Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001506

Physical Location & Seq

Genomic Coordinates Forward (+)

64828565 .. 64832429

Gene Structure 3865 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG409300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGGCTGGAGCAACTCCGACCACTTACTCGCCGTCCCCTACAACCCGCAAGACCAAATCACTCATCTTTCGAAACGACGACGTCGATTGGGTCCGAACCGATGGCCGTGATTTCCACCAATGCAGACCTGCCTTTTTCAAGATTGGTGCTGTAAATGCTGCTGCAGGATCTGCATATGCAGAATTTGGAAATACCAAGGTCATTGTTTCTGTATTTGGGCCAAGAGAGAGTAAGAAGGCAATGTTGTACAGTGACATAGGCCGGTTGAATTGTAATGTTAGCTATACAACTTTTGCCACTCCAGTTCGTGGACAGGGGTCAGACCACAAAGAGTTTTCTTCAATGCTTCATAAAGCTTTGGAGGGTGCAATAATATTGGAAACTTTCCCCAAGACTACAGTGGATGTTTTTGCATTGGTGTTGGAATCTGGGGGCAGTGATCTTCCCGTAGTAATATCATGTGCTAGCCTTGCTTTAGCAGATGCAGGGATAATGATGTATGACCTTGTTGCCTCAGTCTCTGTGGTATGCAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000176 GO:0000177 GO:0000178 GO:0000291 GO:0000956 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009791 GO:0009845 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0016072 GO:0016073 GO:0016074 GO:0016075 GO:0016180 GO:0016787 GO:0016788 GO:0019222 GO:0019439 GO:0022613 GO:0031123 GO:0031125 GO:0031126 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034427 GO:0034470 GO:0034472 GO:0034475 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043144 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043628 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0048856 GO:0050789 GO:0060255 GO:0065007 GO:0070013 GO:0071025 GO:0071027 GO:0071028 GO:0071051 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090351 GO:1901360 GO:1901361 GO:1901575 GO:1902494 GO:1905354

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

RNase_PH RNase_PH_C

Protein Analysis

178

Amino Acids

19.07

Weight (kDa)

6.81

Isoelectric Point (pI)

