Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0001105

Physical Location & Seq

Genomic Coordinates Reverse (-)

17879319 .. 17884789

Gene Structure 5471 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG186900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1263 bp

ATGCCGAAAACAAGGGAAAATGCTGCCGGAGATGCACCTGAAAGGCCTGTAGAATCCGAGGAGCAGGTGGACCTTGATGGAGACAATGATCCTGAGGAAACAATAGAAGAAGAGGTTGAGTATGAAGAAGTAGAGGAAGAGGAGGAAGTGGAAGAAGAAGAGGAAGAGGAAGAGGAAGATCCAGAAGAGGAGGAAGAGGATGAAAACAAGGGAGGTGATATAGAATCTAATGGGAAAAAAAGCGCAGATGGTGATGTAGAGATGAAAGTTACAGACGCAGAGGAGGAAGAGGATAAAAAGAAACATGCGGAGCTTCTTGCACTCCCTCAGCATGGGTCAGAGGTGTATCTTGGTGGCATTCCTCATGATGCATCTGAAGAGGATTTAAGGGGCTTTTGTGAATCTATTGGGGAAGTGACTGAGGTTAGGATAATGAAGGGAAAAGATTCGGGTGAGGCCAAAGGTTATGCTTTTGTAACATTCAGAAACAAGGAACTAGCTTCTAAGGCAATAGAGGAACTGAATAACTCTCAATTAAAGGGAAAAAAGATCAAGTGTTCTACCTCGCAAGCCAAGCATCGTCTGTTCATTGGAAATGTTCCTAGAACTTGGGGAGAGGATGATATGAAGAAAGCTGTAACAGATACAGGGCCAGGAGTTATCTCTGTGGAACTGTTGAAGGACCCACAAAACTCCAGTCGGAACCGTGGATTTGCTTTCATCGAGTATTATAATCATGCATGTGCAGACTACTCTAGACAAAAGATGTCAACCTCAAAGTTCAAGCTTGATATTAATGCTCCAACTGTGAGTTGGGCGGATCCCAAGAATGCAGAATCCTCTGCCTCCTCTCAGGTTAAGGCAGTGTATGTCAAGAATCTACCAAAAGACATTACTCAGGATGATCTAAAAGAGCTTTTTGACCATCATGGAAAGATCACAAAGGTCGTTCTCCCACCTGCAAAAGCCGGACAGGAAAGGAGCAGATTTGGTTTTGTGCACTTTGCAGACAGGTCCAGTGCCATGAAGGCATTGAAGAACACTGAAAAATATGAAATTGGTGGTCAAGTTTTGGAGTGTTCTTTGGCAAAGCCTCAAGCAGATCAGAAATCTTCTGGTGCATCAAATCATCAGAAGTCAGCCCCACTTCCAACCTACCCACCACATATTGGTTATGGCATGGTAGGGACTGGGCCATATGGTCCCTTGGGTGCTGGATATGGTGGTGGTGCAGGATTTTCACAAGTAAGATTTAAACTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016553 GO:0016554 GO:0030895 GO:0031647 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0050821 GO:0065007 GO:0065008 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1 bZIP_2

Protein Analysis

420

Amino Acids

46.3

Weight (kDa)

4.75

Isoelectric Point (pI)

55.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	115 - 185	6.7e-19	RNA recognition motif
RRM_1	PF00076	195 - 261	1.9e-07	RNA recognition motif
RRM_10	PF22976	287 - 353	5.3e-06	RRM domain
RRM_1	PF00076	289 - 358	2.8e-17	RNA recognition motif

