Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0019415

Physical Location & Seq

Genomic Coordinates Reverse (-)

59417013 .. 59418098

Gene Structure 1086 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG428900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1086 bp

ATGGATGCTTACCGACTCTACACGGTGGTGCCATATCTTTTGAAGTTTCTTGACAACTTGACAAACATCTATGTAAGGTTGAATCGCACGAGGCTGAAGCTAAAGGGTACTAACGAAGAAGATTGCAGGATGAGACTCTCTACTCTTTTCCATGTCCTTTTAGTGTCATGTAAAGTGATGGCACCATTAACACCGTTCTTCATTGAAGCCCTTTACCAAAATATGCTAAAAGTTCTGAATGATGAAGAGGAAAGCTTGCATTACTGCAGTTTCCCTCAAGTACAAGGAAAGAGGGACGCTCGTATCGAGCAAAGTGTTGCAAGGATGAAGACAGTAATCGATCTTGCTCGTAATATTCGCGAACGTCACAACAAGCCTCTCAAAACACCCCTAAAAGAGATGGTCATTGTTCACCCTGATGCAGACTTTCTTGAAGACACTGATGCCAAGCTAAGAGAATATGTGCTTGATGAACTTAATGTGCAATCTCTAGTCCTGTGCAATGATACACTGAAGTATACTTCATCGCGCGCAGAGCCTGACTTCAGTGTGTTAGGTAAGCGGCTAGGAAAATCTATGGGAGTTGTTTCCAAACAAGTCAAGGCCAGGTCACAGGAGAGTATCTTAGAATTCGAGAAAACTGGAGAGGTTACTCTTTGTGGTCATTCTCTAAAGCTCAATGATATTAAGGTTGTTAGAGACTTCAAATGTCCTGATGGCACAACAGAGAAGGAGATTGATGCATCAGGAGATGGTGATGTTCTGGTGATCTTGGATTTGCATCAAGACGAATCATTGTTTGAGGCAGGTGTTGCTCGTGAGATTGTTAGCAGAGTTCAGAAGTTGAGGAAGAAATCTGGCCTTGGACTCACTAACATTGTGGAGATGTACTTTGAGTCTTTGGATGAAGATAAATCAGTCTCGGACCGAGTTTTGCATTTGCAGGAACAATACATTAAGGATGCCATAGGTTCGCCAATGCTTCCTTGCGGTGTGAGGCCATCACATGCTGTTGTGCTTGGGGAGGAGAATTTCCGTGGAGTATCTGGAATGTCATTTAATATCAGTTTGGTTCGACCTATCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004822 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006428 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016070 GO:0016874 GO:0016875 GO:0017101 GO:0019538 GO:0019752 GO:0019899 GO:0032991 GO:0034641 GO:0034645 GO:0034660 GO:0042221 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046686 GO:0050896 GO:0051020 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

Anticodon_1 tRNA-synt_1

Protein Analysis

361

Amino Acids

41.0

Weight (kDa)

6.29

Isoelectric Point (pI)

39.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Anticodon_1	PF08264	1 - 133	9.8e-19	Anticodon-binding domain of tRNA ligase
DUF5915	PF19302	153 - 307	3.7e-25	Domain of unknown function (DUF5915)

