Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0004785

Physical Location & Seq

Genomic Coordinates Reverse (-)

3124237 .. 3128647

Gene Structure 4411 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG044700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1260 bp

ATGGAGAGAGAGATCAGTGCACCACGCACTCAAGATGATAAAAATTCTCCTCGATTAGCTATCTTGAAGTACAGCAATGATGCACTTCGTCGCTTGCTCGGGCCTCTGGGTGCTCTTAAAAGAAAAATTGAAGACGAAACAGGTACATGGATCTCTGTAAGTGATGGAACGCTCACCATAATTGCTAAGAATCAATCTCCAATGGACAAAGTACACGAAAAGGTTGATTTTGTACTTGGGCATGACATTGAAATTGGCGGGATCTATAAAGGGACTGTAGCTTCAATCAAAAAGTATGGTGCATTCGTGGAGTTTAATGGTGGGCAACAAGGCCTTCTACACATTTCTGAGTTGTCACATGAACTGGTGTTACGGATTTCAGATGTAGTATCTGTTGGCCAGCAGCTCTCTTTGATGTGCATAGGCCAGGATGTTCGTGTCCACGTACCAGTTCTAGTCAGAAGTGCTGAAGAGTGTGATGAGGAGGAAAGATCTACTGGTTTTGTTCAAAATTCTAAAACTACTTCTGAACCCATTCGTAGTTTGAAACCAGAGCGCAAGGAGTGCAAGACATCAAAATCTTTCTTACAAAAGGAACAAGATAAAGATGAGAAGGAACACAATATTGCATCTCAAACCCACTCTAGTAATGATTTGAGTAATAAGGAAGACCCTGTGGGCTGGTGCTTGATTTGGGTGGGGGACTTCGAGGAATGTATCAGTTTGAGGCATCTACATTGTGAATTGATTGGTTATCTGAAACATAAAACAAATCACCGTATACAATTGGATCATCAGGAATCACCTTATTCAAGAACTCGAAATTGCTTGTACCAGCCTGAGTCACTGGATCATGGTTCTCAAAATGAAAGTTCAGGATCATCTTTGAATGCAGTGGGTTTCTTAGAAGATTCTGAAGTCACTACATTAGAAGTCTCATCTGGAGGACTGGGAAAGTCAACAGACATCCACAAAGTCAGGAACCAAGAAGGCCTCAACCACTGTACTGAACAGCCTGATAGCACTGTAGTTTCAGAGAAGATAAAACTGATGCAAACAAATAAAAGGCTCCGTTCACAGCTGTCAGAAAAGGAGAAAACGGTGGAAGAACTCAATTTGAAGGTTCAACAACTTAGAAGTGAACAAGAGAGCTTACGGCTAGAATTCACACAGATGCTGCTTGAAGCAAAATTGTTGGAGGGGAACAGTATAATTTTTTCTAGACAAAAGGAGAAGAAATCACTTTTAACATTTGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0000957 GO:0000959 GO:0000963 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004540 GO:0004654 GO:0006139 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0019439 GO:0034641 GO:0034655 GO:0043170 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0046483 GO:0046700 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140053 GO:0140098 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko03018 map00230 map00240 map03018

Pfam Domains

Protein Families

KH_1 PNPase RNase_PH RNase_PH_C S1

Protein Analysis

419

Amino Acids

47.29

Weight (kDa)

5.97

Isoelectric Point (pI)