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: OG0001105)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52660 AT3G52660 AT3G52660 AT5G28390
fragaria_vesca	FvH4_3g24960 FvH4_3g24960 FvH4_3g24960 FvH4_3g24960 FvH4_3g24960 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900
malus_domestica	MD11G1164700.v1.1 MD12G1025200.v1.1 MD14G1023900.v1.1
prunus_persica	Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.7G108900_v2.0.a1 Prupe.7G108900_v2.0.a1 Prupe.7G108900_v2.0.a1
pyrus_communis	pycom11g13700 pycom14g02300
rosa_chinensis	RchiOBHm_Chr3g0473891 RchiOBHm_Chr5g0044751
rosa_laevigata	RLG00000023975 RLG00000034296
rosa_multiflora	Rmu_sc0000228.1_g000015 Rmu_sc0002414.1_g000043
rosa_roxburghii	Rroxscaffold_1G00036280 Rroxscaffold_6G00407690
rosa_rugosa	Rorug03G0136400 Rorug03G0136500 Rorug03G0136600 Rorug05G0217300 Rorug05G0217400 Rorug05G0217500 Rorug05G0217600 Rorug05G0217700
rosa_samantha	Rh3AG186900 Rh3BG215500 Rh3CG212200 Rh3DG211400 Rh5AG300700 Rh5BG307400 Rh5CG334500 Rh5DG317500
rosa_wichuraiana	Rw3G017090 Rw5G027820 Rw5G027860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	732
AarI	CACCTGC	2 cut(s)	55, 967
Acc36I	ACCTGC	2 cut(s)	55, 967
AccB7I	CCANNNNNTGG	1 cut(s)	1169
AciI	CCGC	2 cut(s)	308, 818
AclWI	GGATC	4 cut(s)	83, 173, 815, 828
AcuI	CTGAAG	1 cut(s)	396
AfiI	CCNNNNNNNGG	2 cut(s)	332, 1169
AgsI	TTSAA	3 cut(s)	679, 784, 1036
AjnI	CCWGG	1 cut(s)	652
AluBI	AGCT	5 cut(s)	313, 500, 635, 787, 916
AluI	AGCT	5 cut(s)	313, 500, 635, 787, 916
Alw21I	GWGCWC	1 cut(s)	1002
Alw26I	GTCTC	1 cut(s)	75
Alw44I	GTGCAC	1 cut(s)	998
AlwI	GGATC	4 cut(s)	83, 173, 815, 828
AoxI	GGCC	4 cut(s)	44, 456, 650, 1193
ApaLI	GTGCAC	1 cut(s)	998
ApeKI	GCWGC	1 cut(s)	23
ArsI	GACNNNNNNTTYG	2 cut(s)	682, 714
AseI	ATTAAT	1 cut(s)	795
Asp700I	GAANNNNTTC	1 cut(s)	445
AspLEI	GCGC	1 cut(s)	245
AspS9I	GGNCC	6 cut(s)	70, 650, 682, 1014, 1193, 1202
AsuHPI	GGTGA	3 cut(s)	227, 263, 464
AvaII	GGWCC	4 cut(s)	70, 682, 1014, 1202
AxyI	CCTNAGG	1 cut(s)	93
BaeGI	GKGCMC	1 cut(s)	1002
BamHI	GGATCC	1 cut(s)	820
Bbv12I	GWGCWC	1 cut(s)	1002
BbvCI	CCTCAGC	1 cut(s)	327
BbvI	GCAGC	1 cut(s)	10
BccI	CCATC	3 cut(s)	71, 242, 933
BciT130I	CCWGG	1 cut(s)	654
BcoDI	GTCTC	1 cut(s)	75
BfaI	CTAG	3 cut(s)	497, 603, 756
BfmI	CTRYAG	1 cut(s)	48
BfuAI	ACCTGC	2 cut(s)	55, 967
BglI	GCCNNNNNGGC	1 cut(s)	1028
BisI	GCNGC	1 cut(s)	24
BlsI	GCNGC	1 cut(s)	25
Bme1390I	CCNGG	1 cut(s)	654
Bme18I	GGWCC	4 cut(s)	70, 682, 1014, 1202
BmgT120I	GGNCC	6 cut(s)	70, 650, 682, 1014, 1193, 1202
BmiI	GGNNCC	4 cut(s)	684, 704, 822, 1204
