4 cut(s)	336, 665, 674, 897
AcoI	YGGCCR	1 cut(s)	174
AcsI	RAATTY	3 cut(s)	460, 608, 800
AfeI	AGCGCT	1 cut(s)	383
AfiI	CCNNNNNNNGG	1 cut(s)	1153
AgsI	TTSAA	4 cut(s)	43, 752, 805, 869
AhdI	GACNNNNNGTC	1 cut(s)	1058
AluBI	AGCT	6 cut(s)	298, 313, 593, 844, 877, 1133
AluI	AGCT	6 cut(s)	298, 313, 593, 844, 877, 1133
Alw26I	GTCTC	3 cut(s)	38, 233, 470
AlwI	GGATC	4 cut(s)	336, 665, 674, 897
Aor51HI	AGCGCT	1 cut(s)	383
AoxI	GGCC	2 cut(s)	174, 318
ApeKI	GCWGC	2 cut(s)	619, 649
ApoI	RAATTY	3 cut(s)	460, 608, 800
AseI	ATTAAT	1 cut(s)	1013
Asp700I	GAANNNNTTC	1 cut(s)	998
AspLEI	GCGC	2 cut(s)	384, 1219
AspS9I	GGNCC	1 cut(s)	1127
AsuHPI	GGTGA	1 cut(s)	578
AsuNHI	GCTAGC	1 cut(s)	877
AvaII	GGWCC	1 cut(s)	1127
BanII	GRGCYC	2 cut(s)	351, 720
BarI	GAAGNNNNNNTAC	2 cut(s)	1282, 1314
BauI	CACGAG	2 cut(s)	22, 443
BbsI	GAAGAC	1 cut(s)	985
BbvCI	CCTCAGC	1 cut(s)	594
BbvI	GCAGC	2 cut(s)	631, 636
BcoDI	GTCTC	3 cut(s)	38, 233, 470
BfaI	CTAG	4 cut(s)	734, 878, 920, 941
BfmI	CTRYAG	3 cut(s)	617, 650, 988
BfoI	RGCGCY	1 cut(s)	385
BglII	AGATCT	1 cut(s)	937
BisI	GCNGC	2 cut(s)	620, 650
BlsI	GCNGC	2 cut(s)	621, 651
Bme18I	GGWCC	1 cut(s)	1127
BmeRI	GACNNNNNGTC	1 cut(s)	1058
BmgT120I	GGNCC	1 cut(s)	1127
BmiI	GGNNCC	2 cut(s)	348, 717
BmrI	ACTGGG	1 cut(s)	333
BmsI	GCATC	3 cut(s)	385, 478, 730
BmtI	GCTAGC	1 cut(s)	881
BmuI	ACTGGG	1 cut(s)	333
BpiI	GAAGAC	1 cut(s)	985
BplI	GAGNNNNNCTC	2 cut(s)	967, 999
BpmI	CTGGAG	2 cut(s)	734, 1133
Bpu10I	CCTNAGC	1 cut(s)	594
BpuEI	CTTGAG	3 cut(s)	299, 320, 440
BsaI	GGTCTC	1 cut(s)	233
BsaJI	CCNNGG	1 cut(s)	177
BsaWI	WCCGGW	1 cut(s)	1026
BsaXI	ACNNNNNCTCC	2 cut(s)	1041, 1071
Bsc4I	CCNNNNNNNGG	1 cut(s)	1153
Bse1I	ACTGG	2 cut(s)	328, 717
BseDI	CCNNGG	1 cut(s)	177
BseGI	GGATG	1 cut(s)	507
BseLI	CCNNNNNNNGG	1 cut(s)	1153
BseMII	CTCAG	4 cut(s)	124, 465, 585, 957
BseNI	ACTGG	2 cut(s)	328, 717
BseRI	GAGGAG	5 cut(s)	79, 275, 359, 789, 1217
BseXI	GCAGC	2 cut(s)	631, 636
Bsh1236I	CGCG	2 cut(s)	31, 439
BshFI	GGCC	2 cut(s)	176, 320
BsiSI	CCGG	2 cut(s)	538, 1027
BslFI	GGGAC	1 cut(s)	1121
BslI	CCNNNNNNNGG	1 cut(s)	1153
BsmAI	GTCTC	3 cut(s)	38, 233, 470
