Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004246

Physical Location & Seq

Genomic Coordinates Reverse (-)

46114031 .. 46114480

Gene Structure 450 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG315300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGATTTGGGAAATGCAAGTTTTCACAATGGTAAATTCACTTCAAGCTCTCCTGCCAATTCAATTCACAAATTTGCTGGTTCTGGATGGGTGTGGTAGAGGAACAAATGGTAGTTCTAAGTCAGGAGACCGAGTTTATGCTCCAAAAGGAATATCCAGGGATCAAAGAGTAGTGTCATCTCCTAGCTCATACTATGCCAAGGGTACCTCAGATTATAGAAAAGGCACATTACAACATGGCTTCAGGGAATTAAATATATCAGAGTCAGGCCAATGCTGGAGGCCTAATGGAAGGGGAGTTCAGTCATTGAATAATGATTTATGGCCATCTAGAAATAGTGTCTCTCAAGACAGAAACTTTGCTGGTCATGTTTCACAGTCCTATCATACTTGGGGCCGTGGCAGAGGGCAACACAATTCGTGGCAGCACACCTATCCATTTGCTGGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000966 GO:0000967 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004534 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008409 GO:0009056 GO:0009057 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010586 GO:0010587 GO:0010604 GO:0010628 GO:0016070 GO:0016072 GO:0016075 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0019222 GO:0019439 GO:0022613 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043633 GO:0043634 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044464 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060147 GO:0060149 GO:0060255 GO:0060968 GO:0060969 GO:0065007 GO:0071025 GO:0071027 GO:0071029 GO:0071035 GO:0071046 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko03008 ko03018 map03008 map03018

Pfam Domains

Protein Families

XRN_N

Protein Analysis

149

Amino Acids

16.71

Weight (kDa)

9.85

Isoelectric Point (pI)