BmrFI	CCNGG	1 cut(s)	654
BmrI	ACTGGG	1 cut(s)	1200
BmsI	GCATC	5 cut(s)	22, 358, 380, 586, 1130
BmuI	ACTGGG	1 cut(s)	1200
BpmI	CTGGAG	1 cut(s)	679
Bpu10I	CCTNAGC	1 cut(s)	327
BpuEI	CTTGAG	1 cut(s)	1080
BsaJI	CCNNGG	3 cut(s)	57, 706, 1206
Bsc4I	CCNNNNNNNGG	2 cut(s)	332, 1169
Bse1I	ACTGG	3 cut(s)	696, 1017, 1195
Bse21I	CCTNAGG	1 cut(s)	93
BseBI	CCWGG	1 cut(s)	654
BseDI	CCNNGG	3 cut(s)	57, 706, 1206
BseGI	GGATG	3 cut(s)	205, 625, 907
BseLI	CCNNNNNNNGG	2 cut(s)	332, 1169
BseMII	CTCAG	5 cut(s)	84, 341, 411, 866, 911
BseNI	ACTGG	3 cut(s)	696, 1017, 1195
BseRI	GAGGAG	5 cut(s)	74, 155, 203, 296, 838
BseSI	GKGCMC	1 cut(s)	1002
BseXI	GCAGC	1 cut(s)	10
BsgI	GTGCAG	2 cut(s)	765, 1251
BshFI	GGCC	4 cut(s)	46, 458, 652, 1195
BsiHKAI	GWGCWC	1 cut(s)	1002
BsiSI	CCGG	2 cut(s)	27, 969
BslFI	GGGAC	2 cut(s)	1188, 1201
BslI	CCNNNNNNNGG	2 cut(s)	332, 1169
BsmAI	GTCTC	1 cut(s)	75
BsmFI	GGGAC	2 cut(s)	1188, 1201
BsmI	GAATGC	2 cut(s)	357, 835
BsnI	GGCC	4 cut(s)	46, 458, 652, 1195
Bsp1286I	GDGCHC	1 cut(s)	1002
Bsp143I	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
BspACI	CCGC	2 cut(s)	308, 818
BspANI	GGCC	4 cut(s)	46, 458, 652, 1195
BspCNI	CTCAG	5 cut(s)	85, 340, 412, 865, 910
BspHI	TCATGA	1 cut(s)	364
BspLI	GGNNCC	4 cut(s)	684, 704, 822, 1204
BspMI	ACCTGC	2 cut(s)	55, 967
BspPI	GGATC	4 cut(s)	83, 173, 815, 828
BsrI	ACTGG	3 cut(s)	696, 1017, 1195
BssECI	CCNNGG	3 cut(s)	57, 706, 1206
BssMI	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
BssT1I	CCWWGG	1 cut(s)	1206
Bst2UI	CCWGG	1 cut(s)	654
Bst4CI	ACNGT	4 cut(s)	675, 707, 808, 1260
Bst6I	CTCTTC	9 cut(s)	105, 132, 153, 159, 165, 180, 189, 282, 372
BstC8I	GCNNGC	1 cut(s)	570
BstDEI	CTNAG	6 cut(s)	93, 327, 420, 504, 852, 897
BstDSI	CCRYGG	1 cut(s)	706
BstF5I	GGATG	3 cut(s)	205, 625, 907
BstHHI	GCGC	1 cut(s)	245
BstKTI	GATC	7 cut(s)	91, 181, 552, 823, 907, 939, 1105
BstMAI	GTCTC	1 cut(s)	75
BstMBI	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
BstMWI	GCNNNNNNNGC	4 cut(s)	32, 506, 574, 1028
BstNI	CCWGG	1 cut(s)	654
BstNSI	RCATGY	2 cut(s)	308, 744
BstSCI	CCNGG	1 cut(s)	652
BstSFI	CTRYAG	1 cut(s)	48
BstSLI	GKGCMC	1 cut(s)	1002
BstV1I	GCAGC	1 cut(s)	10
BstX2I	RGATCY	2 cut(s)	178, 820
BstYI	RGATCY	2 cut(s)	178, 820
Bsu36I	CCTNAGG	1 cut(s)	93
BsuRI	GGCC	4 cut(s)	46, 458, 652, 1195
BtgI	CCRYGG	1 cut(s)	706
BtsCI	GGATG	3 cut(s)	205, 625, 907
BtsI	GCAGTG	1 cut(s)	870
BtsIMutI	CAGTG	3 cut(s)	870, 1024, 1041
BveI	ACCTGC	2 cut(s)	55, 967
Cac8I	GCNNGC	1 cut(s)	570
CciI	TCATGA	1 cut(s)	364
CfoI	GCGC	1 cut(s)	245
Cfr13I	GGNCC	6 cut(s)	70, 650, 682, 1014, 1193, 1202