BsmBI	CGTCTC	1 cut(s)	38
BsmFI	GGGAC	1 cut(s)	1121
BsnI	GGCC	2 cut(s)	176, 320
Bso31I	GGTCTC	1 cut(s)	233
Bsp1286I	GDGCHC	2 cut(s)	351, 720
Bsp143I	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
BspACI	CCGC	1 cut(s)	64
BspANI	GGCC	2 cut(s)	176, 320
BspCNI	CTCAG	4 cut(s)	123, 466, 586, 958
BspFNI	CGCG	2 cut(s)	31, 439
BspLI	GGNNCC	2 cut(s)	348, 717
BspMAI	CTGCAG	2 cut(s)	621, 654
BspOI	GCTAGC	1 cut(s)	881
BspPI	GGATC	4 cut(s)	336, 665, 674, 897
BspTNI	GGTCTC	1 cut(s)	233
BsrI	ACTGG	2 cut(s)	328, 717
BssECI	CCNNGG	1 cut(s)	177
BssMI	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
BssSI	CACGAG	2 cut(s)	22, 443
Bst2BI	CACGAG	2 cut(s)	22, 443
Bst4CI	ACNGT	2 cut(s)	145, 581
Bst6I	CTCTTC	4 cut(s)	401, 864, 921, 968
BstC8I	GCNNGC	3 cut(s)	15, 879, 1221
BstDEI	CTNAG	4 cut(s)	110, 474, 594, 966
BstENI	CCTNNNNNAGG	1 cut(s)	1151
BstF5I	GGATG	1 cut(s)	507
BstFNI	CGCG	2 cut(s)	31, 439
BstH2I	RGCGCY	1 cut(s)	385
BstHHI	GCGC	2 cut(s)	384, 1219
BstKTI	GATC	6 cut(s)	331, 673, 682, 892, 933, 940
BstMAI	GTCTC	3 cut(s)	38, 233, 470
BstMBI	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
BstMWI	GCNNNNNNNGC	2 cut(s)	538, 649
BstNSI	RCATGY	2 cut(s)	274, 1223
BstSFI	CTRYAG	3 cut(s)	617, 650, 988
BstUI	CGCG	2 cut(s)	31, 439
BstV1I	GCAGC	2 cut(s)	631, 636
BstV2I	GAAGAC	1 cut(s)	985
BstX2I	RGATCY	2 cut(s)	328, 937
BstYI	RGATCY	2 cut(s)	328, 937
BsuRI	GGCC	2 cut(s)	176, 320
BtsCI	GGATG	1 cut(s)	507
BtsI	GCAGTG	2 cut(s)	659, 1068
BtsIMutI	CAGTG	3 cut(s)	321, 659, 1068
Cac8I	GCNNGC	3 cut(s)	15, 879, 1221
CfoI	GCGC	2 cut(s)	384, 1219
Cfr13I	GGNCC	1 cut(s)	1127
CseI	GACGC	1 cut(s)	20
CviAII	CATG	5 cut(s)	271, 811, 1097, 1199, 1220
DdeI	CTNAG	4 cut(s)	110, 474, 594, 966
DpnI	GATC	6 cut(s)	330, 672, 681, 891, 932, 939
DpnII	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
DraI	TTTAAA	1 cut(s)	496
DrdI	GACNNNNNNGTC	1 cut(s)	158
DriI	GACNNNNNGTC	1 cut(s)	1058
DseDI	GACNNNNNNGTC	1 cut(s)	158
EaeI	YGGCCR	1 cut(s)	174
Eam1104I	CTCTTC	4 cut(s)	401, 864, 921, 968
Eam1105I	GACNNNNNGTC	1 cut(s)	1058
EarI	CTCTTC	4 cut(s)	401, 864, 921, 968
