Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0005055

Physical Location & Seq

Genomic Coordinates Reverse (-)

84671514 .. 84673051

Gene Structure 1538 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG499800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGCTTCCACCACCCCAGAAAAGCACGTCTATTTCGTGTGGGCGCTTCCACCGGACGACGTGACCCCCAGGCTCAAGAAGCTCATGGAGGGCCTCCGGGCCGAATTCAATGGGCCCTACTTCGACCCCCACATCACCGTCGTGGGGGCCATCACCTTGACCCCCGAAGACGCTCTCAACAAGTTTAAAACGGCCTCGCAGGCCGTGAAGGCTTACGAAGCCAAAGTTGAGAGCGTCGCCACTGGAACTTTCTTTTACCAGTCTGTGTTCCTCCTCATCAATCCCACTCCTCAGGTGGTGGAAGCTAGTGCAATCTGCTGTGGGCATTTTGGTTACAATAGCTCAACTCCTTATATGCCACATCTGAGTCTCCTGTACGCAGATCTGAGTGATGAAGATAAGAATAAAGCTCAAGAGAAGGCCAGCATTCTGGACGAGAACATTGCTAGTCTGAGCTTCCCCGTTACTCGCCTTGCATTGTACAAAACTGACACTGAAGATAAAACTCTAAAATCTTGGGAGAAGATTGCTGAGTGCACACTCCAACCCAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

184

Amino Acids

20.46

Weight (kDa)

5.21

Isoelectric Point (pI)

40.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CPDase	PF07823	13 - 145	1.3e-11	Cyclic phosphodiesterase-like protein
2_5_RNA_ligase2	PF13563	42 - 165	2.7e-09	2'-5' RNA ligase superfamily