CseI	GACGC	1 cut(s)	284
CviAII	CATG	8 cut(s)	305, 332, 365, 737, 741, 929, 1024, 1180
DdeI	CTNAG	6 cut(s)	93, 327, 420, 504, 852, 897
DpnI	GATC	7 cut(s)	90, 180, 551, 822, 906, 938, 1104
DpnII	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
DraI	TTTAAA	1 cut(s)	1255
Eam1104I	CTCTTC	9 cut(s)	105, 132, 153, 159, 165, 180, 189, 282, 372
EarI	CTCTTC	9 cut(s)	105, 132, 153, 159, 165, 180, 189, 282, 372
EciI	GGCGGA	1 cut(s)	833
Eco130I	CCWWGG	1 cut(s)	1206
Eco147I	AGGCCT	1 cut(s)	46
Eco47I	GGWCC	4 cut(s)	70, 682, 1014, 1202
Eco57I	CTGAAG	1 cut(s)	396
Eco81I	CCTNAGG	1 cut(s)	93
EcoO109I	RGGNCCY	1 cut(s)	682
EcoRII	CCWGG	1 cut(s)	652
EcoT14I	CCWWGG	1 cut(s)	1206
EcoT22I	ATGCAT	2 cut(s)	373, 742
ErhI	CCWWGG	1 cut(s)	1206
FaeI	CATG	8 cut(s)	308, 335, 368, 740, 744, 932, 1027, 1183
FaqI	GGGAC	2 cut(s)	1188, 1201
FatI	CATG	8 cut(s)	304, 331, 364, 736, 740, 928, 1023, 1179
FauNDI	CATATG	1 cut(s)	1198
Fnu4HI	GCNGC	1 cut(s)	24
FokI	GGATG	3 cut(s)	212, 632, 914
Fsp4HI	GCNGC	1 cut(s)	24
FspBI	CTAG	3 cut(s)	497, 603, 756
GlaI	GCGC	1 cut(s)	244
GluI	GCNGC	1 cut(s)	24
GsuI	CTGGAG	1 cut(s)	679
HaeIII	GGCC	4 cut(s)	46, 458, 652, 1195
HapII	CCGG	2 cut(s)	27, 969
HgaI	GACGC	1 cut(s)	284
HhaI	GCGC	1 cut(s)	245
Hin1II	CATG	8 cut(s)	308, 335, 368, 740, 744, 932, 1027, 1183
Hin6I	GCGC	1 cut(s)	243
HinP1I	GCGC	1 cut(s)	243
HincII	GTYRAC	1 cut(s)	771
HindII	GTYRAC	1 cut(s)	771
HindIII	AAGCTT	1 cut(s)	785
HinfI	GANTC	6 cut(s)	53, 224, 401, 446, 836, 877
HpaII	CCGG	2 cut(s)	27, 969
HphI	GGTGA	3 cut(s)	227, 263, 464
Hpy166II	GTNNAC	3 cut(s)	70, 771, 1000
Hpy188I	TCNGA	7 cut(s)	58, 340, 376, 485, 702, 1107, 1134
Hpy188III	TCNNGA	6 cut(s)	92, 182, 365, 756, 874, 899
Hpy8I	GTNNAC	3 cut(s)	70, 771, 1000
HpyAV	CCTTC	3 cut(s)	430, 673, 1021
HpyCH4III	ACNGT	4 cut(s)	675, 707, 808, 1260
HpyF10VI	GCNNNNNNNGC	4 cut(s)	32, 506, 574, 1028
HpyF3I	CTNAG	6 cut(s)	93, 327, 420, 504, 852, 897
Hsp92II	CATG	8 cut(s)	308, 335, 368, 740, 744, 932, 1027, 1183
HspAI	GCGC	1 cut(s)	243
Kzo9I	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
LmnI	GCTCC	4 cut(s)	61, 310, 805, 981
Lsp1109I	GCAGC	1 cut(s)	10
LweI	GCATC	5 cut(s)	22, 358, 380, 586, 1130
MaeI	CTAG	3 cut(s)	497, 603, 756
MaeIII	GTNAC	4 cut(s)	268, 415, 475, 637
MalI	GATC	7 cut(s)	90, 180, 551, 822, 906, 938, 1104
MboI	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
MflI	RGATCY	2 cut(s)	178, 820
MhlI	GDGCHC	1 cut(s)	1002
MluCI	AATT	2 cut(s)	533, 1056
MmeI	TCCRAC	3 cut(s)	680, 827, 1175
Mph1103I	ATGCAT	2 cut(s)	373, 742
MroXI	GAANNNNTTC	1 cut(s)	445