55.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
S1	PF00575	84 - 138	1.6e-10	S1 RNA binding 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: OG0004785)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G14580
fragaria_vesca	FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050 FvH4_6g51050
malus_domestica	MD17G1031200.v1.1
prunus_persica	Prupe.3G288400_v2.0.a1
pyrus_communis	pycom17g02860
rosa_chinensis	RchiOBHm_Chr2g0172601
rosa_laevigata	RLG00000016016 RLG00000022119
rosa_multiflora	Rmu_sc0000912.1_g000001
rosa_roxburghii	Rroxscaffold_2G00079710
rosa_rugosa	Rorug01G0489200 Rorug02G0560200
rosa_samantha	Rh2AG636600 Rh2BG650000 Rh2CG616700 Rh2DG044700 Rh2DG664200
rosa_wichuraiana	Rw2G003770 Rw2G052650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	781
AciI	CCGC	1 cut(s)	258
AclWI	GGATC	5 cut(s)	158, 269, 798, 858, 886
AcoI	YGGCCR	1 cut(s)	397
AcsI	RAATTY	3 cut(s)	43, 511, 1163
AcuI	CTGAAG	2 cut(s)	489, 936
AfaI	GTAC	7 cut(s)	71, 145, 213, 234, 447, 833, 1006
AjnI	CCWGG	1 cut(s)	426
AluBI	AGCT	5 cut(s)	59, 281, 406, 1081, 1152
AluI	AGCT	5 cut(s)	59, 281, 406, 1081, 1152
Alw21I	GWGCWC	2 cut(s)	22, 115
Alw26I	GTCTC	1 cut(s)	940
Alw44I	GTGCAC	1 cut(s)	18
AlwI	GGATC	5 cut(s)	158, 269, 798, 858, 886
AlwNI	CAGNNNCTG	1 cut(s)	1177
Ama87I	CYCGRG	1 cut(s)	98
AoxI	GGCC	5 cut(s)	101, 331, 397, 424, 991
ApaLI	GTGCAC	1 cut(s)	18
ApeKI	GCWGC	2 cut(s)	403, 1177
ApoI	RAATTY	3 cut(s)	43, 511, 1163
Asp700I	GAANNNNTTC	1 cut(s)	534
AspLEI	GCGC	1 cut(s)	558
AspS9I	GGNCC	1 cut(s)	101
AsuHPI	GGTGA	3 cut(s)	166, 767, 795
AvaI	CYCGRG	1 cut(s)	98
BaeGI	GKGCMC	1 cut(s)	22
BalI	TGGCCA	1 cut(s)	399
BbsI	GAAGAC	2 cut(s)	138, 675
Bbv12I	GWGCWC	2 cut(s)	22, 115
BbvI	GCAGC	2 cut(s)	415, 1164
BccI	CCATC	1 cut(s)	158
BceAI	ACGGC	1 cut(s)	1172
BciT130I	CCWGG	1 cut(s)	428
BcoDI	GTCTC	1 cut(s)	940
BfaI	CTAG	4 cut(s)	455, 645, 1160, 1221
BfmI	CTRYAG	2 cut(s)	276, 1026
BglII	AGATCT	1 cut(s)	491
BisI	GCNGC	2 cut(s)	404, 1178
BlsI	GCNGC	2 cut(s)	405, 1179
Bme1390I	CCNGG	1 cut(s)	428
BmeT110I	CYCGRG	1 cut(s)	98
BmgT120I	GGNCC	1 cut(s)	101
BmiI	GGNNCC	2 cut(s)	983, 1070
BmrFI	CCNGG	1 cut(s)	428
BmrI	ACTGGG	1 cut(s)	959
BmsI	GCATC	5 cut(s)	70, 638, 739, 1041, 1164
BmuI	ACTGGG	1 cut(s)	959
BpiI	GAAGAC	2 cut(s)	138, 675
BpmI	CTGGAG	1 cut(s)	963
BpuEI	CTTGAG	1 cut(s)	15
BsaAI	YACGTR	1 cut(s)	445
