Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0013214

Physical Location & Seq

Genomic Coordinates Reverse (-)

54314474 .. 54317353

Gene Structure 2880 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG285800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGGCGTCTTTGGCTCAGCAATTCACAGGCTTGAGATGCTCACCTCTCTCAACCTCGCGGCTCTCGAAGCCCTTCTCTCCCACGCAAACCAAGACCACTCTGCTCCCCATTGTCTCTGCTTCAGTCATCTCCAACGCTCAGACCAAAGAGCGCCTCAAGCTCAAGGAAATCTTCGAAGACGCACAGGAACGCTGCCGTACTGCCCCCATGGAAGGCGTCTCTTTCAATCTCGACTCTTTCTACTCCGCTCTTGAAAAGTACGACTTCAATTCCGAGATTGGTACCAAGGTGAAGGGTGTGATTTTCCATACAGATAACAAGGGGGCATTAGTCGACATTACTGCAAAGTCTTCGGCGCATTTGAAAGTGGAAGATGCATGTATGCATAAGATAAAGCATGTGGAAGAAGTAGGGTTAGTTCCCGGTGTGAAAGAGGAGTTTGTAATTATTGGCGAAAATGAGGATGATGATAGCTTGATCTTGAGCTTGAAGACTATCCAGTTTGAGCTTGCGTGGGAGAGGTGTAGACAGCTCCAAGCTGAGGATGTTGTTGTCAAGGGTAGGGTTGTTGGTGCAAACAAAGGTGGAGTGGTGGCTGTGGTGGAAGGTCTTCGAGGTTTTGTTCCTTTCTCGCAGTTATCAACAAAATCAACTGCAGAAGAGCTTATTGAGAAGGATATCCCTCTGAAGTTTGTGGAGGTTGATGAGGAACAATCTAGGCTTGTCCTCAGTAACCGCAAGGCCATGGCAGACAATCAAGCACAACTAGGAATTGGATCAGTTGTCCTTGGAACTGTGCAGAGCCTGAAGCCATATGGTGCATTTATTGACATTGGTGGAATCAATGGCCTTCTTCATGTTAGTCAGATCAGTCATGACCGAGTCTCTGATATTGCAACAGTTCTTCAACCTGGTGACACTCTCAAGGTCATGATATTGAGCCATGACCGTGAGAGAGGCCGTGTAAGTCTATCAACTAAAAAGTTAGAACCGACTCCTGGTGACATGATTCGGAATCCAACACTCGTTTTTGAGAAGGTACTTTCTGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0008150 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009719 GO:0009725 GO:0009735 GO:0010033 GO:0016020 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Protein Analysis

350

Amino Acids

38.3

Weight (kDa)

6.04

Isoelectric Point (pI)