39.47

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0004246)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g18720 FvH4_7g18720 FvH4_7g18720 FvH4_7g18720
malus_domestica	MD00G1128400.v1.1 MD11G1172900.v1.1
prunus_persica	Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1 Prupe.6G141200_v2.0.a1
pyrus_communis	pycom11g14580 pycom520g00080
rosa_chinensis	RchiOBHm_Chr1g0334231 RchiOBHm_Chr5g0047421 RchiOBHm_Chr5g0047601 RchiOBHm_Chr5g0047631 RchiOBHm_Chr5g0047791 RchiOBHm_Chr5g0047991
rosa_multiflora	Rmu_sc0000148.1_g000001 Rmu_sc0000148.1_g000016 Rmu_sc0003441.1_g000004
rosa_roxburghii	Rroxscaffold_1G00029700 Rroxscaffold_1G00033910
rosa_rugosa	Rorug05G0236400
rosa_samantha	Rh1CG129900 Rh5AG315300 Rh5AG315400 Rh5DG335300 Rh5DG335400
rosa_wichuraiana	Rw0G017980 Rw5G029460 Rw5G029520 Rw5G029550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	203
AccB1I	GGYRCC	1 cut(s)	203
AccB7I	CCANNNNNTGG	1 cut(s)	443
AclWI	GGATC	1 cut(s)	168
AcoI	YGGCCR	1 cut(s)	323
AcsI	RAATTY	2 cut(s)	34, 70
AcuI	CTGAAG	1 cut(s)	226
AfaI	GTAC	1 cut(s)	205
AfiI	CCNNNNNNNGG	1 cut(s)	443
AgsI	TTSAA	3 cut(s)	44, 62, 310
AjnI	CCWGG	1 cut(s)	155
AloI	GAACNNNNNNTCC	2 cut(s)	282, 314
AluBI	AGCT	2 cut(s)	47, 186
AluI	AGCT	2 cut(s)	47, 186
Alw26I	GTCTC	2 cut(s)	120, 346
AlwI	GGATC	1 cut(s)	168
AoxI	GGCC	4 cut(s)	268, 281, 323, 394
ApeKI	GCWGC	1 cut(s)	424
ApoI	RAATTY	2 cut(s)	34, 70
ArsI	GACNNNNNNTTYG	2 cut(s)	341, 373
Asp718I	GGTACC	1 cut(s)	203
AspS9I	GGNCC	1 cut(s)	394
BalI	TGGCCA	1 cut(s)	325
BanI	GGYRCC	1 cut(s)	203
BarI	GAAGNNNNNNTAC	2 cut(s)	24, 56
BbvI	GCAGC	1 cut(s)	436
BccI	CCATC	2 cut(s)	80, 334
BceAI	ACGGC	1 cut(s)	381
BciT130I	CCWGG	1 cut(s)	157
BcoDI	GTCTC	2 cut(s)	120, 346
BfaI	CTAG	2 cut(s)	183, 330
BisI	GCNGC	1 cut(s)	425
BlsI	GCNGC	1 cut(s)	426
Bme1390I	CCNGG	1 cut(s)	157
BmgT120I	GGNCC	1 cut(s)	394
BmiI	GGNNCC	2 cut(s)	205, 395
BmrFI	CCNGG	1 cut(s)	157
BpmI	CTGGAG	1 cut(s)	298
BpuEI	CTTGAG	1 cut(s)	330
BsaI	GGTCTC	1 cut(s)	120
BsaJI	CCNNGG	3 cut(s)	156, 198, 397
BsaXI	ACNNNNNCTCC	2 cut(s)	117, 147
Bsc4I	CCNNNNNNNGG	1 cut(s)	443
BseBI	CCWGG	1 cut(s)	157
BseDI	CCNNGG	3 cut(s)	156, 198, 397
BseGI	GGATG	1 cut(s)	91
BseLI	CCNNNNNNNGG	1 cut(s)	443
BseMII	CTCAG	1 cut(s)	222
BseXI	GCAGC	1 cut(s)	436
BseYI	CCCAGC	1 cut(s)	443
BshFI	GGCC	4 cut(s)	270, 283, 325, 396
BshNI	GGYRCC	1 cut(s)	203
BslI	CCNNNNNNNGG	1 cut(s)	443
BsmAI	GTCTC	2 cut(s)	120, 346
BsnI	GGCC	4 cut(s)	270, 283, 325, 396
Bso31I	GGTCTC	1 cut(s)	120
Bsp143I	GATC	1 cut(s)	160
BspANI	GGCC	4 cut(s)	270, 283, 325, 396
BspCNI	CTCAG	1 cut(s)	221
BspLI	GGNNCC	2 cut(s)	205, 395
BspPI	GGATC	1 cut(s)	168
BspT107I	GGYRCC	1 cut(s)	203
BspTNI	GGTCTC	1 cut(s)	120
BssECI	CCNNGG	3 cut(s)	156, 198, 397
BssMI	GATC	1 cut(s)	160
BssT1I	CCWWGG	1 cut(s)	198
Bst2UI	CCWGG	1 cut(s)	157
Bst4CI	ACNGT	1 cut(s)	378
BstDEI	CTNAG	2 cut(s)	117, 208
BstDSI	CCRYGG	1 cut(s)	397
BstF5I	GGATG	1 cut(s)	91
BstKTI	GATC	1 cut(s)	163
BstMAI	GTCTC	2 cut(s)	120, 346