Bse1I	ACTGG	5 cut(s)	369, 449, 502, 852, 954
Bse3DI	GCAATG	1 cut(s)	82
BseBI	CCWGG	1 cut(s)	428
BseGI	GGATG	2 cut(s)	436, 966
BseMI	GCAATG	1 cut(s)	82
BseMII	CTCAG	2 cut(s)	339, 831
BseNI	ACTGG	5 cut(s)	369, 449, 502, 852, 954
BseRI	GAGGAG	2 cut(s)	39, 497
BseSI	GKGCMC	1 cut(s)	22
BseXI	GCAGC	2 cut(s)	415, 1164
BshFI	GGCC	5 cut(s)	103, 333, 399, 426, 993
BsiHKAI	GWGCWC	2 cut(s)	22, 115
BsiHKCI	CYCGRG	1 cut(s)	98
BslFI	GGGAC	2 cut(s)	286, 716
BsmAI	GTCTC	1 cut(s)	940
BsmFI	GGGAC	2 cut(s)	286, 716
BsmI	GAATGC	2 cut(s)	302, 895
BsnI	GGCC	5 cut(s)	103, 333, 399, 426, 993
BsoBI	CYCGRG	1 cut(s)	98
Bsp1286I	GDGCHC	2 cut(s)	22, 115
Bsp143I	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
BspACI	CCGC	1 cut(s)	258
BspANI	GGCC	5 cut(s)	103, 333, 399, 426, 993
BspCNI	CTCAG	2 cut(s)	340, 832
BspLI	GGNNCC	2 cut(s)	983, 1070
BspPI	GGATC	5 cut(s)	158, 269, 798, 858, 886
BsrDI	GCAATG	1 cut(s)	82
BsrI	ACTGG	5 cut(s)	369, 449, 502, 852, 954
BssMI	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
BssNAI	GTATAC	1 cut(s)	782
Bst1107I	GTATAC	1 cut(s)	782
Bst2UI	CCWGG	1 cut(s)	428
Bst4CI	ACNGT	6 cut(s)	277, 779, 1004, 1027, 1102, 1208
Bst6I	CTCTTC	1 cut(s)	465
BstAPI	GCANNNNNTGC	1 cut(s)	564
BstBAI	YACGTR	1 cut(s)	445
BstC8I	GCNNGC	2 cut(s)	95, 401
BstDEI	CTNAG	5 cut(s)	186, 348, 840, 904, 1133
BstF5I	GGATG	2 cut(s)	436, 966
BstHHI	GCGC	1 cut(s)	558
BstKTI	GATC	7 cut(s)	15, 153, 264, 494, 793, 853, 881
BstMAI	GTCTC	1 cut(s)	940
BstMBI	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
BstMWI	GCNNNNNNNGC	1 cut(s)	564
BstNI	CCWGG	1 cut(s)	428
BstSCI	CCNGG	1 cut(s)	426
BstSFI	CTRYAG	2 cut(s)	276, 1026
BstSLI	GKGCMC	1 cut(s)	22
BstV1I	GCAGC	2 cut(s)	415, 1164
BstV2I	GAAGAC	2 cut(s)	138, 675
BstX2I	RGATCY	3 cut(s)	150, 261, 491
BstYI	RGATCY	3 cut(s)	150, 261, 491
BstZ17I	GTATAC	1 cut(s)	782
BsuRI	GGCC	5 cut(s)	103, 333, 399, 426, 993
BtsCI	GGATG	2 cut(s)	436, 966
BtsI	GCAGTG	1 cut(s)	900
BtsIMutI	CAGTG	5 cut(s)	22, 845, 900, 1000, 1023
Cac8I	GCNNGC	2 cut(s)	95, 401
CaiI	CAGNNNCTG	1 cut(s)	1177
CfoI	GCGC	1 cut(s)	558
Cfr13I	GGNCC	1 cut(s)	101
Csp6I	GTAC	7 cut(s)	70, 144, 212, 233, 446, 832, 1005
CviAII	CATG	4 cut(s)	147, 242, 359, 854
CviQI	GTAC	7 cut(s)	70, 144, 212, 233, 446, 832, 1005
DdeI	CTNAG	5 cut(s)	186, 348, 840, 904, 1133
DpnI	GATC	7 cut(s)	14, 152, 263, 493, 792, 852, 880