28.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	40 - 164	1.7e-30	3' exoribonuclease family, domain 1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001506)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G27490 AT4G27490 AT4G27490 AT4G27490 AT4G27490 AT4G27490 AT4G27490
fragaria_vesca	FvH4_1g26690 FvH4_3g31780 FvH4_3g31780
malus_domestica	MD02G1274400.v1.1 MD03G1120700.v1.1 MD09G1244800.v1.1 MD11G1139300.v1.1
prunus_persica	Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104200_v2.0.a1
pyrus_communis	pycom11g11520
rosa_chinensis	RchiOBHm_Chr1g0339161 RchiOBHm_Chr1g0339211 RchiOBHm_Chr1g0339271 RchiOBHm_Chr5g0058571
rosa_laevigata	RLG00000029217 RLG00000029222 RLG00000035234
rosa_multiflora	Rmu_sc0000367.1_g000149 Rmu_sc0001248.1_g000001 Rmu_sc0019779.1_g000001 Rmu_sc0022251.1_g000002
rosa_roxburghii	Rroxscaffold_1G00021880 Rroxscaffold_4G00313400
rosa_rugosa	Rorug01G0143400.1 Rorug01G0143500.1 Rorug05G0316000
rosa_samantha	Rh1AG160200 Rh1BG127000 Rh1BG127200 Rh1CG149500 Rh1CG149900 Rh5AG382300 Rh5BG394100 Rh5CG418000 Rh5DG409300
rosa_wichuraiana	Rw1G013490 Rw5G036000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	84
Acc36I	ACCTGC	1 cut(s)	136
AccB7I	CCANNNNNTGG	1 cut(s)	308
AciI	CCGC	1 cut(s)	46
AclWI	GGATC	1 cut(s)	175
AcoI	YGGCCR	1 cut(s)	103
AcsI	RAATTY	1 cut(s)	182
AcyI	GRCGYC	1 cut(s)	81
AfaI	GTAC	1 cut(s)	248
AfiI	CCNNNNNNNGG	1 cut(s)	308
AgsI	TTSAA	3 cut(s)	139, 268, 342
AluBI	AGCT	2 cut(s)	282, 356
AluI	AGCT	2 cut(s)	282, 356
Alw26I	GTCTC	1 cut(s)	523
AlwI	GGATC	1 cut(s)	175
AlwNI	CAGNNNCTG	2 cut(s)	170, 521
AoxI	GGCC	3 cut(s)	103, 218, 259
ApeKI	GCWGC	2 cut(s)	158, 161
ApoI	RAATTY	1 cut(s)	182
AspS9I	GGNCC	2 cut(s)	91, 218
AsuII	TTCGAA	1 cut(s)	70
AsuNHI	GCTAGC	1 cut(s)	464
AvaII	GGWCC	1 cut(s)	91
BbvI	GCAGC	2 cut(s)	145, 148
BccI	CCATC	1 cut(s)	95
BceAI	ACGGC	2 cut(s)	16, 90
BcoDI	GTCTC	1 cut(s)	523
BfaI	CTAG	1 cut(s)	465
BfmI	CTRYAG	2 cut(s)	162, 396
BfuAI	ACCTGC	1 cut(s)	136
BisI	GCNGC	2 cut(s)	159, 162
BlsI	GCNGC	2 cut(s)	160, 163
Bme18I	GGWCC	1 cut(s)	91
BmgT120I	GGNCC	2 cut(s)	91, 218
BmiI	GGNNCC	1 cut(s)	92
BmsI	GCATC	1 cut(s)	472
BmtI	GCTAGC	1 cut(s)	468
BoxI	GACNNNNGTC	1 cut(s)	316
BpmI	CTGGAG	2 cut(s)	27, 285
Bpu14I	TTCGAA	1 cut(s)	70
BsaHI	GRCGYC	1 cut(s)	81
BsaJI	CCNNGG	1 cut(s)	195
Bsc4I	CCNNNNNNNGG	1 cut(s)	308
Bse118I	RCCGGY	1 cut(s)	261
Bse1I	ACTGG	1 cut(s)	302
Bse3DI	GCAATG	1 cut(s)	246
BseDI	CCNNGG	1 cut(s)	195
BseGI	GGATG	1 cut(s)	409
BseLI	CCNNNNNNNGG	1 cut(s)	308
BseMI	GCAATG	1 cut(s)	246