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0005055)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18930
fragaria_vesca	FvH4_3g06750 FvH4_3g06750 FvH4_3g06750 FvH4_6g06860 FvH4_6g06860
malus_domestica	MD10G1271200.v1.1 MD10G1271300.v1.1
prunus_persica	Prupe.4G070300_v2.0.a1 Prupe.6G318900_v2.0.a1
pyrus_communis	pycom10g22700
rosa_chinensis	RchiOBHm_Chr3g0456341 RchiOBHm_Chr5g0012411
rosa_laevigata	RLG00000025311 RLG00000031911
rosa_multiflora	Rmu_co8444057.1_g000001 Rmu_sc0002607.1_g000022 Rmu_sc0018054.1_g000004
rosa_roxburghii	Rroxscaffold_1G00064260 Rroxscaffold_6G00422810
rosa_rugosa	Rorug05G0000900
rosa_samantha	Rh3AG072700 Rh3BG074800 Rh3CG074400 Rh5AG095400 Rh5AG499800 Rh5BG091600 Rh5DG091000
rosa_wichuraiana	Rw3G006240 Rw5G008340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	104
AcuI	CTGAAG	1 cut(s)	516
AfaI	GTAC	2 cut(s)	377, 482
AfiI	CCNNNNNNNGG	1 cut(s)	144
AgsI	TTSAA	1 cut(s)	109
AjiI	CACGTC	2 cut(s)	28, 61
AjnI	CCWGG	1 cut(s)	68
AleI	CACNNNNGTG	1 cut(s)	140
AluBI	AGCT	5 cut(s)	82, 305, 342, 410, 456
AluI	AGCT	5 cut(s)	82, 305, 342, 410, 456
Alw21I	GWGCWC	1 cut(s)	539
Alw26I	GTCTC	1 cut(s)	374
Alw44I	GTGCAC	1 cut(s)	535
AoxI	GGCC	7 cut(s)	91, 99, 113, 147, 192, 201, 420
ApaI	GGGCCC	1 cut(s)	117
ApaLI	GTGCAC	1 cut(s)	535
ApoI	RAATTY	1 cut(s)	104
AspLEI	GCGC	1 cut(s)	46
AspS9I	GGNCC	5 cut(s)	91, 99, 113, 114, 147
AsuC2I	CCSGG	1 cut(s)	98
AsuHPI	GGTGA	2 cut(s)	127, 145
AxyI	CCTNAGG	1 cut(s)	291
BaeGI	GKGCMC	2 cut(s)	117, 539
BanII	GRGCYC	1 cut(s)	117
BbsI	GAAGAC	1 cut(s)	174
Bbv12I	GWGCWC	1 cut(s)	539
BccI	CCATC	1 cut(s)	158
BceAI	ACGGC	2 cut(s)	188, 207
BcgI	CGANNNNNNTGC	2 cut(s)	425, 459
BciT130I	CCWGG	1 cut(s)	70
BcnI	CCSGG	1 cut(s)	98
BcoDI	GTCTC	1 cut(s)	374
BfaI	CTAG	2 cut(s)	306, 447
BfoI	RGCGCY	1 cut(s)	47
BglI	GCCNNNNNGGC	2 cut(s)	200, 209
BglII	AGATCT	1 cut(s)	382
Bme1390I	CCNGG	2 cut(s)	70, 98
BmgBI	CACGTC	2 cut(s)	28, 61
BmgT120I	GGNCC	5 cut(s)	91, 99, 113, 114, 147
BmiI	GGNNCC	2 cut(s)	115, 148
BmrFI	CCNGG	2 cut(s)	70, 98
BpiI	GAAGAC	1 cut(s)	174
BpuEI	CTTGAG	2 cut(s)	59, 396
BpuMI	CCSGG	1 cut(s)	98
BsaJI	CCNNGG	1 cut(s)	68
BsaWI	WCCGGW	1 cut(s)	52
Bsc4I	CCNNNNNNNGG	1 cut(s)	144
Bse1I	ACTGG	2 cut(s)	247, 259
Bse21I	CCTNAGG	1 cut(s)	291
Bse3DI	GCAATG	1 cut(s)	441
BseBI	CCWGG	1 cut(s)	70
BseDI	CCNNGG	1 cut(s)	68
BseLI	CCNNNNNNNGG	1 cut(s)	144
BseMI	GCAATG	1 cut(s)	441
BseMII	CTCAG	5 cut(s)	305, 356, 377, 443, 522