BstMBI	GATC	1 cut(s)	160
BstNI	CCWGG	1 cut(s)	157
BstSCI	CCNGG	1 cut(s)	155
BstV1I	GCAGC	1 cut(s)	436
BsuRI	GGCC	4 cut(s)	270, 283, 325, 396
BtgI	CCRYGG	1 cut(s)	397
BtsCI	GGATG	1 cut(s)	91
Cfr13I	GGNCC	1 cut(s)	394
Csp6I	GTAC	1 cut(s)	204
CviAII	CATG	2 cut(s)	236, 368
CviJI	RGCY	7 cut(s)	47, 186, 240, 270, 283, 325, 396
CviKI_1	RGCY	7 cut(s)	47, 186, 240, 270, 283, 325, 396
CviQI	GTAC	1 cut(s)	204
DdeI	CTNAG	2 cut(s)	117, 208
DpnI	GATC	1 cut(s)	162
DpnII	GATC	1 cut(s)	160
EaeI	YGGCCR	1 cut(s)	323
Eco130I	CCWWGG	1 cut(s)	198
Eco147I	AGGCCT	1 cut(s)	283
Eco31I	GGTCTC	1 cut(s)	120
Eco57I	CTGAAG	1 cut(s)	226
EcoRII	CCWGG	1 cut(s)	155
EcoT14I	CCWWGG	1 cut(s)	198
ErhI	CCWWGG	1 cut(s)	198
FaeI	CATG	2 cut(s)	239, 371
FaiI	YATR	9 cut(s)	138, 190, 195, 216, 237, 257, 322, 369, 387
FatI	CATG	2 cut(s)	235, 367
Fnu4HI	GCNGC	1 cut(s)	425
FokI	GGATG	1 cut(s)	98
Fsp4HI	GCNGC	1 cut(s)	425
FspBI	CTAG	2 cut(s)	183, 330
GluI	GCNGC	1 cut(s)	425
GsaI	CCCAGC	1 cut(s)	447
GsuI	CTGGAG	1 cut(s)	298
HaeIII	GGCC	4 cut(s)	270, 283, 325, 396
Hin1II	CATG	2 cut(s)	239, 371
HinfI	GANTC	1 cut(s)	263
Hpy188I	TCNGA	2 cut(s)	211, 262
Hpy188III	TCNNGA	4 cut(s)	83, 123, 330, 347
HpyAV	CCTTC	1 cut(s)	285
HpyCH4III	ACNGT	1 cut(s)	378
HpyCH4V	TGCA	1 cut(s)	16
HpyF3I	CTNAG	2 cut(s)	117, 208
Hsp92II	CATG	2 cut(s)	239, 371
KpnI	GGTACC	1 cut(s)	207
Kzo9I	GATC	1 cut(s)	160
LmnI	GCTCC	1 cut(s)	145
Lsp1109I	GCAGC	1 cut(s)	436
MaeI	CTAG	2 cut(s)	183, 330
MalI	GATC	1 cut(s)	162
MboI	GATC	1 cut(s)	160
MlsI	TGGCCA	1 cut(s)	325
MluCI	AATT	6 cut(s)	34, 57, 62, 70, 248, 415
MluNI	TGGCCA	1 cut(s)	325
MlyI	GAGTC	1 cut(s)	272
MnlI	CCTC	4 cut(s)	92, 217, 273, 398
Mox20I	TGGCCA	1 cut(s)	325
MscI	TGGCCA	1 cut(s)	325
MseI	TTAA	1 cut(s)	251
Msp20I	TGGCCA	1 cut(s)	325
MspR9I	CCNGG	1 cut(s)	157
MvaI	CCWGG	1 cut(s)	157
NdeII	GATC	1 cut(s)	160
NlaIII	CATG	2 cut(s)	239, 371
NlaIV	GGNNCC	2 cut(s)	205, 395
PceI	AGGCCT	1 cut(s)	283
PflMI	CCANNNNNTGG	1 cut(s)	443
PkrI	GCNGC	1 cut(s)	426
PleI	GAGTC	1 cut(s)	271
PpsI	GAGTC	1 cut(s)	271
Psp6I	CCWGG	1 cut(s)	155
PspFI	CCCAGC	1 cut(s)	443
PspGI	CCWGG	1 cut(s)	155
PspN4I	GGNNCC	2 cut(s)	205, 395
PspPI	GGNCC	1 cut(s)	394
RsaI	GTAC	1 cut(s)	205
RsaNI	GTAC	1 cut(s)	204
SaqAI	TTAA	1 cut(s)	251
SatI	GCNGC	1 cut(s)	425
Sau3AI	GATC	1 cut(s)	160
Sau96I	GGNCC	1 cut(s)	394
SchI	GAGTC	1 cut(s)	272
ScrFI	CCNGG	1 cut(s)	157
SetI	ASST	4 cut(s)	49, 188, 209, 434
SmlI	CTYRAG	1 cut(s)	345
SmoI	CTYRAG	1 cut(s)	345
Sse9I	AATT	6 cut(s)	34, 57, 62, 70, 248, 415
SseBI	AGGCCT	1 cut(s)	283
SspMI	CTAG	2 cut(s)	183, 330
StuI	AGGCCT	1 cut(s)	283
StyD4I	CCNGG	1 cut(s)	155
StyI	CCWWGG	1 cut(s)	198
TaaI	ACNGT	1 cut(s)	378
TaqII	GACCGA	1 cut(s)	144
TasI	AATT	6 cut(s)	34, 57, 62, 70, 248, 415
Tru1I	TTAA	1 cut(s)	251
Tru9I	TTAA	1 cut(s)	251
TseI	GCWGC	1 cut(s)	424
Van91I	CCANNNNNTGG	1 cut(s)	443
XapI	RAATTY	2 cut(s)	34, 70
XbaI	TCTAGA	1 cut(s)	329
XspI	CTAG	2 cut(s)	183, 330

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