Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000929

Physical Location & Seq

Genomic Coordinates Reverse (-)

64172105 .. 64174867

Gene Structure 2763 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG439400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1122 bp

ATGCAGGCTAGAGCCGGTATAGATTACGAATCTTCCTATGGGAAAGCTCGGCCCAGTGACACTATTCTGAAGCTTCAAAGAACAGCACCCTATTACAAAAGGAACAGAGCACATGTCTGCAGTTTCTACATTCGAGGTGAGTGCACAAGAGGCGCTGAGTGCCCTTACAGGCATGAAATGCCCATAACTGGGGAGTTGGCACAACAAAACATTAAAGATCGTTACTATGGAGTCAATGATCCAGTTGCGATGAAGCTACTGAACAAGGCTGGAGAGATGCCCTCCCTCGAACCTCCTGAGGATGAAAGCATCAGAACCCTATATGTGGGTGGGCTTGATGGGAGAATTACTGAGCAGGATCTAAGGGATAACTTTTATGCTCATGGTGAAATAGAGTCTGTTAGGATGGTACTCCAACGAGCTTGTGCTTTCGTAACCTACACAACAAGAGAAGGTGCAGAAAAGGCTGCAGAAGAACTCTCCAATAAACTGGTGATAAAGGGTTTGAGATTGAAGTTAATGTGGGGTAGGCCCCAAGCACCAAAACAGGACTCAGAGGGCACAGATGAAGCTAGGCAGCAGGCAGTGGCTCATAGTGGATTGTTGCCTCGAGCAGTGATTTCACAACAGCAGAACCAAATACAAGATCAATCTGCAACAGTGCAGCACTACTACAACATGCCACCTCCACCATCTTCACAGGAGAGGACATTTTATCCATCAATGGATCCTCAAAGAATGGGCGCTGTTGTTCGATCTCAAGATGGGGCTCCTAGTGGGCCTGCAGGGTCTGGCGAGAACAAATCTGGTTCAGAGAGGCAGCATTATGCTTTTCAAACCATGGCTCCACCACATGGTCATTATCATCATCAGCAGTTTTATCCTCCCCCATATACAGCTTATATGCCTCTGCCGCCACCAGCTTACCAACAACAATACCCTCCGCAATATCATGCTGCAGTGCCTCCACAACAGTCCTTGACAATGAACCAACAGTACCAGCAGCATTCTGTAACACCCGCAGCTTCTACATCATCAGCATCCGCAGCTTCAAGTTCTGGGCCTTCAGAATCCACAGCATCTGAATCTGGATCTGCACCAACTGCGTCATCACAGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000387 GO:0000398 GO:0000974 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008380 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0017069 GO:0017070 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0034622 GO:0034641 GO:0036002 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0051704 GO:0051707 GO:0065003 GO:0071006 GO:0071007 GO:0071012 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0098542 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 Torus

Protein Analysis

373

Amino Acids

41.29

Weight (kDa)

6.87

Isoelectric Point (pI)

75.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Torus	PF16131	12 - 70	9.8e-07	Torus domain
zf-CCCH_RBM22	PF25584	34 - 60	1.2e-11	RBM22 CCCH zinc finger domain
RRM_1	PF00076	107 - 165	4.4e-12	RNA recognition motif

