Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001506

Physical Location & Seq

Genomic Coordinates Reverse (-)

30378484 .. 30382269

Gene Structure 3786 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG160200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 771 bp

ATGGCCGGACAACCTGGAGGAGCACCGAGTACGTACTCGCCGTCCCCCACGACCCGGAAAACCAAGTCACTCATCTTCCGAAACGACGACGTCGATTGGGTCCGAACCGATGGCCGTGAATTCCACCAATGCAGACCTGCATTTTTCAAGACTGGTGCTGTAAACGCTGCTGCAGGCTCTGCATATGCAGAATTTGGAAATACCAAGGTCATTGTTTCTGTATTTGGTCCAAGAGAGAGTAAAAAGGCAATGATGTACAGTGATATAGGGCGGTTGAATTGCAATGTCAGCTATACAACTTTTGCCACTCCAGCTCGTGGACAGGGGTCAGACCACAAAGAGTTTTCTTCAATGCTTCATAAAGCTTTGGAGGGTGCAATAATATTGGAAACTTTCCCCAAGACTACTGTGGATGTTTTTGCATTGGTATTGGAATCTGGGGGCAGTGATCTTCCTGTAGTAATATCATGTGCTAGTCTTGCCCTAGCAGATGCAGGGATAATGATGTATGACCTTGTCGCCTCAGTCTCTGTGTCTTGTCTTGGAAAGAACCTAGTCATTGATCCTGTTTTGGAGGAAGAAAGTTACCAAGATGGAAGCTTAATGCTTGCTTGCATGCCTTCTCGCTATGAAGTCACTCAGCTAACTATAACGGGGGAATGGTCAACCCCAAAAATTAATGAGGTATGCAATCAGCTGATTTATTCCTTGTTCTATTATATGCTGTTCTTACTTATCTTACCATTCAGAGGGGGAGAATGCAATGCATGA

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

256

Amino Acids

27.83

Weight (kDa)

5.28

Isoelectric Point (pI)

43.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	43 - 167	4.4e-31	3' exoribonuclease family, domain 1
RNase_PH_C	PF03725	171 - 229	1.1e-06	3' exoribonuclease family, domain 2