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

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Orthologous Genes (Group: OG0019415)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr5g0060191
rosa_multiflora	Rmu_sc0003366.1_g000009
rosa_samantha	Rh5AG392300 Rh5BG404800 Rh5CG428900 Rh5DG420400 Rh5DG420500
rosa_wichuraiana	Rw5G036980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	797
Acc36I	ACCTGC	1 cut(s)	797
AccB1I	GGYRCC	2 cut(s)	28, 181
AccI	GTMKAC	1 cut(s)	518
AccII	CGCG	3 cut(s)	360, 529, 531
AciI	CCGC	2 cut(s)	562, 990
AcsI	RAATTY	2 cut(s)	629, 1030
AcuI	CTGAAG	3 cut(s)	116, 529, 533
AfaI	GTAC	3 cut(s)	109, 282, 890
AgsI	TTSAA	5 cut(s)	43, 82, 206, 434, 706
AjnI	CCWGG	1 cut(s)	605
AleI	CACNNNNGTG	1 cut(s)	26
AluBI	AGCT	4 cut(s)	100, 255, 451, 676
AluI	AGCT	4 cut(s)	100, 255, 451, 676
Alw26I	GTCTC	3 cut(s)	127, 693, 925
AlwNI	CAGNNNCTG	1 cut(s)	539
AoxI	GGCC	3 cut(s)	603, 859, 998
ApoI	RAATTY	2 cut(s)	629, 1030
AspLEI	GCGC	2 cut(s)	531, 533
AspS9I	GGNCC	1 cut(s)	925
AsuHPI	GGTGA	3 cut(s)	404, 767, 778
AvaII	GGWCC	1 cut(s)	925
BaeI	ACNNNNGTAYC	2 cut(s)	286, 319
BanI	GGYRCC	2 cut(s)	28, 181
BauI	CACGAG	2 cut(s)	88, 816
BbsI	GAAGAC	2 cut(s)	335, 441
BccI	CCATC	5 cut(s)	172, 394, 710, 746, 1009
BciT130I	CCWGG	1 cut(s)	607
BcoDI	GTCTC	3 cut(s)	127, 693, 925
BfaI	CTAG	3 cut(s)	491, 566, 1084
BfmI	CTRYAG	1 cut(s)	265
BfuAI	ACCTGC	1 cut(s)	797
BisI	GCNGC	1 cut(s)	563
BlsI	GCNGC	1 cut(s)	564
Bme1390I	CCNGG	1 cut(s)	607
Bme18I	GGWCC	1 cut(s)	925
BmgT120I	GGNCC	1 cut(s)	925
BmiI	GGNNCC	2 cut(s)	30, 183
BmrFI	CCNGG	1 cut(s)	607
BmsI	GCATC	6 cut(s)	409, 433, 730, 752, 790, 952
BpiI	GAAGAC	2 cut(s)	335, 441
BplI	GAGNNNNNCTC	2 cut(s)	283, 315
BpmI	CTGGAG	1 cut(s)	663
BpuEI	CTTGAG	1 cut(s)	261
Bsa29I	ATCGAT	1 cut(s)	339
BsaBI	GATNNNNATC	1 cut(s)	780
BsaJI	CCNNGG	2 cut(s)	862, 1036
Bse1I	ACTGG	1 cut(s)	646
Bse3DI	GCAATG	1 cut(s)	508
Bse8I	GATNNNNATC	1 cut(s)	780
BseBI	CCWGG	1 cut(s)	607
BseCI	ATCGAT	1 cut(s)	339
BseDI	CCNNGG	2 cut(s)	862, 1036
BseGI	GGATG	5 cut(s)	10, 135, 330, 910, 967
BseJI	GATNNNNATC	1 cut(s)	780
BseMI	GCAATG	1 cut(s)	508