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

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

Orthologous Genes (Group: OG0000929)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07360 AT2G29580 AT5G04210 AT5G07060 AT5G07060
fragaria_vesca	FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g36530 FvH4_4g36530 FvH4_7g07370
malus_domestica	MD01G1110000.v1.1 MD07G1175800.v1.1 MD16G1006600.v1.1
prunus_persica	Prupe.2G214800_v2.0.a1 Prupe.8G143100_v2.0.a1 Prupe.8G143100_v2.0.a1 Prupe.8G143100_v2.0.a1
pyrus_communis	pycom01g13690 pycom07g17000 pycom16g00630
rosa_chinensis	RchiOBHm_Chr1g0337351 RchiOBHm_Chr4g0408701 RchiOBHm_Chr4g0446281
rosa_laevigata	RLG00000005673 RLG00000008640 RLG00000029280 RLG00000029283
rosa_multiflora	Rmu_co8341103.1_g000001 Rmu_co8350441.1_g000001 Rmu_co8408813.1_g000001 Rmu_co8519167.1_g000003 Rmu_co8522047.1_g000002 Rmu_sc0002266.1_g000007 Rmu_sc0003060.1_g000002 Rmu_sc0005878.1_g000023 Rmu_sc0021927.1_g000001
rosa_roxburghii	Rroxscaffold_4G00314450 Rroxscaffold_4G00314490 Rroxscaffold_5G00353060 Rroxscaffold_5G00386720
rosa_rugosa	Rorug01G0134600.1 Rorug01G0134800.1 Rorug04G0086900 Rorug04G0369600 Rorug04G0369600
rosa_samantha	Rh1AG153600 Rh1BG122900 Rh1BG123100 Rh1CG144600 Rh1DG161300 Rh1DG161500 Rh4AG431500 Rh4BG148400 Rh4BG440900 Rh4CG159100 Rh4CG458200 Rh4DG144000 Rh4DG439400
rosa_wichuraiana	Rw1G012580 Rw4G012370 Rw4G036850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	854
AciI	CCGC	4 cut(s)	914, 944, 1020, 1044
AclWI	GGATC	5 cut(s)	233, 366, 722, 735, 1099
AcuI	CTGAAG	2 cut(s)	89, 1050
AfaI	GTAC	2 cut(s)	411, 998
AfiI	CCNNNNNNNGG	4 cut(s)	188, 189, 325, 854
AflIII	ACRYGT	1 cut(s)	112
AgsI	TTSAA	4 cut(s)	77, 514, 836, 1053
AleI	CACNNNNGTG	1 cut(s)	1117
AluBI	AGCT	9 cut(s)	47, 73, 256, 422, 572, 899, 923, 1025, 1049
AluI	AGCT	9 cut(s)	47, 73, 256, 422, 572, 899, 923, 1025, 1049
Alw21I	GWGCWC	2 cut(s)	112, 146
Alw44I	GTGCAC	1 cut(s)	142
AlwI	GGATC	5 cut(s)	233, 366, 722, 735, 1099
AlwNI	CAGNNNCTG	2 cut(s)	791, 1082
Ama87I	CYCGRG	1 cut(s)	609
AoxI	GGCC	4 cut(s)	50, 530, 779, 1061
ApaLI	GTGCAC	1 cut(s)	142
ApeKI	GCWGC	8 cut(s)	467, 577, 664, 820, 956, 1003, 1022, 1046
AspLEI	GCGC	2 cut(s)	155, 746
AspS9I	GGNCC	4 cut(s)	51, 531, 779, 1061
AsuHPI	GGTGA	3 cut(s)	149, 398, 505
AvaI	CYCGRG	1 cut(s)	609
AxyI	CCTNAGG	1 cut(s)	297
BaeGI	GKGCMC	3 cut(s)	146, 164, 563
BamHI	GGATCC	1 cut(s)	727
BanII	GRGCYC	1 cut(s)	772
Bbv12I	GWGCWC	2 cut(s)	112, 146
BbvI	GCAGC	8 cut(s)	454, 589, 676, 832, 943, 1015, 1034, 1058
BccI	CCATC	5 cut(s)	332, 400, 700, 727, 758
BcgI	CGANNNNNNTGC	2 cut(s)	123, 157
BfaI	CTAG	3 cut(s)	9, 573, 774
BfmI	CTRYAG	4 cut(s)	118, 468, 783, 957