34.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
S1	PF00575	181 - 244	7.2e-08	S1 RNA binding domain
S1	PF00575	258 - 327	5.7e-18	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: OG0013214)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G30510
fragaria_vesca	FvH4_4g20780 FvH4_4g20780
malus_domestica	MD13G1147900.v1.1 MD16G1147700.v1.1
prunus_persica	Prupe.1G111400_v2.0.a1
pyrus_communis	pycom16g12610 pycom16g12620
rosa_chinensis	RchiOBHm_Chr4g0426221
rosa_laevigata	RLG00000007309
rosa_multiflora	Rmu_sc0000730.1_g000026
rosa_roxburghii	Rroxscaffold_5G00368240
rosa_rugosa	Rorug04G0209700
rosa_samantha	Rh4AG266600 Rh4BG272600 Rh4CG285800 Rh4DG268900
rosa_wichuraiana	Rw4G023050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	281
AccB1I	GGYRCC	1 cut(s)	281
AccBSI	CCGCTC	1 cut(s)	248
AccI	GTMKAC	2 cut(s)	333, 526
AccII	CGCG	1 cut(s)	58
AciI	CCGC	3 cut(s)	58, 246, 736
AclWI	GGATC	1 cut(s)	784
AcuI	CTGAAG	3 cut(s)	105, 707, 827
AcyI	GRCGYC	2 cut(s)	5, 216
AfaI	GTAC	4 cut(s)	199, 260, 283, 1041
AfiI	CCNNNNNNNGG	3 cut(s)	212, 541, 998
AgsI	TTSAA	6 cut(s)	226, 254, 268, 364, 490, 908
AjnI	CCWGG	2 cut(s)	910, 997
AluBI	AGCT	7 cut(s)	160, 474, 486, 508, 532, 539, 664
AluI	AGCT	7 cut(s)	160, 474, 486, 508, 532, 539, 664
Alw26I	GTCTC	3 cut(s)	118, 223, 889
AlwI	GGATC	1 cut(s)	784
AlwNI	CAGNNNCTG	1 cut(s)	805
AoxI	GGCC	3 cut(s)	741, 847, 958
ApeKI	GCWGC	1 cut(s)	192
Asp700I	GAANNNNTTC	2 cut(s)	71, 609
Asp718I	GGTACC	1 cut(s)	281
AspLEI	GCGC	2 cut(s)	153, 358
AsuC2I	CCSGG	1 cut(s)	423
AsuHPI	GGTGA	4 cut(s)	33, 301, 926, 1013
AsuII	TTCGAA	1 cut(s)	174
BaeI	ACNNNNGTAYC	2 cut(s)	273, 306
BanI	GGYRCC	1 cut(s)	281
BbsI	GAAGAC	4 cut(s)	183, 342, 497, 602
BbvCI	CCTCAGC	1 cut(s)	540
BbvI	GCAGC	1 cut(s)	179
BceAI	ACGGC	2 cut(s)	180, 945
BcgI	CGANNNNNNTGC	4 cut(s)	323, 333, 357, 367
BciT130I	CCWGG	2 cut(s)	912, 999
BcnI	CCSGG	1 cut(s)	423
BcoDI	GTCTC	3 cut(s)	118, 223, 889
BfaI	CTAG	2 cut(s)	717, 767
BfmI	CTRYAG	1 cut(s)	654
BfoI	RGCGCY	1 cut(s)	154
BisI	GCNGC	2 cut(s)	59, 193
BlpI	GCTNAGC	1 cut(s)	15
BlsI	GCNGC	2 cut(s)	60, 194
Bme1390I	CCNGG	3 cut(s)	423, 912, 999
BmiI	GGNNCC	1 cut(s)	283
BmrFI	CCNGG	3 cut(s)	423, 912, 999
BmsI	GCATC	2 cut(s)	26, 364
BpiI	GAAGAC	4 cut(s)	183, 342, 497, 602
Bpu10I	CCTNAGC	1 cut(s)	540
Bpu1102I	GCTNAGC	1 cut(s)	15
Bpu14I	TTCGAA	1 cut(s)	174
BpuEI	CTTGAG	5 cut(s)	52, 140, 146, 502, 908
BpuMI	CCSGG	1 cut(s)	423