Eco24I	GRGCYC	2 cut(s)	351, 720
Eco31I	GGTCTC	1 cut(s)	233
Eco47I	GGWCC	1 cut(s)	1127
Eco47III	AGCGCT	1 cut(s)	383
EcoNI	CCTNNNNNAGG	1 cut(s)	1151
EcoRI	GAATTC	1 cut(s)	800
EcoT38I	GRGCYC	2 cut(s)	351, 720
Esp3I	CGTCTC	1 cut(s)	38
FaeI	CATG	5 cut(s)	274, 814, 1100, 1202, 1223
FaqI	GGGAC	1 cut(s)	1121
FatI	CATG	5 cut(s)	270, 810, 1096, 1198, 1219
FauI	CCCGC	1 cut(s)	71
FauNDI	CATATG	1 cut(s)	1159
Fnu4HI	GCNGC	2 cut(s)	620, 650
FokI	GGATG	1 cut(s)	514
FriOI	GRGCYC	2 cut(s)	351, 720
Fsp4HI	GCNGC	2 cut(s)	620, 650
FspBI	CTAG	4 cut(s)	734, 878, 920, 941
FspI	TGCGCA	1 cut(s)	1218
GlaI	GCGC	2 cut(s)	383, 1218
GluI	GCNGC	2 cut(s)	620, 650
GsuI	CTGGAG	2 cut(s)	734, 1133
HaeII	RGCGCY	1 cut(s)	385
HaeIII	GGCC	2 cut(s)	176, 320
HapII	CCGG	2 cut(s)	538, 1027
HgaI	GACGC	1 cut(s)	20
HhaI	GCGC	2 cut(s)	384, 1219
Hin1II	CATG	5 cut(s)	274, 814, 1100, 1202, 1223
Hin6I	GCGC	2 cut(s)	382, 1217
HinP1I	GCGC	2 cut(s)	382, 1217
HindIII	AAGCTT	1 cut(s)	296
HinfI	GANTC	4 cut(s)	356, 558, 696, 1177
HpaII	CCGG	2 cut(s)	538, 1027
HphI	GGTGA	1 cut(s)	578
Hpy166II	GTNNAC	2 cut(s)	435, 1024
Hpy188I	TCNGA	5 cut(s)	151, 361, 426, 935, 1176
Hpy188III	TCNNGA	9 cut(s)	184, 230, 392, 403, 457, 704, 734, 920, 1150
Hpy8I	GTNNAC	2 cut(s)	435, 1024
Hpy99I	CGWCG	3 cut(s)	374, 377, 380
HpyAV	CCTTC	7 cut(s)	91, 179, 298, 652, 808, 901, 1147
HpyCH4III	ACNGT	2 cut(s)	145, 581
HpyCH4V	TGCA	4 cut(s)	619, 652, 1223, 1269
HpyF10VI	GCNNNNNNNGC	2 cut(s)	538, 649
HpyF3I	CTNAG	4 cut(s)	110, 474, 594, 966
Hsp92II	CATG	5 cut(s)	274, 814, 1100, 1202, 1223
HspAI	GCGC	2 cut(s)	382, 1217
Kzo9I	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
LmnI	GCTCC	3 cut(s)	346, 715, 1204
Lsp1109I	GCAGC	2 cut(s)	631, 636
LweI	GCATC	3 cut(s)	385, 478, 730
MaeI	CTAG	4 cut(s)	734, 878, 920, 941
MaeIII	GTNAC	4 cut(s)	164, 277, 365, 1039
MalI	GATC	6 cut(s)	330, 672, 681, 891, 932, 939
MboI	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
MfeI	CAATTG	1 cut(s)	1212
MflI	RGATCY	2 cut(s)	328, 937
MhlI	GDGCHC	2 cut(s)	351, 720
MlyI	GAGTC	2 cut(s)	567, 705
MmeI	TCCRAC	1 cut(s)	867