BfoI	RGCGCY	2 cut(s)	156, 747
BisI	GCNGC	9 cut(s)	468, 578, 665, 821, 914, 957, 1004, 1023, 1047
BlsI	GCNGC	9 cut(s)	469, 579, 666, 822, 915, 958, 1005, 1024, 1048
BmeT110I	CYCGRG	1 cut(s)	609
BmgT120I	GGNCC	4 cut(s)	51, 531, 779, 1061
BmiI	GGNNCC	4 cut(s)	533, 729, 771, 846
BmrI	ACTGGG	2 cut(s)	48, 198
BmsI	GCATC	4 cut(s)	267, 318, 1049, 1088
BmuI	ACTGGG	2 cut(s)	48, 198
BplI	GAGNNNNNCTC	2 cut(s)	266, 298
BpmI	CTGGAG	1 cut(s)	291
BpuEI	CTTGAG	1 cut(s)	744
BsaJI	CCNNGG	1 cut(s)	840
BsaXI	ACNNNNNCTCC	2 cut(s)	829, 859
Bsc4I	CCNNNNNNNGG	4 cut(s)	188, 189, 325, 854
Bse118I	RCCGGY	1 cut(s)	14
Bse1I	ACTGG	4 cut(s)	54, 193, 242, 495
Bse21I	CCTNAGG	1 cut(s)	297
BseDI	CCNNGG	1 cut(s)	840
BseGI	GGATG	3 cut(s)	307, 411, 1040
BseLI	CCNNNNNNNGG	4 cut(s)	188, 189, 325, 854
BseMII	CTCAG	4 cut(s)	147, 288, 342, 567
BseNI	ACTGG	4 cut(s)	54, 193, 242, 495
BseSI	GKGCMC	3 cut(s)	146, 164, 563
BseXI	GCAGC	8 cut(s)	454, 589, 676, 832, 943, 1015, 1034, 1058
BsgI	GTGCAG	3 cut(s)	477, 683, 1080
BshFI	GGCC	4 cut(s)	52, 532, 781, 1063
BsiHKAI	GWGCWC	2 cut(s)	112, 146
BsiHKCI	CYCGRG	1 cut(s)	609
BsiSI	CCGG	1 cut(s)	15
BslI	CCNNNNNNNGG	4 cut(s)	188, 189, 325, 854
BsmI	GAATGC	1 cut(s)	1006
BsnI	GGCC	4 cut(s)	52, 532, 781, 1063
BsoBI	CYCGRG	1 cut(s)	609
Bsp1286I	GDGCHC	5 cut(s)	112, 146, 164, 563, 772
Bsp143I	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
Bsp19I	CCATGG	1 cut(s)	840
BspACI	CCGC	4 cut(s)	914, 944, 1020, 1044
BspANI	GGCC	4 cut(s)	52, 532, 781, 1063
BspCNI	CTCAG	4 cut(s)	148, 289, 343, 566
BspLI	GGNNCC	4 cut(s)	533, 729, 771, 846
BspMAI	CTGCAG	4 cut(s)	122, 472, 787, 961
BspPI	GGATC	5 cut(s)	233, 366, 722, 735, 1099
BsrFI	RCCGGY	1 cut(s)	14
BsrI	ACTGG	4 cut(s)	54, 193, 242, 495
BssAI	RCCGGY	1 cut(s)	14
BssECI	CCNNGG	1 cut(s)	840
BssMI	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
BssT1I	CCWWGG	1 cut(s)	840
Bst4CI	ACNGT	3 cut(s)	661, 975, 996
BstAPI	GCANNNNNTGC	2 cut(s)	178, 1103
BstC8I	GCNNGC	3 cut(s)	6, 582, 783
BstDEI	CTNAG	5 cut(s)	156, 297, 351, 362, 553
BstDSI	CCRYGG	1 cut(s)	840
BstF5I	GGATG	3 cut(s)	307, 411, 1040
BstH2I	RGCGCY	2 cut(s)	156, 747
BstHHI	GCGC	2 cut(s)	155, 746
BstKTI	GATC	7 cut(s)	220, 241, 361, 649, 730, 758, 1094
BstMBI	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
BstMWI	GCNNNNNNNGC	7 cut(s)	150, 159, 178, 464, 913, 1046, 1103
BstNSI	RCATGY	2 cut(s)	116, 682
BstSFI	CTRYAG	4 cut(s)	118, 468, 783, 957
BstSLI	GKGCMC	3 cut(s)	146, 164, 563
BstV1I	GCAGC	8 cut(s)	454, 589, 676, 832, 943, 1015, 1034, 1058
BstX2I	RGATCY	3 cut(s)	358, 727, 1091
BstXI	CCANNNNNNTGG	1 cut(s)	490
BstYI	RGATCY	3 cut(s)	358, 727, 1091
Bsu36I	CCTNAGG	1 cut(s)	297