DpnII	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
EaeI	YGGCCR	1 cut(s)	397
Eam1104I	CTCTTC	1 cut(s)	465
EarI	CTCTTC	1 cut(s)	465
Eco147I	AGGCCT	2 cut(s)	333, 993
Eco57I	CTGAAG	2 cut(s)	489, 936
Eco88I	CYCGRG	1 cut(s)	98
EcoRI	GAATTC	1 cut(s)	1163
EcoRII	CCWGG	1 cut(s)	426
FaeI	CATG	4 cut(s)	150, 245, 362, 857
FaqI	GGGAC	2 cut(s)	286, 716
FatI	CATG	4 cut(s)	146, 241, 358, 853
FauI	CCCGC	1 cut(s)	251
FblI	GTMKAC	1 cut(s)	781
Fnu4HI	GCNGC	2 cut(s)	404, 1178
FokI	GGATG	2 cut(s)	443, 953
Fsp4HI	GCNGC	2 cut(s)	404, 1178
FspBI	CTAG	4 cut(s)	455, 645, 1160, 1221
GlaI	GCGC	1 cut(s)	557
GluI	GCNGC	2 cut(s)	404, 1178
GsuI	CTGGAG	1 cut(s)	963
HaeIII	GGCC	5 cut(s)	103, 333, 399, 426, 993
HhaI	GCGC	1 cut(s)	558
Hin1II	CATG	4 cut(s)	150, 245, 362, 857
Hin6I	GCGC	1 cut(s)	556
HinP1I	GCGC	1 cut(s)	556
HincII	GTYRAC	1 cut(s)	960
HindII	GTYRAC	1 cut(s)	960
HinfI	GANTC	4 cut(s)	190, 800, 842, 911
HphI	GGTGA	3 cut(s)	166, 767, 795
Hpy166II	GTNNAC	7 cut(s)	20, 214, 442, 782, 960, 1076, 1142
Hpy188I	TCNGA	8 cut(s)	349, 382, 461, 529, 759, 916, 1036, 1087
Hpy188III	TCNNGA	8 cut(s)	32, 64, 797, 813, 876, 942, 979, 1221
Hpy8I	GTNNAC	7 cut(s)	20, 214, 442, 782, 960, 1076, 1142
Hpy99I	CGWCG	1 cut(s)	93
HpyAV	CCTTC	4 cut(s)	344, 607, 983, 1114
HpyCH4III	ACNGT	6 cut(s)	277, 779, 1004, 1027, 1102, 1208
HpyCH4IV	ACGT	1 cut(s)	444
HpyCH4V	TGCA	8 cut(s)	20, 83, 302, 420, 567, 629, 893, 1054
HpyF10VI	GCNNNNNNNGC	1 cut(s)	564
HpyF3I	CTNAG	5 cut(s)	186, 348, 840, 904, 1133
HpySE526I	ACGT	1 cut(s)	444
Hsp92II	CATG	4 cut(s)	150, 245, 362, 857
HspAI	GCGC	1 cut(s)	556
Kzo9I	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
LmnI	GCTCC	1 cut(s)	1074
Lsp1109I	GCAGC	2 cut(s)	415, 1164
LweI	GCATC	5 cut(s)	70, 638, 739, 1041, 1164
MaeI	CTAG	4 cut(s)	455, 645, 1160, 1221
MaeII	ACGT	1 cut(s)	444
MaeIII	GTNAC	4 cut(s)	354, 369, 843, 919
MalI	GATC	7 cut(s)	14, 152, 263, 493, 792, 852, 880
MboI	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
MboII	GAAGA	7 cut(s)	143, 482, 680, 920, 1051, 1118, 1246
MfeI	CAATTG	1 cut(s)	785
MflI	RGATCY	3 cut(s)	150, 261, 491
MhlI	GDGCHC	2 cut(s)	22, 115
MlsI	TGGCCA	1 cut(s)	399
MluNI	TGGCCA	1 cut(s)	399
MlyI	GAGTC	1 cut(s)	851
MmeI	TCCRAC	1 cut(s)	1176
MnlI	CCTC	9 cut(s)	60, 114, 475, 478, 703, 720, 938, 1004, 1192
Mox20I	TGGCCA	1 cut(s)	399
MroXI	GAANNNNTTC	1 cut(s)	534
MscI	TGGCCA	1 cut(s)	399