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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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)	93
Acc36I	ACCTGC	1 cut(s)	145
AccB7I	CCANNNNNTGG	1 cut(s)	317
AciI	CCGC	1 cut(s)	271
AclWI	GGATC	1 cut(s)	557
AcoI	YGGCCR	2 cut(s)	3, 112
AcsI	RAATTY	2 cut(s)	119, 191
AcyI	GRCGYC	1 cut(s)	90
AfaI	GTAC	3 cut(s)	31, 35, 257
AfiI	CCNNNNNNNGG	3 cut(s)	54, 317, 749
AgsI	TTSAA	3 cut(s)	148, 277, 351
AjnI	CCWGG	1 cut(s)	13
AluBI	AGCT	6 cut(s)	291, 314, 365, 600, 643, 697
AluI	AGCT	6 cut(s)	291, 314, 365, 600, 643, 697
Alw21I	GWGCWC	1 cut(s)	25
Alw26I	GTCTC	1 cut(s)	532
AlwI	GGATC	1 cut(s)	557
AlwNI	CAGNNNCTG	2 cut(s)	179, 530
AoxI	GGCC	2 cut(s)	3, 112
ApeKI	GCWGC	2 cut(s)	167, 170
ApoI	RAATTY	2 cut(s)	119, 191
AseI	ATTAAT	1 cut(s)	678
AspS9I	GGNCC	2 cut(s)	100, 227
AsuC2I	CCSGG	1 cut(s)	55
AvaII	GGWCC	2 cut(s)	100, 227
BauI	CACGAG	1 cut(s)	315
Bbv12I	GWGCWC	1 cut(s)	25
BbvI	GCAGC	2 cut(s)	154, 157
BccI	CCATC	2 cut(s)	104, 587
BceAI	ACGGC	2 cut(s)	25, 99
BciT130I	CCWGG	1 cut(s)	15
BcnI	CCSGG	1 cut(s)	55
BcoDI	GTCTC	1 cut(s)	532
BfaI	CTAG	3 cut(s)	474, 485, 554
BfmI	CTRYAG	2 cut(s)	171, 456
BfuAI	ACCTGC	1 cut(s)	145
BisI	GCNGC	2 cut(s)	168, 171
BlsI	GCNGC	2 cut(s)	169, 172
Bme1390I	CCNGG	2 cut(s)	15, 55
Bme18I	GGWCC	2 cut(s)	100, 227
BmgT120I	GGNCC	2 cut(s)	100, 227
BmiI	GGNNCC	1 cut(s)	101
BmrFI	CCNGG	2 cut(s)	15, 55
BmsI	GCATC	1 cut(s)	481
BoxI	GACNNNNGTC	1 cut(s)	325
BpmI	CTGGAG	2 cut(s)	36, 294
BpuMI	CCSGG	1 cut(s)	55
BsaAI	YACGTR	1 cut(s)	33
BsaHI	GRCGYC	1 cut(s)	90
BsaJI	CCNNGG	1 cut(s)	204
Bsc4I	CCNNNNNNNGG	3 cut(s)	54, 317, 749
Bse1I	ACTGG	1 cut(s)	157
Bse3DI	GCAATG	3 cut(s)	255, 289, 769
BseBI	CCWGG	1 cut(s)	15
BseDI	CCNNGG	1 cut(s)	204
BseGI	GGATG	1 cut(s)	418
BseLI	CCNNNNNNNGG	3 cut(s)	54, 317, 749
BseMI	GCAATG	3 cut(s)	255, 289, 769
BseMII	CTCAG	2 cut(s)	537, 653
BseNI	ACTGG	1 cut(s)	157
BseRI	GAGGAG	1 cut(s)	33
BseXI	GCAGC	2 cut(s)	154, 157
BshFI	GGCC	2 cut(s)	5, 114
BsiHKAI	GWGCWC	1 cut(s)	25
BsiSI	CCGG	2 cut(s)	6, 55
BslFI	GGGAC	1 cut(s)	28
BslI	CCNNNNNNNGG	3 cut(s)	54, 317, 749
BsmAI	GTCTC	1 cut(s)	532
BsmFI	GGGAC	1 cut(s)	28
BsmI	GAATGC	1 cut(s)	764
BsnI	GGCC	2 cut(s)	5, 114
Bsp1286I	GDGCHC	1 cut(s)	25
Bsp1407I	TGTACA	1 cut(s)	255
Bsp143I	GATC	2 cut(s)	448, 562
BspACI	CCGC	1 cut(s)	271
BspANI	GGCC	2 cut(s)	5, 114
BspCNI	CTCAG	2 cut(s)	536, 652
BspLI	GGNNCC	1 cut(s)	101
BspMAI	CTGCAG	1 cut(s)	175
BspMI	ACCTGC	1 cut(s)	145
BspPI	GGATC	1 cut(s)	557
BsrDI	GCAATG	3 cut(s)	255, 289, 769
BsrGI	TGTACA	1 cut(s)	255
BsrI	ACTGG	1 cut(s)	157
BssECI	CCNNGG	1 cut(s)	204
BssMI	GATC	2 cut(s)	448, 562
BssNI	GRCGYC	1 cut(s)	90
BssSI	CACGAG	1 cut(s)	315
BssT1I	CCWWGG	1 cut(s)	204
Bst2BI	CACGAG	1 cut(s)	315
Bst2UI	CCWGG	1 cut(s)	15
Bst4CI	ACNGT	2 cut(s)	260, 409
BstACI	GRCGYC	1 cut(s)	90
BstAPI	GCANNNNNTGC	1 cut(s)	179
BstAUI	TGTACA	1 cut(s)	255