BsuRI	GGCC	4 cut(s)	52, 532, 781, 1063
BtgI	CCRYGG	1 cut(s)	840
BtgZI	GCGATG	1 cut(s)	263
BtsCI	GGATG	3 cut(s)	307, 411, 1040
BtsI	GCAGTG	3 cut(s)	591, 621, 966
BtsIMutI	CAGTG	5 cut(s)	61, 591, 621, 666, 966
Cac8I	GCNNGC	3 cut(s)	6, 582, 783
CaiI	CAGNNNCTG	2 cut(s)	791, 1082
CfoI	GCGC	2 cut(s)	155, 746
Cfr10I	RCCGGY	1 cut(s)	14
Cfr13I	GGNCC	4 cut(s)	51, 531, 779, 1061
CseI	GACGC	1 cut(s)	1095
Csp6I	GTAC	2 cut(s)	410, 997
CviAII	CATG	7 cut(s)	113, 173, 383, 679, 841, 854, 953
CviQI	GTAC	2 cut(s)	410, 997
DdeI	CTNAG	5 cut(s)	156, 297, 351, 362, 553
DpnI	GATC	7 cut(s)	219, 240, 360, 648, 729, 757, 1093
DpnII	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
Eco130I	CCWWGG	1 cut(s)	840
Eco24I	GRGCYC	1 cut(s)	772
Eco57I	CTGAAG	2 cut(s)	89, 1050
Eco81I	CCTNAGG	1 cut(s)	297
Eco88I	CYCGRG	1 cut(s)	609
EcoO109I	RGGNCCY	1 cut(s)	531
EcoT14I	CCWWGG	1 cut(s)	840
EcoT38I	GRGCYC	1 cut(s)	772
ErhI	CCWWGG	1 cut(s)	840
FaeI	CATG	7 cut(s)	116, 176, 386, 682, 844, 857, 956
FatI	CATG	7 cut(s)	112, 172, 382, 678, 840, 853, 952
FauI	CCCGC	1 cut(s)	1027
Fnu4HI	GCNGC	9 cut(s)	468, 578, 665, 821, 914, 957, 1004, 1023, 1047
FokI	GGATG	3 cut(s)	314, 418, 1027
FriOI	GRGCYC	1 cut(s)	772
Fsp4HI	GCNGC	9 cut(s)	468, 578, 665, 821, 914, 957, 1004, 1023, 1047
FspBI	CTAG	3 cut(s)	9, 573, 774
GlaI	GCGC	2 cut(s)	154, 745
GluI	GCNGC	9 cut(s)	468, 578, 665, 821, 914, 957, 1004, 1023, 1047
GsuI	CTGGAG	1 cut(s)	291
HaeII	RGCGCY	2 cut(s)	156, 747
HaeIII	GGCC	4 cut(s)	52, 532, 781, 1063
HapII	CCGG	1 cut(s)	15
HgaI	GACGC	1 cut(s)	1095
HhaI	GCGC	2 cut(s)	155, 746
Hin1II	CATG	7 cut(s)	116, 176, 386, 682, 844, 857, 956
Hin6I	GCGC	2 cut(s)	153, 744
HinP1I	GCGC	2 cut(s)	153, 744
HindIII	AAGCTT	1 cut(s)	71
HinfI	GANTC	6 cut(s)	29, 231, 395, 551, 1070, 1085
HpaII	CCGG	1 cut(s)	15
HphI	GGTGA	3 cut(s)	149, 398, 505
Hpy166II	GTNNAC	1 cut(s)	144
Hpy188I	TCNGA	6 cut(s)	69, 314, 556, 814, 1069, 1084
Hpy188III	TCNNGA	3 cut(s)	296, 761, 1089
Hpy8I	GTNNAC	1 cut(s)	144
HpyAV	CCTTC	2 cut(s)	446, 1074
HpyCH4III	ACNGT	3 cut(s)	661, 975, 996
HpyF10VI	GCNNNNNNNGC	7 cut(s)	150, 159, 178, 464, 913, 1046, 1103
HpyF3I	CTNAG	5 cut(s)	156, 297, 351, 362, 553
Hsp92II	CATG	7 cut(s)	116, 176, 386, 682, 844, 857, 956
HspAI	GCGC	2 cut(s)	153, 744
Kzo9I	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
LmnI	GCTCC	2 cut(s)	775, 850
Lsp1109I	GCAGC	8 cut(s)	454, 589, 676, 832, 943, 1015, 1034, 1058
LweI	GCATC	4 cut(s)	267, 318, 1049, 1088
MaeI	CTAG	3 cut(s)	9, 573, 774
MaeIII	GTNAC	4 cut(s)	56, 221, 433, 1012
MalI	GATC	7 cut(s)	219, 240, 360, 648, 729, 757, 1093
MboI	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
MboII	GAAGA	3 cut(s)	24, 485, 687