MseI	TTAA	3 cut(s)	117, 315, 1247
MslI	CAYNNNNRTG	1 cut(s)	1172
Msp20I	TGGCCA	1 cut(s)	399
MspA1I	CMGCKG	1 cut(s)	1081
MspR9I	CCNGG	1 cut(s)	428
MunI	CAATTG	1 cut(s)	785
Mva1269I	GAATGC	2 cut(s)	302, 895
MvaI	CCWGG	1 cut(s)	428
MwoI	GCNNNNNNNGC	1 cut(s)	564
NdeII	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
NlaIII	CATG	4 cut(s)	150, 245, 362, 857
NlaIV	GGNNCC	2 cut(s)	983, 1070
NmuCI	GTSAC	3 cut(s)	354, 843, 919
PceI	AGGCCT	2 cut(s)	333, 993
PctI	GAATGC	2 cut(s)	302, 895
PdmI	GAANNNNTTC	1 cut(s)	534
PfeI	GAWTC	3 cut(s)	190, 800, 911
PkrI	GCNGC	2 cut(s)	405, 1179
PleI	GAGTC	1 cut(s)	850
PpsI	GAGTC	1 cut(s)	850
Ppu21I	YACGTR	1 cut(s)	445
Psp6I	CCWGG	1 cut(s)	426
PspGI	CCWGG	1 cut(s)	426
PspN4I	GGNNCC	2 cut(s)	983, 1070
PspPI	GGNCC	1 cut(s)	101
PsrI	GAACNNNNNNTAC	2 cut(s)	354, 386
PstNI	CAGNNNCTG	1 cut(s)	1177
PsuI	RGATCY	3 cut(s)	150, 261, 491
PvuII	CAGCTG	1 cut(s)	1081
RsaI	GTAC	7 cut(s)	71, 145, 213, 234, 447, 833, 1006
RsaNI	GTAC	7 cut(s)	70, 144, 212, 233, 446, 832, 1005
RseI	CAYNNNNRTG	1 cut(s)	1172
SaqAI	TTAA	3 cut(s)	117, 315, 1247
SatI	GCNGC	2 cut(s)	404, 1178
Sau3AI	GATC	7 cut(s)	12, 150, 261, 491, 790, 850, 878
Sau96I	GGNCC	1 cut(s)	101
SchI	GAGTC	1 cut(s)	851
ScrFI	CCNGG	1 cut(s)	428
SduI	GDGCHC	2 cut(s)	22, 115
SfaNI	GCATC	5 cut(s)	70, 638, 739, 1041, 1164
SfcI	CTRYAG	2 cut(s)	276, 1026
SmiMI	CAYNNNNRTG	1 cut(s)	1172
SmlI	CTYRAG	1 cut(s)	30
SmoI	CTYRAG	1 cut(s)	30
SseBI	AGGCCT	2 cut(s)	333, 993
SsiI	CCGC	1 cut(s)	258
SspI	AATATT	1 cut(s)	625
SspMI	CTAG	4 cut(s)	455, 645, 1160, 1221
StuI	AGGCCT	2 cut(s)	333, 993
StyD4I	CCNGG	1 cut(s)	426
TaaI	ACNGT	6 cut(s)	277, 779, 1004, 1027, 1102, 1208
TaiI	ACGT	1 cut(s)	447
TaqI	TCGA	3 cut(s)	52, 708, 820
TatI	WGTACW	4 cut(s)	69, 211, 232, 1004
TfiI	GAWTC	3 cut(s)	190, 800, 911
Tru1I	TTAA	3 cut(s)	117, 315, 1247
Tru9I	TTAA	3 cut(s)	117, 315, 1247
TscAI	CASTG	5 cut(s)	22, 852, 900, 1007, 1030
TseFI	GTSAC	3 cut(s)	354, 843, 919
TseI	GCWGC	2 cut(s)	403, 1177
Tsp45I	GTSAC	3 cut(s)	354, 843, 919
TspDTI	ATGAA	2 cut(s)	375, 882
TspGWI	ACGGA	2 cut(s)	388, 1061
TspRI	CASTG	5 cut(s)	22, 852, 900, 1007, 1030
VneI	GTGCAC	1 cut(s)	18
XapI	RAATTY	3 cut(s)	43, 511, 1163
XbaI	TCTAGA	1 cut(s)	1220
XmiI	GTMKAC	1 cut(s)	781
XmnI	GAANNNNTTC	1 cut(s)	534
XspI	CTAG	4 cut(s)	455, 645, 1160, 1221

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