BseNI	ACTGG	2 cut(s)	247, 259
BseRI	GAGGAG	2 cut(s)	263, 279
BseSI	GKGCMC	2 cut(s)	117, 539
BshFI	GGCC	7 cut(s)	93, 101, 115, 149, 194, 203, 422
BsiHKAI	GWGCWC	1 cut(s)	539
BsiSI	CCGG	2 cut(s)	53, 97
BslI	CCNNNNNNNGG	1 cut(s)	144
BsmAI	GTCTC	1 cut(s)	374
BsmI	GAATGC	1 cut(s)	426
BsnI	GGCC	7 cut(s)	93, 101, 115, 149, 194, 203, 422
Bsp120I	GGGCCC	1 cut(s)	113
Bsp1286I	GDGCHC	2 cut(s)	117, 539
Bsp1407I	TGTACA	1 cut(s)	480
Bsp143I	GATC	1 cut(s)	382
BspANI	GGCC	7 cut(s)	93, 101, 115, 149, 194, 203, 422
BspCNI	CTCAG	5 cut(s)	304, 357, 378, 444, 523
BspLI	GGNNCC	2 cut(s)	115, 148
BsrDI	GCAATG	1 cut(s)	441
BsrGI	TGTACA	1 cut(s)	480
BsrI	ACTGG	2 cut(s)	247, 259
BssECI	CCNNGG	1 cut(s)	68
BssMI	GATC	1 cut(s)	382
Bst2UI	CCWGG	1 cut(s)	70
Bst4CI	ACNGT	1 cut(s)	139
BstAUI	TGTACA	1 cut(s)	480
BstC8I	GCNNGC	2 cut(s)	201, 424
BstDEI	CTNAG	5 cut(s)	291, 365, 386, 452, 531
BstH2I	RGCGCY	1 cut(s)	47
BstHHI	GCGC	1 cut(s)	46
BstKTI	GATC	1 cut(s)	385
BstMAI	GTCTC	1 cut(s)	374
BstMBI	GATC	1 cut(s)	382
BstMWI	GCNNNNNNNGC	4 cut(s)	79, 200, 209, 218
BstNI	CCWGG	1 cut(s)	70
BstSCI	CCNGG	2 cut(s)	68, 96
BstSLI	GKGCMC	2 cut(s)	117, 539
BstV2I	GAAGAC	1 cut(s)	174
BstX2I	RGATCY	1 cut(s)	382
BstXI	CCANNNNNNTGG	1 cut(s)	430
BstYI	RGATCY	1 cut(s)	382
Bsu36I	CCTNAGG	1 cut(s)	291
BsuRI	GGCC	7 cut(s)	93, 101, 115, 149, 194, 203, 422
BtrI	CACGTC	2 cut(s)	28, 61
BtsIMutI	CAGTG	2 cut(s)	240, 492
Cac8I	GCNNGC	2 cut(s)	201, 424
CfoI	GCGC	1 cut(s)	46
Cfr13I	GGNCC	5 cut(s)	91, 99, 113, 114, 147
CseI	GACGC	2 cut(s)	179, 223
Csp6I	GTAC	2 cut(s)	376, 481
CviAII	CATG	1 cut(s)	85
CviQI	GTAC	2 cut(s)	376, 481
DdeI	CTNAG	5 cut(s)	291, 365, 386, 452, 531
DpnI	GATC	1 cut(s)	384
DpnII	GATC	1 cut(s)	382
DraI	TTTAAA	1 cut(s)	187
Eco24I	GRGCYC	1 cut(s)	117
Eco57I	CTGAAG	1 cut(s)	516
Eco81I	CCTNAGG	1 cut(s)	291
EcoO109I	RGGNCCY	2 cut(s)	91, 114
EcoRI	GAATTC	1 cut(s)	104
EcoRII	CCWGG	1 cut(s)	68
EcoT38I	GRGCYC	1 cut(s)	117
FaeI	CATG	1 cut(s)	88
FaiI	YATR	3 cut(s)	86, 354, 356
FatI	CATG	1 cut(s)	84
FriOI	GRGCYC	1 cut(s)	117
FspBI	CTAG	2 cut(s)	306, 447
GlaI	GCGC	1 cut(s)	45
HaeII	RGCGCY	1 cut(s)	47
HaeIII	GGCC	7 cut(s)	93, 101, 115, 149, 194, 203, 422
HapII	CCGG	2 cut(s)	53, 97
HgaI	GACGC	2 cut(s)	179, 223
HhaI	GCGC	1 cut(s)	46
Hin1II	CATG	1 cut(s)	88
Hin6I	GCGC	1 cut(s)	44
HinP1I	GCGC	1 cut(s)	44
HinfI	GANTC	1 cut(s)	367
HpaII	CCGG	2 cut(s)	53, 97
HphI	GGTGA	2 cut(s)	127, 145
Hpy166II	GTNNAC	1 cut(s)	537
Hpy188I	TCNGA	3 cut(s)	366, 387, 453