BseNI	ACTGG	1 cut(s)	646
BsePI	GCGCGC	1 cut(s)	529
BseRI	GAGGAG	1 cut(s)	1040
Bsh1236I	CGCG	3 cut(s)	360, 529, 531
BshFI	GGCC	3 cut(s)	605, 861, 1000
BshNI	GGYRCC	2 cut(s)	28, 181
BshVI	ATCGAT	1 cut(s)	339
BslFI	GGGAC	1 cut(s)	308
BsmAI	GTCTC	3 cut(s)	127, 693, 925
BsmFI	GGGAC	1 cut(s)	308
BsnI	GGCC	3 cut(s)	605, 861, 1000
Bsp143I	GATC	2 cut(s)	340, 768
Bsp68I	TCGCGA	1 cut(s)	360
BspACI	CCGC	2 cut(s)	562, 990
BspANI	GGCC	3 cut(s)	605, 861, 1000
BspDI	ATCGAT	1 cut(s)	339
BspFNI	CGCG	3 cut(s)	360, 529, 531
BspLI	GGNNCC	2 cut(s)	30, 183
BspMAI	CTGCAG	1 cut(s)	269
BspMI	ACCTGC	1 cut(s)	797
BspT107I	GGYRCC	2 cut(s)	28, 181
BsrDI	GCAATG	1 cut(s)	508
BsrI	ACTGG	1 cut(s)	646
BssECI	CCNNGG	2 cut(s)	862, 1036
BssHII	GCGCGC	1 cut(s)	529
BssMI	GATC	2 cut(s)	340, 768
BssNAI	GTATAC	1 cut(s)	519
BssSI	CACGAG	2 cut(s)	88, 816
BssT1I	CCWWGG	1 cut(s)	862
Bst1107I	GTATAC	1 cut(s)	519
Bst2BI	CACGAG	2 cut(s)	88, 816
Bst2UI	CCWGG	1 cut(s)	607
Bst4CI	ACNGT	3 cut(s)	25, 195, 334
Bst6I	CTCTTC	1 cut(s)	240
BstAPI	GCANNNNNTGC	1 cut(s)	812
BstC8I	GCNNGC	2 cut(s)	257, 531
BstDEI	CTNAG	2 cut(s)	452, 625
BstDSI	CCRYGG	1 cut(s)	1036
BstF5I	GGATG	5 cut(s)	10, 135, 330, 910, 967
BstFNI	CGCG	3 cut(s)	360, 529, 531
BstHHI	GCGC	2 cut(s)	531, 533
BstKTI	GATC	2 cut(s)	343, 771
BstMAI	GTCTC	3 cut(s)	127, 693, 925
BstMBI	GATC	2 cut(s)	340, 768
BstMWI	GCNNNNNNNGC	2 cut(s)	535, 812
BstNI	CCWGG	1 cut(s)	607
BstNSI	RCATGY	1 cut(s)	1010
BstSCI	CCNGG	1 cut(s)	605
BstSFI	CTRYAG	1 cut(s)	265
BstUI	CGCG	3 cut(s)	360, 529, 531
BstV2I	GAAGAC	2 cut(s)	335, 441
BstZ17I	GTATAC	1 cut(s)	519
Bsu15I	ATCGAT	1 cut(s)	339
BsuRI	GGCC	3 cut(s)	605, 861, 1000
BsuTUI	ATCGAT	1 cut(s)	339
BtgI	CCRYGG	1 cut(s)	1036
BtgZI	GCGATG	1 cut(s)	510
BtsCI	GGATG	5 cut(s)	10, 135, 330, 910, 967
BtsIMutI	CAGTG	3 cut(s)	438, 509, 553
BtuMI	TCGCGA	1 cut(s)	360
BveI	ACCTGC	1 cut(s)	797
Cac8I	GCNNGC	2 cut(s)	257, 531
CaiI	CAGNNNCTG	1 cut(s)	539
CfoI	GCGC	2 cut(s)	531, 533
Cfr13I	GGNCC	1 cut(s)	925
ClaI	ATCGAT	1 cut(s)	339
CpoI	CGGWCCG	1 cut(s)	925
CseI	GACGC	1 cut(s)	305
Csp6I	GTAC	3 cut(s)	108, 281, 889
CspI	CGGWCCG	1 cut(s)	925