MroXI	GAANNNNTTC	1 cut(s)	998
MseI	TTAA	3 cut(s)	495, 1013, 1375
MspA1I	CMGCKG	1 cut(s)	1133
MspI	CCGG	2 cut(s)	538, 1027
MunI	CAATTG	1 cut(s)	1212
MvnI	CGCG	2 cut(s)	31, 439
MwoI	GCNNNNNNNGC	2 cut(s)	538, 649
NdeI	CATATG	1 cut(s)	1159
NdeII	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
NheI	GCTAGC	1 cut(s)	877
NlaIII	CATG	5 cut(s)	274, 814, 1100, 1202, 1223
NlaIV	GGNNCC	2 cut(s)	348, 717
NmeAIII	GCCGAG	1 cut(s)	202
NmuCI	GTSAC	3 cut(s)	164, 277, 365
NsbI	TGCGCA	1 cut(s)	1218
NspI	RCATGY	2 cut(s)	274, 1223
PaeI	GCATGC	1 cut(s)	1223
PcsI	WCGNNNNNNNCGW	1 cut(s)	375
PdmI	GAANNNNTTC	1 cut(s)	998
PfeI	GAWTC	2 cut(s)	356, 1177
PkrI	GCNGC	2 cut(s)	621, 651
PleI	GAGTC	2 cut(s)	566, 704
PpsI	GAGTC	2 cut(s)	566, 704
PshBI	ATTAAT	1 cut(s)	1013
PspN4I	GGNNCC	2 cut(s)	348, 717
PspPI	GGNCC	1 cut(s)	1127
PstI	CTGCAG	2 cut(s)	621, 654
PsuI	RGATCY	2 cut(s)	328, 937
PvuII	CAGCTG	1 cut(s)	1133
SaqAI	TTAA	3 cut(s)	495, 1013, 1375
SatI	GCNGC	2 cut(s)	620, 650
Sau3AI	GATC	6 cut(s)	328, 670, 679, 889, 930, 937
Sau96I	GGNCC	1 cut(s)	1127
SchI	GAGTC	2 cut(s)	567, 705
SduI	GDGCHC	2 cut(s)	351, 720
SfaNI	GCATC	3 cut(s)	385, 478, 730
SfcI	CTRYAG	3 cut(s)	617, 650, 988
SinI	GGWCC	1 cut(s)	1127
SmlI	CTYRAG	3 cut(s)	299, 314, 455
SmoI	CTYRAG	3 cut(s)	299, 314, 455
SphI	GCATGC	1 cut(s)	1223
SsiI	CCGC	1 cut(s)	64
SspMI	CTAG	4 cut(s)	734, 878, 920, 941
TaaI	ACNGT	2 cut(s)	145, 581
TaqI	TCGA	4 cut(s)	183, 231, 772, 1002
TfiI	GAWTC	2 cut(s)	356, 1177
Tru1I	TTAA	3 cut(s)	495, 1013, 1375
Tru9I	TTAA	3 cut(s)	495, 1013, 1375
TscAI	CASTG	3 cut(s)	328, 659, 1075
TseFI	GTSAC	3 cut(s)	164, 277, 365
TseI	GCWGC	2 cut(s)	619, 649
Tsp45I	GTSAC	3 cut(s)	164, 277, 365
TspDTI	ATGAA	6 cut(s)	73, 518, 590, 601, 810, 827
TspGWI	ACGGA	1 cut(s)	152
TspRI	CASTG	3 cut(s)	328, 659, 1075
VpaK11BI	GGWCC	1 cut(s)	1127
VspI	ATTAAT	1 cut(s)	1013
XagI	CCTNNNNNAGG	1 cut(s)	1151
XapI	RAATTY	3 cut(s)	460, 608, 800
XbaI	TCTAGA	2 cut(s)	733, 919
XceI	RCATGY	2 cut(s)	274, 1223
XmnI	GAANNNNTTC	1 cut(s)	998
XspI	CTAG	4 cut(s)	734, 878, 920, 941

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