Hpy188III	TCNNGA	3 cut(s)	76, 413, 431
Hpy8I	GTNNAC	1 cut(s)	537
Hpy99I	CGWCG	3 cut(s)	62, 143, 239
HpyAV	CCTTC	2 cut(s)	202, 412
HpyCH4III	ACNGT	1 cut(s)	139
HpyCH4IV	ACGT	2 cut(s)	27, 60
HpyCH4V	TGCA	3 cut(s)	311, 476, 537
HpyF10VI	GCNNNNNNNGC	4 cut(s)	79, 200, 209, 218
HpyF3I	CTNAG	5 cut(s)	291, 365, 386, 452, 531
HpySE526I	ACGT	2 cut(s)	27, 60
Hsp92II	CATG	1 cut(s)	88
HspAI	GCGC	1 cut(s)	44
Kzo9I	GATC	1 cut(s)	382
MaeI	CTAG	2 cut(s)	306, 447
MaeII	ACGT	2 cut(s)	27, 60
MaeIII	GTNAC	3 cut(s)	61, 332, 463
MalI	GATC	1 cut(s)	384
MboI	GATC	1 cut(s)	382
MboII	GAAGA	4 cut(s)	179, 407, 509, 535
MflI	RGATCY	1 cut(s)	382
MhlI	GDGCHC	2 cut(s)	117, 539
MluCI	AATT	2 cut(s)	104, 550
MlyI	GAGTC	1 cut(s)	376
MnlI	CCTC	6 cut(s)	82, 104, 205, 281, 284, 300
MseI	TTAA	1 cut(s)	186
MslI	CAYNNNNRTG	1 cut(s)	140
MspI	CCGG	2 cut(s)	53, 97
MspR9I	CCNGG	2 cut(s)	70, 98
Mva1269I	GAATGC	1 cut(s)	426
MvaI	CCWGG	1 cut(s)	70
MwoI	GCNNNNNNNGC	4 cut(s)	79, 200, 209, 218
NciI	CCSGG	1 cut(s)	98
NdeII	GATC	1 cut(s)	382
NlaIII	CATG	1 cut(s)	88
NlaIV	GGNNCC	2 cut(s)	115, 148
NmuCI	GTSAC	1 cut(s)	61
OliI	CACNNNNGTG	1 cut(s)	140
PcsI	WCGNNNNNNNCGW	1 cut(s)	33
PctI	GAATGC	1 cut(s)	426
PleI	GAGTC	1 cut(s)	375
PpsI	GAGTC	1 cut(s)	375
Psp6I	CCWGG	1 cut(s)	68
PspGI	CCWGG	1 cut(s)	68
PspN4I	GGNNCC	2 cut(s)	115, 148
PspOMI	GGGCCC	1 cut(s)	113
PspPI	GGNCC	5 cut(s)	91, 99, 113, 114, 147
PsuI	RGATCY	1 cut(s)	382
RsaI	GTAC	2 cut(s)	377, 482
RsaNI	GTAC	2 cut(s)	376, 481
RseI	CAYNNNNRTG	1 cut(s)	140
SaqAI	TTAA	1 cut(s)	186
Sau3AI	GATC	1 cut(s)	382
Sau96I	GGNCC	5 cut(s)	91, 99, 113, 114, 147
SchI	GAGTC	1 cut(s)	376
ScrFI	CCNGG	2 cut(s)	70, 98
SduI	GDGCHC	2 cut(s)	117, 539
SetI	ASST	9 cut(s)	30, 63, 84, 158, 297, 307, 344, 412, 458
SfiI	GGCCNNNNNGGCC	1 cut(s)	200
SmiMI	CAYNNNNRTG	1 cut(s)	140
SmlI	CTYRAG	2 cut(s)	74, 411
SmoI	CTYRAG	2 cut(s)	74, 411
Sse9I	AATT	2 cut(s)	104, 550
SspMI	CTAG	2 cut(s)	306, 447
StyD4I	CCNGG	2 cut(s)	68, 96
TaaI	ACNGT	1 cut(s)	139
TaiI	ACGT	2 cut(s)	30, 63
TaqI	TCGA	1 cut(s)	123
TasI	AATT	2 cut(s)	104, 550
TatI	WGTACW	1 cut(s)	480
Tru1I	TTAA	1 cut(s)	186
Tru9I	TTAA	1 cut(s)	186
TscAI	CASTG	2 cut(s)	247, 499
TseFI	GTSAC	1 cut(s)	61
Tsp45I	GTSAC	1 cut(s)	61
TspDTI	ATGAA	1 cut(s)	408
TspRI	CASTG	2 cut(s)	247, 499
VneI	GTGCAC	1 cut(s)	535
XapI	RAATTY	1 cut(s)	104
XcmI	CCANNNNNNNNNTGG	1 cut(s)	292
XspI	CTAG	2 cut(s)	306, 447

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