CviAII	CATG	3 cut(s)	152, 168, 1007
CviQI	GTAC	3 cut(s)	108, 281, 889
DdeI	CTNAG	2 cut(s)	452, 625
DpnI	GATC	2 cut(s)	342, 770
DpnII	GATC	2 cut(s)	340, 768
Eam1104I	CTCTTC	1 cut(s)	240
EarI	CTCTTC	1 cut(s)	240
Eco130I	CCWWGG	1 cut(s)	862
Eco47I	GGWCC	1 cut(s)	925
Eco57I	CTGAAG	3 cut(s)	116, 529, 533
EcoRI	GAATTC	1 cut(s)	629
EcoRII	CCWGG	1 cut(s)	605
EcoT14I	CCWWGG	1 cut(s)	862
EcoT22I	ATGCAT	1 cut(s)	745
ErhI	CCWWGG	1 cut(s)	862
FaeI	CATG	3 cut(s)	155, 171, 1010
FaqI	GGGAC	1 cut(s)	308
FatI	CATG	3 cut(s)	151, 167, 1006
FblI	GTMKAC	1 cut(s)	518
Fnu4HI	GCNGC	1 cut(s)	563
FokI	GGATG	5 cut(s)	17, 142, 337, 917, 974
Fsp4HI	GCNGC	1 cut(s)	563
FspBI	CTAG	3 cut(s)	491, 566, 1084
GlaI	GCGC	2 cut(s)	530, 532
GluI	GCNGC	1 cut(s)	563
GsuI	CTGGAG	1 cut(s)	663
HaeIII	GGCC	3 cut(s)	605, 861, 1000
HgaI	GACGC	1 cut(s)	305
HhaI	GCGC	2 cut(s)	531, 533
Hin1II	CATG	3 cut(s)	155, 171, 1010
Hin6I	GCGC	2 cut(s)	529, 531
HinP1I	GCGC	2 cut(s)	529, 531
HindIII	AAGCTT	1 cut(s)	253
HinfI	GANTC	6 cut(s)	15, 82, 135, 791, 867, 896
HphI	GGTGA	3 cut(s)	404, 767, 778
Hpy166II	GTNNAC	2 cut(s)	412, 519
Hpy188I	TCNGA	3 cut(s)	237, 840, 925
Hpy188III	TCNNGA	9 cut(s)	50, 359, 431, 634, 713, 747, 785, 818, 1047
Hpy8I	GTNNAC	2 cut(s)	412, 519
HpyAV	CCTTC	1 cut(s)	724
HpyCH4III	ACNGT	3 cut(s)	25, 195, 334
HpyCH4IV	ACGT	1 cut(s)	364
HpyF10VI	GCNNNNNNNGC	2 cut(s)	535, 812
HpyF3I	CTNAG	2 cut(s)	452, 625
HpySE526I	ACGT	1 cut(s)	364
Hsp92II	CATG	3 cut(s)	155, 171, 1010
HspAI	GCGC	2 cut(s)	529, 531
Kzo9I	GATC	2 cut(s)	340, 768
LweI	GCATC	6 cut(s)	409, 433, 730, 752, 790, 952
MaeI	CTAG	3 cut(s)	491, 566, 1084
MaeII	ACGT	1 cut(s)	364
MaeIII	GTNAC	3 cut(s)	365, 609, 649
MalI	GATC	2 cut(s)	342, 770
MboI	GATC	2 cut(s)	340, 768
MboII	GAAGA	8 cut(s)	128, 131, 190, 257, 340, 446, 862, 920
MluCI	AATT	2 cut(s)	629, 1030
MlyI	GAGTC	4 cut(s)	9, 129, 861, 905
Mph1103I	ATGCAT	1 cut(s)	745
MseI	TTAA	5 cut(s)	188, 477, 687, 957, 1059
MslI	CAYNNNNRTG	2 cut(s)	26, 417
MspR9I	CCNGG	1 cut(s)	607
MvaI	CCWGG	1 cut(s)	607
MvnI	CGCG	3 cut(s)	360, 529, 531
MwoI	GCNNNNNNNGC	2 cut(s)	535, 812
NdeII	GATC	2 cut(s)	340, 768