BsaHI	GRCGYC	2 cut(s)	5, 216
BsaJI	CCNNGG	4 cut(s)	207, 285, 744, 787
Bsc4I	CCNNNNNNNGG	3 cut(s)	212, 541, 998
Bse1I	ACTGG	1 cut(s)	499
BseBI	CCWGG	2 cut(s)	912, 999
BseDI	CCNNGG	4 cut(s)	207, 285, 744, 787
BseGI	GGATG	2 cut(s)	469, 550
BseLI	CCNNNNNNNGG	3 cut(s)	212, 541, 998
BseMII	CTCAG	4 cut(s)	29, 152, 531, 742
BseNI	ACTGG	1 cut(s)	499
BseRI	GAGGAG	1 cut(s)	449
BseXI	GCAGC	1 cut(s)	179
BsgI	GTGCAG	1 cut(s)	818
Bsh1236I	CGCG	1 cut(s)	58
BshFI	GGCC	3 cut(s)	743, 849, 960
BshNI	GGYRCC	1 cut(s)	281
BsiSI	CCGG	1 cut(s)	423
BslI	CCNNNNNNNGG	3 cut(s)	212, 541, 998
BsmAI	GTCTC	3 cut(s)	118, 223, 889
BsmBI	CGTCTC	1 cut(s)	223
BsnI	GGCC	3 cut(s)	743, 849, 960
Bsp119I	TTCGAA	1 cut(s)	174
Bsp143I	GATC	3 cut(s)	477, 776, 867
Bsp1720I	GCTNAGC	1 cut(s)	15
Bsp19I	CCATGG	2 cut(s)	207, 744
BspACI	CCGC	3 cut(s)	58, 246, 736
BspANI	GGCC	3 cut(s)	743, 849, 960
BspCNI	CTCAG	4 cut(s)	28, 151, 532, 741
BspFNI	CGCG	1 cut(s)	58
BspHI	TCATGA	2 cut(s)	874, 930
BspLI	GGNNCC	1 cut(s)	283
BspMAI	CTGCAG	1 cut(s)	658
BspPI	GGATC	1 cut(s)	784
BspQI	GCTCTTC	1 cut(s)	654
BspT104I	TTCGAA	1 cut(s)	174
BspT107I	GGYRCC	1 cut(s)	281
BsrBI	CCGCTC	1 cut(s)	248
BsrI	ACTGG	1 cut(s)	499
BssECI	CCNNGG	4 cut(s)	207, 285, 744, 787
BssMI	GATC	3 cut(s)	477, 776, 867
BssNI	GRCGYC	2 cut(s)	5, 216
BssT1I	CCWWGG	4 cut(s)	207, 285, 744, 787
Bst2UI	CCWGG	2 cut(s)	912, 999
Bst4CI	ACNGT	3 cut(s)	796, 901, 950
Bst6I	CTCTTC	1 cut(s)	654
BstACI	GRCGYC	2 cut(s)	5, 216
BstBI	TTCGAA	1 cut(s)	174
BstC8I	GCNNGC	1 cut(s)	510
BstDEI	CTNAG	4 cut(s)	15, 138, 540, 728
BstDSI	CCRYGG	2 cut(s)	207, 744
BstF5I	GGATG	2 cut(s)	469, 550
BstFNI	CGCG	1 cut(s)	58
BstH2I	RGCGCY	1 cut(s)	154
BstHHI	GCGC	2 cut(s)	153, 358
BstKTI	GATC	3 cut(s)	480, 779, 870
BstMAI	GTCTC	3 cut(s)	118, 223, 889
BstMBI	GATC	3 cut(s)	477, 776, 867
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 36, 67, 157
BstNI	CCWGG	2 cut(s)	912, 999
BstNSI	RCATGY	2 cut(s)	381, 401
BstSCI	CCNGG	3 cut(s)	421, 910, 997
BstSFI	CTRYAG	1 cut(s)	654
BstUI	CGCG	1 cut(s)	58
BstV1I	GCAGC	1 cut(s)	179
BstV2I	GAAGAC	4 cut(s)	183, 342, 497, 602
BsuRI	GGCC	3 cut(s)	743, 849, 960
BtgI	CCRYGG	2 cut(s)	207, 744
BtsCI	GGATG	2 cut(s)	469, 550
Cac8I	GCNNGC	1 cut(s)	510
CaiI	CAGNNNCTG	1 cut(s)	805
CciI	TCATGA	2 cut(s)	874, 930
CfoI	GCGC	2 cut(s)	153, 358
CseI	GACGC	2 cut(s)	188, 205
CsiI	ACCWGGT	1 cut(s)	910
Csp6I	GTAC	4 cut(s)	198, 259, 282, 1040