MseI	TTAA	5 cut(s)	386, 536, 795, 858, 1254
MslI	CAYNNNNRTG	1 cut(s)	741
MspI	CCGG	2 cut(s)	27, 969
MspR9I	CCNGG	1 cut(s)	654
Mva1269I	GAATGC	2 cut(s)	357, 835
MvaI	CCWGG	1 cut(s)	654
MwoI	GCNNNNNNNGC	4 cut(s)	32, 506, 574, 1028
NdeI	CATATG	1 cut(s)	1198
NdeII	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
NlaIII	CATG	8 cut(s)	308, 335, 368, 740, 744, 932, 1027, 1183
NlaIV	GGNNCC	4 cut(s)	684, 704, 822, 1204
NmuCI	GTSAC	1 cut(s)	415
NsiI	ATGCAT	2 cut(s)	373, 742
NspI	RCATGY	2 cut(s)	308, 744
PagI	TCATGA	1 cut(s)	364
PaqCI	CACCTGC	2 cut(s)	55, 967
PceI	AGGCCT	1 cut(s)	46
PctI	GAATGC	2 cut(s)	357, 835
PdmI	GAANNNNTTC	1 cut(s)	445
PfeI	GAWTC	6 cut(s)	53, 224, 401, 446, 836, 877
PflMI	CCANNNNNTGG	1 cut(s)	1169
PkrI	GCNGC	1 cut(s)	25
PpuMI	RGGWCCY	1 cut(s)	682
PshBI	ATTAAT	1 cut(s)	795
PsiI	TTATAA	1 cut(s)	732
Psp5II	RGGWCCY	1 cut(s)	682
Psp6I	CCWGG	1 cut(s)	652
PspGI	CCWGG	1 cut(s)	652
PspN4I	GGNNCC	4 cut(s)	684, 704, 822, 1204
PspPI	GGNCC	6 cut(s)	70, 650, 682, 1014, 1193, 1202
PspPPI	RGGWCCY	1 cut(s)	682
PsuI	RGATCY	2 cut(s)	178, 820
RseI	CAYNNNNRTG	1 cut(s)	741
SaqAI	TTAA	5 cut(s)	386, 536, 795, 858, 1254
SatI	GCNGC	1 cut(s)	24
Sau3AI	GATC	7 cut(s)	88, 178, 549, 820, 904, 936, 1102
Sau96I	GGNCC	6 cut(s)	70, 650, 682, 1014, 1193, 1202
ScrFI	CCNGG	1 cut(s)	654
SduI	GDGCHC	1 cut(s)	1002
SfaNI	GCATC	5 cut(s)	22, 358, 380, 586, 1130
SfcI	CTRYAG	1 cut(s)	48
SinI	GGWCC	4 cut(s)	70, 682, 1014, 1202
SmiMI	CAYNNNNRTG	1 cut(s)	741
SmlI	CTYRAG	1 cut(s)	1095
SmoI	CTYRAG	1 cut(s)	1095
Sse9I	AATT	2 cut(s)	533, 1056
SseBI	AGGCCT	1 cut(s)	46
SsiI	CCGC	2 cut(s)	308, 818
SspMI	CTAG	3 cut(s)	497, 603, 756
StuI	AGGCCT	1 cut(s)	46
StyD4I	CCNGG	1 cut(s)	652
StyI	CCWWGG	1 cut(s)	1206
TaaI	ACNGT	4 cut(s)	675, 707, 808, 1260
TaqI	TCGA	1 cut(s)	723
TasI	AATT	2 cut(s)	533, 1056
TfiI	GAWTC	6 cut(s)	53, 224, 401, 446, 836, 877
Tru1I	TTAA	5 cut(s)	386, 536, 795, 858, 1254
Tru9I	TTAA	5 cut(s)	386, 536, 795, 858, 1254
TscAI	CASTG	3 cut(s)	870, 1024, 1048
TseFI	GTSAC	1 cut(s)	415
TseI	GCWGC	1 cut(s)	23
Tsp45I	GTSAC	1 cut(s)	415
TspDTI	ATGAA	9 cut(s)	138, 216, 278, 449, 577, 641, 709, 1040, 1068
TspRI	CASTG	3 cut(s)	870, 1024, 1048
Van91I	CCANNNNNTGG	1 cut(s)	1169
VneI	GTGCAC	1 cut(s)	998
VpaK11BI	GGWCC	4 cut(s)	70, 682, 1014, 1202
VspI	ATTAAT	1 cut(s)	795
XbaI	TCTAGA	1 cut(s)	755
XceI	RCATGY	2 cut(s)	308, 744
XcmI	CCANNNNNNNNNTGG	1 cut(s)	810
XmnI	GAANNNNTTC	1 cut(s)	445
XspI	CTAG	3 cut(s)	497, 603, 756
Zsp2I	ATGCAT	2 cut(s)	373, 742

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