MflI	RGATCY	3 cut(s)	358, 727, 1091
MhlI	GDGCHC	5 cut(s)	112, 146, 164, 563, 772
MluCI	AATT	1 cut(s)	345
MlyI	GAGTC	3 cut(s)	240, 404, 545
MmeI	TCCRAC	1 cut(s)	439
MseI	TTAA	2 cut(s)	213, 518
MslI	CAYNNNNRTG	1 cut(s)	1117
MspI	CCGG	1 cut(s)	15
Mva1269I	GAATGC	1 cut(s)	1006
MwoI	GCNNNNNNNGC	7 cut(s)	150, 159, 178, 464, 913, 1046, 1103
NcoI	CCATGG	1 cut(s)	840
NdeII	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
NlaIII	CATG	7 cut(s)	116, 176, 386, 682, 844, 857, 956
NlaIV	GGNNCC	4 cut(s)	533, 729, 771, 846
NmeAIII	GCCGAG	1 cut(s)	28
NmuCI	GTSAC	1 cut(s)	56
NspI	RCATGY	2 cut(s)	116, 682
OliI	CACNNNNGTG	1 cut(s)	1117
PaeR7I	CTCGAG	1 cut(s)	609
PciI	ACATGT	1 cut(s)	112
PctI	GAATGC	1 cut(s)	1006
PfeI	GAWTC	3 cut(s)	29, 1070, 1085
PflMI	CCANNNNNTGG	1 cut(s)	854
PkrI	GCNGC	9 cut(s)	469, 579, 666, 822, 915, 958, 1005, 1024, 1048
PleI	GAGTC	3 cut(s)	239, 403, 545
PpsI	GAGTC	3 cut(s)	239, 403, 545
PscI	ACATGT	1 cut(s)	112
PspN4I	GGNNCC	4 cut(s)	533, 729, 771, 846
PspPI	GGNCC	4 cut(s)	51, 531, 779, 1061
PspXI	VCTCGAGB	1 cut(s)	609
PsrI	GAACNNNNNNTAC	2 cut(s)	980, 1012
PstI	CTGCAG	4 cut(s)	122, 472, 787, 961
PstNI	CAGNNNCTG	2 cut(s)	791, 1082
PsuI	RGATCY	3 cut(s)	358, 727, 1091
RsaI	GTAC	2 cut(s)	411, 998
RsaNI	GTAC	2 cut(s)	410, 997
RseI	CAYNNNNRTG	1 cut(s)	1117
SaqAI	TTAA	2 cut(s)	213, 518
SatI	GCNGC	9 cut(s)	468, 578, 665, 821, 914, 957, 1004, 1023, 1047
Sau3AI	GATC	7 cut(s)	217, 238, 358, 646, 727, 755, 1091
Sau96I	GGNCC	4 cut(s)	51, 531, 779, 1061
SbfI	CCTGCAGG	1 cut(s)	787
SchI	GAGTC	3 cut(s)	240, 404, 545
SdaI	CCTGCAGG	1 cut(s)	787
SduI	GDGCHC	5 cut(s)	112, 146, 164, 563, 772
SfaNI	GCATC	4 cut(s)	267, 318, 1049, 1088
SfcI	CTRYAG	4 cut(s)	118, 468, 783, 957
Sfr274I	CTCGAG	1 cut(s)	609
SlaI	CTCGAG	1 cut(s)	609
SmiMI	CAYNNNNRTG	1 cut(s)	1117
SmlI	CTYRAG	2 cut(s)	609, 759
SmoI	CTYRAG	2 cut(s)	609, 759
Sse8387I	CCTGCAGG	1 cut(s)	787
Sse9I	AATT	1 cut(s)	345
SsiI	CCGC	4 cut(s)	914, 944, 1020, 1044
SspMI	CTAG	3 cut(s)	9, 573, 774
StyI	CCWWGG	1 cut(s)	840
TaaI	ACNGT	3 cut(s)	661, 975, 996
TaqI	TCGA	4 cut(s)	133, 288, 610, 754
TasI	AATT	1 cut(s)	345
TauI	GCSGC	1 cut(s)	916
TfiI	GAWTC	3 cut(s)	29, 1070, 1085
Tru1I	TTAA	2 cut(s)	213, 518
Tru9I	TTAA	2 cut(s)	213, 518
TscAI	CASTG	5 cut(s)	61, 591, 621, 666, 966
TseFI	GTSAC	1 cut(s)	56
TseI	GCWGC	8 cut(s)	467, 577, 664, 820, 956, 1003, 1022, 1046
Tsp45I	GTSAC	1 cut(s)	56
TspDTI	ATGAA	5 cut(s)	189, 266, 318, 582, 1001
TspRI	CASTG	5 cut(s)	61, 591, 621, 666, 966
Van91I	CCANNNNNTGG	1 cut(s)	854
VneI	GTGCAC	1 cut(s)	142
XceI	RCATGY	2 cut(s)	116, 682
XhoI	CTCGAG	1 cut(s)	609
XspI	CTAG	3 cut(s)	9, 573, 774

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