CviAII	CATG	9 cut(s)	208, 378, 398, 745, 857, 875, 931, 944, 1006
CviQI	GTAC	4 cut(s)	198, 259, 282, 1040
DdeI	CTNAG	4 cut(s)	15, 138, 540, 728
DpnI	GATC	3 cut(s)	479, 778, 869
DpnII	GATC	3 cut(s)	477, 776, 867
Eam1104I	CTCTTC	1 cut(s)	654
EarI	CTCTTC	1 cut(s)	654
Eco130I	CCWWGG	4 cut(s)	207, 285, 744, 787
Eco32I	GATATC	1 cut(s)	679
Eco57I	CTGAAG	3 cut(s)	105, 707, 827
EcoRII	CCWGG	2 cut(s)	910, 997
EcoRV	GATATC	1 cut(s)	679
EcoT14I	CCWWGG	4 cut(s)	207, 285, 744, 787
EcoT22I	ATGCAT	2 cut(s)	379, 387
ErhI	CCWWGG	4 cut(s)	207, 285, 744, 787
Esp3I	CGTCTC	1 cut(s)	223
FaeI	CATG	9 cut(s)	211, 381, 401, 748, 860, 878, 934, 947, 1009
FalI	AAGNNNNNCTT	4 cut(s)	155, 187, 248, 280
FatI	CATG	9 cut(s)	207, 377, 397, 744, 856, 874, 930, 943, 1005
FauNDI	CATATG	1 cut(s)	814
FblI	GTMKAC	2 cut(s)	333, 526
Fnu4HI	GCNGC	2 cut(s)	59, 193
FokI	GGATG	2 cut(s)	476, 557
Fsp4HI	GCNGC	2 cut(s)	59, 193
FspBI	CTAG	2 cut(s)	717, 767
GlaI	GCGC	2 cut(s)	152, 357
GluI	GCNGC	2 cut(s)	59, 193
HaeII	RGCGCY	1 cut(s)	154
HaeIII	GGCC	3 cut(s)	743, 849, 960
HapII	CCGG	1 cut(s)	423
HgaI	GACGC	2 cut(s)	188, 205
HhaI	GCGC	2 cut(s)	153, 358
Hin1I	GRCGYC	2 cut(s)	5, 216
Hin1II	CATG	9 cut(s)	211, 381, 401, 748, 860, 878, 934, 947, 1009
Hin6I	GCGC	2 cut(s)	151, 356
HinP1I	GCGC	2 cut(s)	151, 356
HincII	GTYRAC	1 cut(s)	334
HindII	GTYRAC	1 cut(s)	334
HinfI	GANTC	6 cut(s)	233, 840, 882, 994, 1009, 1015
HpaII	CCGG	1 cut(s)	423
HphI	GGTGA	4 cut(s)	33, 301, 926, 1013
Hpy166II	GTNNAC	2 cut(s)	334, 527
Hpy188I	TCNGA	6 cut(s)	141, 274, 687, 867, 889, 1014
Hpy188III	TCNNGA	7 cut(s)	64, 230, 251, 481, 875, 931, 1047
Hpy8I	GTNNAC	2 cut(s)	334, 527
HpyAV	CCTTC	7 cut(s)	82, 206, 286, 599, 667, 860, 1030
HpyCH4III	ACNGT	3 cut(s)	796, 901, 950
HpyCH4V	TGCA	8 cut(s)	344, 377, 385, 575, 656, 799, 821, 896
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 36, 67, 157
HpyF3I	CTNAG	4 cut(s)	15, 138, 540, 728
Hsp92I	GRCGYC	2 cut(s)	5, 216
Hsp92II	CATG	9 cut(s)	211, 381, 401, 748, 860, 878, 934, 947, 1009
HspAI	GCGC	2 cut(s)	151, 356
KpnI	GGTACC	1 cut(s)	285
Kzo9I	GATC	3 cut(s)	477, 776, 867
LguI	GCTCTTC	1 cut(s)	654
LmnI	GCTCC	2 cut(s)	108, 537
Lsp1109I	GCAGC	1 cut(s)	179
LweI	GCATC	2 cut(s)	26, 364
MabI	ACCWGGT	1 cut(s)	910
MaeI	CTAG	2 cut(s)	717, 767
MaeIII	GTNAC	3 cut(s)	731, 914, 1001
MalI	GATC	3 cut(s)	479, 778, 869
MbiI	CCGCTC	1 cut(s)	248
MboI	GATC	3 cut(s)	477, 776, 867
MluCI	AATT	4 cut(s)	20, 268, 444, 771