BseMII	CTCAG	1 cut(s)	528
BseNI	ACTGG	1 cut(s)	302
BseXI	GCAGC	2 cut(s)	145, 148
BshFI	GGCC	3 cut(s)	105, 220, 261
BsiSI	CCGG	1 cut(s)	262
BslFI	GGGAC	1 cut(s)	19
BslI	CCNNNNNNNGG	1 cut(s)	308
BsmAI	GTCTC	1 cut(s)	523
BsmFI	GGGAC	1 cut(s)	19
BsnI	GGCC	3 cut(s)	105, 220, 261
Bsp119I	TTCGAA	1 cut(s)	70
Bsp1407I	TGTACA	1 cut(s)	246
Bsp143I	GATC	2 cut(s)	167, 439
BspACI	CCGC	1 cut(s)	46
BspANI	GGCC	3 cut(s)	105, 220, 261
BspCNI	CTCAG	1 cut(s)	527
BspLI	GGNNCC	1 cut(s)	92
BspMAI	CTGCAG	1 cut(s)	166
BspMI	ACCTGC	1 cut(s)	136
BspOI	GCTAGC	1 cut(s)	468
BspPI	GGATC	1 cut(s)	175
BspT104I	TTCGAA	1 cut(s)	70
BsrDI	GCAATG	1 cut(s)	246
BsrFI	RCCGGY	1 cut(s)	261
BsrGI	TGTACA	1 cut(s)	246
BsrI	ACTGG	1 cut(s)	302
BssAI	RCCGGY	1 cut(s)	261
BssECI	CCNNGG	1 cut(s)	195
BssMI	GATC	2 cut(s)	167, 439
BssNI	GRCGYC	1 cut(s)	81
BssT1I	CCWWGG	1 cut(s)	195
Bst4CI	ACNGT	2 cut(s)	251, 400
BstACI	GRCGYC	1 cut(s)	81
BstAPI	GCANNNNNTGC	1 cut(s)	170
BstAUI	TGTACA	1 cut(s)	246
BstBI	TTCGAA	1 cut(s)	70
BstC8I	GCNNGC	1 cut(s)	466
BstDEI	CTNAG	1 cut(s)	514
BstF5I	GGATG	1 cut(s)	409
BstKTI	GATC	2 cut(s)	170, 442
BstMAI	GTCTC	1 cut(s)	523
BstMBI	GATC	2 cut(s)	167, 439
BstMWI	GCNNNNNNNGC	3 cut(s)	155, 170, 470
BstPAI	GACNNNNGTC	1 cut(s)	316
BstSFI	CTRYAG	2 cut(s)	162, 396
BstV1I	GCAGC	2 cut(s)	145, 148
BstX2I	RGATCY	1 cut(s)	167
BstYI	RGATCY	1 cut(s)	167
BsuRI	GGCC	3 cut(s)	105, 220, 261
BtsCI	GGATG	1 cut(s)	409
BtsI	GCAGTG	1 cut(s)	442
BtsIMutI	CAGTG	3 cut(s)	256, 405, 442
BveI	ACCTGC	1 cut(s)	136
Cac8I	GCNNGC	1 cut(s)	466
CaiI	CAGNNNCTG	2 cut(s)	170, 521
Cfr10I	RCCGGY	1 cut(s)	261
Cfr13I	GGNCC	2 cut(s)	91, 218
Csp6I	GTAC	1 cut(s)	247
CviAII	CATG	1 cut(s)	459
CviJI	RGCY	7 cut(s)	5, 105, 220, 261, 282, 356, 468
CviKI_1	RGCY	7 cut(s)	5, 105, 220, 261, 282, 356, 468
CviQI	GTAC	1 cut(s)	247
DdeI	CTNAG	1 cut(s)	514
DpnI	GATC	2 cut(s)	169, 441
DpnII	GATC	2 cut(s)	167, 439
EaeI	YGGCCR	1 cut(s)	103
Eco130I	CCWWGG	1 cut(s)	195
Eco47I	GGWCC	1 cut(s)	91
EcoT14I	CCWWGG	1 cut(s)	195
ErhI	CCWWGG	1 cut(s)	195
FaeI	CATG	1 cut(s)	462
FaiI	YATR	8 cut(s)	175, 177, 257, 285, 351, 460, 501, 529
FaqI	GGGAC	1 cut(s)	19
FatI	CATG	1 cut(s)	458
FauI	CCCGC	1 cut(s)	53
FauNDI	CATATG	1 cut(s)	175
Fnu4HI	GCNGC	2 cut(s)	159, 162
FokI	GGATG	1 cut(s)	416
Fsp4HI	GCNGC	2 cut(s)	159, 162
FspBI	CTAG	1 cut(s)	465
GluI	GCNGC	2 cut(s)	159, 162
GsuI	CTGGAG	2 cut(s)	27, 285
HaeIII	GGCC	3 cut(s)	105, 220, 261
HapII	CCGG	1 cut(s)	262
Hin1I	GRCGYC	1 cut(s)	81
Hin1II	CATG	1 cut(s)	462
HindIII	AAGCTT	1 cut(s)	354
