Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0019415

Physical Location & Seq

Genomic Coordinates Reverse (-)

66943458 .. 66944174

Gene Structure 717 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG420500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGGAGGTTCTCGATCAATATGGGGCTGATGTAGTTCGAATGTATATTATCAACTCTCCTGTTGTTCGTGCAGAACCATTACGATTCAAGAAGGAAGGAGTATATGGAGTTGTCAAGGATGTATTTCTGCCTTGGTACAATGCATATAGGTTCCTCGTTCAACAATCTAAAAGTCTCAATGCGCCTTTCCTCCCTTTTGATCAAACTACTGTACAGAAGTCATCTAATGTGCTTGACCAGTGGATCTACTCAGCCACAGAGTCTCTTGTGCATTTTGTCTGTCAAGAGATGGATGCTTACCGACTCTACACGGTGGTGCCATATCTTTTGAAGTTTCTTGACAACTTGACAAACATCTATGTAAGGTTGAATCGCACGAGGCTGAAGCTAAAGGGTACTAACGAAGAAGATTGCAGGATGAGACTCTCTACTCTTTTCCATGTCCTTTTAGTGTCATGTAAAGTGATGGCACCATTAACACCGTTCTTCACTGAAGCCCTTTACCAAAATATGCTAAAAGTTCTGAATGATGAAGAGGAAAGCTTGCATTACTGCAGTTTCCCTCAAGTACAAGGAAAGAGGGACGCTCGTATCGAGCAAAGTGTTGCAAGGATAAGACAGTAA

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

207

Amino Acids

24.27

Weight (kDa)

8.6

Isoelectric Point (pI)