MlyI	GAGTC	3 cut(s)	227, 891, 988
MmeI	TCCRAC	2 cut(s)	156, 1043
Mph1103I	ATGCAT	2 cut(s)	379, 387
MroXI	GAANNNNTTC	2 cut(s)	71, 609
MslI	CAYNNNNRTG	1 cut(s)	948
MspI	CCGG	1 cut(s)	423
MspR9I	CCNGG	3 cut(s)	423, 912, 999
MvaI	CCWGG	2 cut(s)	912, 999
MvnI	CGCG	1 cut(s)	58
MwoI	GCNNNNNNNGC	4 cut(s)	11, 36, 67, 157
NciI	CCSGG	1 cut(s)	423
NcoI	CCATGG	2 cut(s)	207, 744
NdeI	CATATG	1 cut(s)	814
NdeII	GATC	3 cut(s)	477, 776, 867
NlaIII	CATG	9 cut(s)	211, 381, 401, 748, 860, 878, 934, 947, 1009
NlaIV	GGNNCC	1 cut(s)	283
NmuCI	GTSAC	2 cut(s)	914, 1001
NsiI	ATGCAT	2 cut(s)	379, 387
NspI	RCATGY	2 cut(s)	381, 401
NspV	TTCGAA	1 cut(s)	174
PagI	TCATGA	2 cut(s)	874, 930
PciSI	GCTCTTC	1 cut(s)	654
PcsI	WCGNNNNNNNCGW	1 cut(s)	62
PdmI	GAANNNNTTC	2 cut(s)	71, 609
PfeI	GAWTC	3 cut(s)	840, 1009, 1015
PflFI	GACNNNGTC	1 cut(s)	881
PkrI	GCNGC	2 cut(s)	60, 194
PleI	GAGTC	3 cut(s)	227, 890, 988
PpsI	GAGTC	3 cut(s)	227, 890, 988
Psp6I	CCWGG	2 cut(s)	910, 997
PspGI	CCWGG	2 cut(s)	910, 997
PspN4I	GGNNCC	1 cut(s)	283
PsrI	GAACNNNNNNTAC	2 cut(s)	402, 434
PstI	CTGCAG	1 cut(s)	658
PstNI	CAGNNNCTG	1 cut(s)	805
PsyI	GACNNNGTC	1 cut(s)	881
RsaI	GTAC	4 cut(s)	199, 260, 283, 1041
RsaNI	GTAC	4 cut(s)	198, 259, 282, 1040
RseI	CAYNNNNRTG	1 cut(s)	948
SalI	GTCGAC	1 cut(s)	332
SapI	GCTCTTC	1 cut(s)	654
SatI	GCNGC	2 cut(s)	59, 193
Sau3AI	GATC	3 cut(s)	477, 776, 867
SchI	GAGTC	3 cut(s)	227, 891, 988
ScrFI	CCNGG	3 cut(s)	423, 912, 999
SexAI	ACCWGGT	1 cut(s)	910
SfaNI	GCATC	2 cut(s)	26, 364
SfcI	CTRYAG	1 cut(s)	654
SfuI	TTCGAA	1 cut(s)	174
SmiMI	CAYNNNNRTG	1 cut(s)	948
SmlI	CTYRAG	5 cut(s)	31, 155, 161, 481, 923
SmoI	CTYRAG	5 cut(s)	31, 155, 161, 481, 923
Sse9I	AATT	4 cut(s)	20, 268, 444, 771
SsiI	CCGC	3 cut(s)	58, 246, 736
SspMI	CTAG	2 cut(s)	717, 767
StyD4I	CCNGG	3 cut(s)	421, 910, 997
StyI	CCWWGG	4 cut(s)	207, 285, 744, 787
TaaI	ACNGT	3 cut(s)	796, 901, 950
TaqI	TCGA	5 cut(s)	65, 174, 231, 333, 613
TaqII	GACCGA	1 cut(s)	894
TasI	AATT	4 cut(s)	20, 268, 444, 771
TauI	GCSGC	1 cut(s)	61
TfiI	GAWTC	3 cut(s)	840, 1009, 1015
TseFI	GTSAC	2 cut(s)	914, 1001
TseI	GCWGC	1 cut(s)	192
Tsp45I	GTSAC	2 cut(s)	914, 1001
TspDTI	ATGAA	1 cut(s)	845
Tth111I	GACNNNGTC	1 cut(s)	881
XceI	RCATGY	2 cut(s)	381, 401
XmiI	GTMKAC	2 cut(s)	333, 526
XmnI	GAANNNNTTC	2 cut(s)	71, 609
XspI	CTAG	2 cut(s)	717, 767
Zsp2I	ATGCAT	2 cut(s)	379, 387

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