HinfI	GANTC	1 cut(s)	425
HpaII	CCGG	1 cut(s)	262
Hpy166II	GTNNAC	1 cut(s)	311
Hpy188I	TCNGA	3 cut(s)	18, 95, 322
Hpy188III	TCNNGA	1 cut(s)	139
Hpy8I	GTNNAC	1 cut(s)	311
Hpy99I	CGWCG	3 cut(s)	80, 83, 86
HpyAV	CCTTC	1 cut(s)	229
HpyCH4III	ACNGT	2 cut(s)	251, 400
HpyCH4IV	ACGT	1 cut(s)	81
HpyCH4V	TGCA	8 cut(s)	123, 164, 173, 179, 368, 413, 485, 531
HpyF10VI	GCNNNNNNNGC	3 cut(s)	155, 170, 470
HpyF3I	CTNAG	1 cut(s)	514
HpySE526I	ACGT	1 cut(s)	81
Hsp92I	GRCGYC	1 cut(s)	81
Hsp92II	CATG	1 cut(s)	462
Kzo9I	GATC	2 cut(s)	167, 439
LmnI	GCTCC	1 cut(s)	8
LpnPI	CCDG	7 cut(s)	141, 150, 275, 299, 315, 414, 471
Lsp1109I	GCAGC	2 cut(s)	145, 148
LweI	GCATC	1 cut(s)	472
MaeI	CTAG	1 cut(s)	465
MaeII	ACGT	1 cut(s)	81
MaeIII	GTNAC	1 cut(s)	251
MalI	GATC	2 cut(s)	169, 441
MboI	GATC	2 cut(s)	167, 439
MboII	GAAGA	2 cut(s)	330, 434
MflI	RGATCY	1 cut(s)	167
MluCI	AATT	2 cut(s)	182, 268
MmeI	TCCRAC	2 cut(s)	41, 402
MnlI	CCTC	2 cut(s)	355, 523
MspI	CCGG	1 cut(s)	262
MwoI	GCNNNNNNNGC	3 cut(s)	155, 170, 470
NdeI	CATATG	1 cut(s)	175
NdeII	GATC	2 cut(s)	167, 439
NheI	GCTAGC	1 cut(s)	464
NlaIII	CATG	1 cut(s)	462
NlaIV	GGNNCC	1 cut(s)	92
NmuCI	GTSAC	1 cut(s)	251
NspV	TTCGAA	1 cut(s)	70
PcsI	WCGNNNNNNNCGW	1 cut(s)	81
PfeI	GAWTC	1 cut(s)	425
PflFI	GACNNNGTC	1 cut(s)	80
PflMI	CCANNNNNTGG	1 cut(s)	308
PkrI	GCNGC	2 cut(s)	160, 163
PshAI	GACNNNNGTC	1 cut(s)	316
PspN4I	GGNNCC	1 cut(s)	92
PspPI	GGNCC	2 cut(s)	91, 218
PstI	CTGCAG	1 cut(s)	166
PstNI	CAGNNNCTG	2 cut(s)	170, 521
PsuI	RGATCY	1 cut(s)	167
PsyI	GACNNNGTC	1 cut(s)	80
RsaI	GTAC	1 cut(s)	248
RsaNI	GTAC	1 cut(s)	247
SatI	GCNGC	2 cut(s)	159, 162
Sau3AI	GATC	2 cut(s)	167, 439
Sau96I	GGNCC	2 cut(s)	91, 218
SetI	ASST	6 cut(s)	84, 130, 201, 284, 358, 507
SfaNI	GCATC	1 cut(s)	472
SfcI	CTRYAG	2 cut(s)	162, 396
SfuI	TTCGAA	1 cut(s)	70
SinI	GGWCC	1 cut(s)	91
Sse9I	AATT	2 cut(s)	182, 268
SsiI	CCGC	1 cut(s)	46
SspI	AATATT	1 cut(s)	375
SspMI	CTAG	1 cut(s)	465
StyI	CCWWGG	1 cut(s)	195
TaaI	ACNGT	2 cut(s)	251, 400
TaiI	ACGT	1 cut(s)	84
TaqI	TCGA	2 cut(s)	70, 84
TasI	AATT	2 cut(s)	182, 268
TatI	WGTACW	1 cut(s)	246
TfiI	GAWTC	1 cut(s)	425
TscAI	CASTG	3 cut(s)	256, 405, 442
TseFI	GTSAC	1 cut(s)	251
TseI	GCWGC	2 cut(s)	158, 161
Tsp45I	GTSAC	1 cut(s)	251
TspDTI	ATGAA	1 cut(s)	338
TspRI	CASTG	3 cut(s)	256, 405, 442
Tth111I	GACNNNGTC	1 cut(s)	80
Van91I	CCANNNNNTGG	1 cut(s)	308
VpaK11BI	GGWCC	1 cut(s)	91
XapI	RAATTY	1 cut(s)	182
XcmI	CCANNNNNNNNNTGG	1 cut(s)	397
XspI	CTAG	1 cut(s)	465
ZraI	GACGTC	1 cut(s)	82

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