41.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Anticodon_1	PF08264	79 - 202	3.4e-20	Anticodon-binding domain of tRNA ligase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AccB1I	GGYRCC	2 cut(s)	316, 469
AclWI	GGATC	1 cut(s)	251
AcuI	CTGAAG	2 cut(s)	404, 513
AfaI	GTAC	4 cut(s)	137, 213, 397, 570
AgsI	TTSAA	4 cut(s)	88, 161, 331, 370
AleI	CACNNNNGTG	1 cut(s)	314
AluBI	AGCT	2 cut(s)	388, 543
AluI	AGCT	2 cut(s)	388, 543
Alw26I	GTCTC	3 cut(s)	179, 267, 415
AlwI	GGATC	1 cut(s)	251
AspLEI	GCGC	1 cut(s)	184
AsuII	TTCGAA	1 cut(s)	37
BaeI	ACNNNNGTAYC	2 cut(s)	574, 607
BanI	GGYRCC	2 cut(s)	316, 469
BauI	CACGAG	1 cut(s)	376
BccI	CCATC	2 cut(s)	283, 460
BclI	TGATCA	1 cut(s)	199
BcoDI	GTCTC	3 cut(s)	179, 267, 415
BfmI	CTRYAG	1 cut(s)	553
BmiI	GGNNCC	3 cut(s)	152, 318, 471
BmsI	GCATC	1 cut(s)	283
BplI	GAGNNNNNCTC	2 cut(s)	571, 603
Bpu14I	TTCGAA	1 cut(s)	37
BpuEI	CTTGAG	1 cut(s)	549
BsaJI	CCNNGG	1 cut(s)	131
Bse1I	ACTGG	1 cut(s)	238
BseDI	CCNNGG	1 cut(s)	131
BseGI	GGATG	3 cut(s)	124, 298, 423
BseMII	CTCAG	1 cut(s)	264
BseNI	ACTGG	1 cut(s)	238
BsgI	GTGCAG	1 cut(s)	90
BshNI	GGYRCC	2 cut(s)	316, 469
BslFI	GGGAC	1 cut(s)	596
BsmAI	GTCTC	3 cut(s)	179, 267, 415
BsmFI	GGGAC	1 cut(s)	596
Bsp119I	TTCGAA	1 cut(s)	37
Bsp1407I	TGTACA	1 cut(s)	211
Bsp143I	GATC	3 cut(s)	13, 199, 243
BspCNI	CTCAG	1 cut(s)	263
BspLI	GGNNCC	3 cut(s)	152, 318, 471
BspMAI	CTGCAG	1 cut(s)	557
BspPI	GGATC	1 cut(s)	251
BspT104I	TTCGAA	1 cut(s)	37
BspT107I	GGYRCC	2 cut(s)	316, 469
BsrGI	TGTACA	1 cut(s)	211
BsrI	ACTGG	1 cut(s)	238
BssECI	CCNNGG	1 cut(s)	131
BssMI	GATC	3 cut(s)	13, 199, 243
BssSI	CACGAG	1 cut(s)	376
BssT1I	CCWWGG	1 cut(s)	131
Bst2BI	CACGAG	1 cut(s)	376
Bst4CI	ACNGT	4 cut(s)	211, 313, 483, 621
Bst6I	CTCTTC	1 cut(s)	528
BstAUI	TGTACA	1 cut(s)	211
BstBI	TTCGAA	1 cut(s)	37
BstC8I	GCNNGC	1 cut(s)	545
BstDEI	CTNAG	1 cut(s)	250
BstF5I	GGATG	3 cut(s)	124, 298, 423
BstHHI	GCGC	1 cut(s)	184
BstKTI	GATC	3 cut(s)	16, 202, 246
BstMAI	GTCTC	3 cut(s)	179, 267, 415
BstMBI	GATC	3 cut(s)	13, 199, 243
BstSFI	CTRYAG	1 cut(s)	553
BstX2I	RGATCY	1 cut(s)	243
BstYI	RGATCY	1 cut(s)	243
BtsCI	GGATG	3 cut(s)	124, 298, 423
BtsIMutI	CAGTG	2 cut(s)	245, 489
Cac8I	GCNNGC	1 cut(s)	545
CfoI	GCGC	1 cut(s)	184
CseI	GACGC	1 cut(s)	593
Csp6I	GTAC	4 cut(s)	136, 212, 396, 569
CviAII	CATG	2 cut(s)	440, 456
CviJI	RGCY	6 cut(s)	26, 254, 382, 388, 497, 543
CviKI_1	RGCY	6 cut(s)	26, 254, 382, 388, 497, 543
CviQI	GTAC	4 cut(s)	136, 212, 396, 569
DdeI	CTNAG	1 cut(s)	250
DpnI	GATC	3 cut(s)	15, 201, 245
DpnII	GATC	3 cut(s)	13, 199, 243
Eam1104I	CTCTTC	1 cut(s)	528
EarI	CTCTTC	1 cut(s)	528
Eco130I	CCWWGG	1 cut(s)	131
Eco57I	CTGAAG	2 cut(s)	404, 513
EcoT14I	CCWWGG	1 cut(s)	131
EcoT22I	ATGCAT	1 cut(s)	145
ErhI	CCWWGG	1 cut(s)	131
FaeI	CATG	2 cut(s)	443, 459
FaqI	GGGAC	1 cut(s)	596
FatI	CATG	2 cut(s)	439, 455
FbaI	TGATCA	1 cut(s)	199
FokI	GGATG	3 cut(s)	131, 305, 430
GlaI	GCGC	1 cut(s)	183
HgaI	GACGC	1 cut(s)	593
HhaI	GCGC	1 cut(s)	184
Hin1II	CATG	2 cut(s)	443, 459
Hin6I	GCGC	1 cut(s)	182
HinP1I	GCGC	1 cut(s)	182
HindIII	AAGCTT	1 cut(s)	541
HinfI	GANTC	5 cut(s)	84, 260, 303, 370, 423
Hpy188I	TCNGA	1 cut(s)	525
Hpy188III	TCNNGA	4 cut(s)	11, 88, 284, 338
HpyAV	CCTTC	2 cut(s)	85, 89
HpyCH4III	ACNGT	4 cut(s)	211, 313, 483, 621
HpyCH4V	TGCA	7 cut(s)	71, 143, 271, 414, 547, 555, 608
HpyF3I	CTNAG	1 cut(s)	250
Hsp92II	CATG	2 cut(s)	443, 459
HspAI	GCGC	1 cut(s)	182
Ksp22I	TGATCA	1 cut(s)	199
Kzo9I	GATC	3 cut(s)	13, 199, 243
LpnPI	CCDG	3 cut(s)	72, 251, 400
LweI	GCATC	1 cut(s)	283
MalI	GATC	3 cut(s)	15, 201, 245
MboI	GATC	3 cut(s)	13, 199, 243
MboII	GAAGA	4 cut(s)	416, 419, 478, 545
MflI	RGATCY	1 cut(s)	243
MlyI	GAGTC	3 cut(s)	269, 297, 417
MnlI	CCTC	6 cut(s)	164, 200, 372, 529, 573, 573
Mph1103I	ATGCAT	1 cut(s)	145
MseI	TTAA	1 cut(s)	476
MslI	CAYNNNNRTG	1 cut(s)	314
NdeII	GATC	3 cut(s)	13, 199, 243
NlaIII	CATG	2 cut(s)	443, 459
NlaIV	GGNNCC	3 cut(s)	152, 318, 471
NsiI	ATGCAT	1 cut(s)	145
NspV	TTCGAA	1 cut(s)	37
OliI	CACNNNNGTG	1 cut(s)	314
PcsI	WCGNNNNNNNCGW	1 cut(s)	591
PfeI	GAWTC	2 cut(s)	84, 370
PleI	GAGTC	3 cut(s)	268, 297, 417
PpsI	GAGTC	3 cut(s)	268, 297, 417
PspN4I	GGNNCC	3 cut(s)	152, 318, 471
PstI	CTGCAG	1 cut(s)	557
PsuI	RGATCY	1 cut(s)	243
RsaI	GTAC	4 cut(s)	137, 213, 397, 570
RsaNI	GTAC	4 cut(s)	136, 212, 396, 569
RseI	CAYNNNNRTG	1 cut(s)	314
SaqAI	TTAA	1 cut(s)	476
Sau3AI	GATC	3 cut(s)	13, 199, 243
SchI	GAGTC	3 cut(s)	269, 297, 417
SetI	ASST	5 cut(s)	9, 152, 368, 390, 545
SfaNI	GCATC	1 cut(s)	283
SfcI	CTRYAG	1 cut(s)	553
SfuI	TTCGAA	1 cut(s)	37
SmiMI	CAYNNNNRTG	1 cut(s)	314
SmlI	CTYRAG	1 cut(s)	564
SmoI	CTYRAG	1 cut(s)	564
StyI	CCWWGG	1 cut(s)	131
TaaI	ACNGT	4 cut(s)	211, 313, 483, 621
TaqI	TCGA	3 cut(s)	12, 37, 594
TatI	WGTACW	2 cut(s)	211, 568
TfiI	GAWTC	2 cut(s)	84, 370
Tru1I	TTAA	1 cut(s)	476
Tru9I	TTAA	1 cut(s)	476
TscAI	CASTG	2 cut(s)	245, 496
TspDTI	ATGAA	1 cut(s)	546
TspRI	CASTG	2 cut(s)	245, 496
Zsp2I	ATGCAT	1 cut(s)	145

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