NlaIII	CATG	3 cut(s)	155, 171, 1010
NlaIV	GGNNCC	2 cut(s)	30, 183
NmuCI	GTSAC	2 cut(s)	365, 609
NruI	TCGCGA	1 cut(s)	360
NsiI	ATGCAT	1 cut(s)	745
NspI	RCATGY	1 cut(s)	1010
OliI	CACNNNNGTG	1 cut(s)	26
PaqCI	CACCTGC	1 cut(s)	797
PauI	GCGCGC	1 cut(s)	529
PcsI	WCGNNNNNNNCGW	1 cut(s)	303
PfeI	GAWTC	2 cut(s)	82, 791
PkrI	GCNGC	1 cut(s)	564
PleI	GAGTC	4 cut(s)	9, 129, 861, 904
PpsI	GAGTC	4 cut(s)	9, 129, 861, 904
Psp6I	CCWGG	1 cut(s)	605
PspGI	CCWGG	1 cut(s)	605
PspN4I	GGNNCC	2 cut(s)	30, 183
PspPI	GGNCC	1 cut(s)	925
PstI	CTGCAG	1 cut(s)	269
PstNI	CAGNNNCTG	1 cut(s)	539
PteI	GCGCGC	1 cut(s)	529
RruI	TCGCGA	1 cut(s)	360
RsaI	GTAC	3 cut(s)	109, 282, 890
RsaNI	GTAC	3 cut(s)	108, 281, 889
RseI	CAYNNNNRTG	2 cut(s)	26, 417
Rsr2I	CGGWCCG	1 cut(s)	925
RsrII	CGGWCCG	1 cut(s)	925
SaqAI	TTAA	5 cut(s)	188, 477, 687, 957, 1059
SatI	GCNGC	1 cut(s)	563
Sau3AI	GATC	2 cut(s)	340, 768
Sau96I	GGNCC	1 cut(s)	925
SchI	GAGTC	4 cut(s)	9, 129, 861, 905
ScrFI	CCNGG	1 cut(s)	607
SfaNI	GCATC	6 cut(s)	409, 433, 730, 752, 790, 952
SfcI	CTRYAG	1 cut(s)	265
SinI	GGWCC	1 cut(s)	925
SmiMI	CAYNNNNRTG	2 cut(s)	26, 417
SmlI	CTYRAG	1 cut(s)	276
SmoI	CTYRAG	1 cut(s)	276
Sse9I	AATT	2 cut(s)	629, 1030
SsiI	CCGC	2 cut(s)	562, 990
SspI	AATATT	1 cut(s)	355
SspMI	CTAG	3 cut(s)	491, 566, 1084
StyD4I	CCNGG	1 cut(s)	605
StyI	CCWWGG	1 cut(s)	862
TaaI	ACNGT	3 cut(s)	25, 195, 334
TaiI	ACGT	1 cut(s)	367
TaqI	TCGA	4 cut(s)	306, 339, 633, 1075
TaqII	GACCGA	1 cut(s)	942
TasI	AATT	2 cut(s)	629, 1030
TatI	WGTACW	2 cut(s)	280, 888
TauI	GCSGC	1 cut(s)	565
TfiI	GAWTC	2 cut(s)	82, 791
Tru1I	TTAA	5 cut(s)	188, 477, 687, 957, 1059
Tru9I	TTAA	5 cut(s)	188, 477, 687, 957, 1059
TscAI	CASTG	3 cut(s)	445, 516, 553
TseFI	GTSAC	2 cut(s)	365, 609
Tsp45I	GTSAC	2 cut(s)	365, 609
TspDTI	ATGAA	6 cut(s)	190, 258, 341, 486, 513, 921
TspGWI	ACGGA	1 cut(s)	1025
TspRI	CASTG	3 cut(s)	445, 516, 553
VpaK11BI	GGWCC	1 cut(s)	925
XapI	RAATTY	2 cut(s)	629, 1030
XceI	RCATGY	1 cut(s)	1010
XmiI	GTMKAC	1 cut(s)	518
XspI	CTAG	3 cut(s)	491, 566, 1084
Zsp2I	ATGCAT	1 cut(s)	745

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