BstBAI	YACGTR	1 cut(s)	33
BstC8I	GCNNGC	4 cut(s)	175, 609, 613, 617
BstDEI	CTNAG	2 cut(s)	523, 639
BstF5I	GGATG	1 cut(s)	418
BstKTI	GATC	2 cut(s)	451, 565
BstMAI	GTCTC	1 cut(s)	532
BstMBI	GATC	2 cut(s)	448, 562
BstMWI	GCNNNNNNNGC	5 cut(s)	164, 179, 288, 311, 479
BstNI	CCWGG	1 cut(s)	15
BstNSI	RCATGY	1 cut(s)	619
BstPAI	GACNNNNGTC	1 cut(s)	325
BstSCI	CCNGG	2 cut(s)	13, 53
BstSFI	CTRYAG	2 cut(s)	171, 456
BstSNI	TACGTA	1 cut(s)	33
BstV1I	GCAGC	2 cut(s)	154, 157
BsuRI	GGCC	2 cut(s)	5, 114
BtsCI	GGATG	1 cut(s)	418
BtsI	GCAGTG	1 cut(s)	451
BtsIMutI	CAGTG	2 cut(s)	265, 451
BveI	ACCTGC	1 cut(s)	145
Cac8I	GCNNGC	4 cut(s)	175, 609, 613, 617
CaiI	CAGNNNCTG	2 cut(s)	179, 530
Cfr13I	GGNCC	2 cut(s)	100, 227
Csp6I	GTAC	3 cut(s)	30, 34, 256
CviAII	CATG	3 cut(s)	468, 616, 768
CviJI	RGCY	9 cut(s)	5, 114, 177, 291, 314, 365, 600, 643, 697
CviKI_1	RGCY	9 cut(s)	5, 114, 177, 291, 314, 365, 600, 643, 697
CviQI	GTAC	3 cut(s)	30, 34, 256
DdeI	CTNAG	2 cut(s)	523, 639
DpnI	GATC	2 cut(s)	450, 564
DpnII	GATC	2 cut(s)	448, 562
EaeI	YGGCCR	2 cut(s)	3, 112
Eco105I	TACGTA	1 cut(s)	33
Eco130I	CCWWGG	1 cut(s)	204
Eco47I	GGWCC	2 cut(s)	100, 227
EcoRI	GAATTC	1 cut(s)	119
EcoRII	CCWGG	1 cut(s)	13
EcoT14I	CCWWGG	1 cut(s)	204
EcoT22I	ATGCAT	1 cut(s)	769
ErhI	CCWWGG	1 cut(s)	204
FaeI	CATG	3 cut(s)	471, 619, 771
FaqI	GGGAC	1 cut(s)	28
FatI	CATG	3 cut(s)	467, 615, 767
FauNDI	CATATG	1 cut(s)	184
Fnu4HI	GCNGC	2 cut(s)	168, 171
FokI	GGATG	1 cut(s)	425
Fsp4HI	GCNGC	2 cut(s)	168, 171
FspBI	CTAG	3 cut(s)	474, 485, 554
GluI	GCNGC	2 cut(s)	168, 171
GsuI	CTGGAG	2 cut(s)	36, 294
HaeIII	GGCC	2 cut(s)	5, 114
HapII	CCGG	2 cut(s)	6, 55
Hin1I	GRCGYC	1 cut(s)	90
Hin1II	CATG	3 cut(s)	471, 619, 771
HincII	GTYRAC	1 cut(s)	666
HindII	GTYRAC	1 cut(s)	666
HindIII	AAGCTT	2 cut(s)	363, 598
HinfI	GANTC	1 cut(s)	434
HpaII	CCGG	2 cut(s)	6, 55
Hpy166II	GTNNAC	3 cut(s)	163, 320, 666
Hpy188I	TCNGA	4 cut(s)	80, 104, 331, 749
Hpy188III	TCNNGA	1 cut(s)	148
Hpy8I	GTNNAC	3 cut(s)	163, 320, 666
Hpy99I	CGWCG	3 cut(s)	89, 92, 95
HpyAV	CCTTC	1 cut(s)	630
HpyCH4III	ACNGT	2 cut(s)	260, 409
HpyCH4IV	ACGT	2 cut(s)	32, 90
HpyF10VI	GCNNNNNNNGC	5 cut(s)	164, 179, 288, 311, 479
HpyF3I	CTNAG	2 cut(s)	523, 639
HpySE526I	ACGT	2 cut(s)	32, 90
Hsp92I	GRCGYC	1 cut(s)	90
Hsp92II	CATG	3 cut(s)	471, 619, 771
Kzo9I	GATC	2 cut(s)	448, 562
LmnI	GCTCC	1 cut(s)	20
Lsp1109I	GCAGC	2 cut(s)	154, 157
LweI	GCATC	1 cut(s)	481
MaeI	CTAG	3 cut(s)	474, 485, 554
MaeII	ACGT	2 cut(s)	32, 90
MaeIII	GTNAC	3 cut(s)	66, 584, 634
MalI	GATC	2 cut(s)	450, 564
MboI	GATC	2 cut(s)	448, 562
MboII	GAAGA	4 cut(s)	67, 339, 443, 590
MhlI	GDGCHC	1 cut(s)	25
MluCI	AATT	4 cut(s)	119, 191, 277, 675
MnlI	CCTC	6 cut(s)	11, 364, 532, 568, 676, 743
Mph1103I	ATGCAT	1 cut(s)	769
MseI	TTAA	2 cut(s)	602, 678
MspA1I	CMGCKG	1 cut(s)	697
MspI	CCGG	2 cut(s)	6, 55
MspR9I	CCNGG	2 cut(s)	15, 55
Mva1269I	GAATGC	1 cut(s)	764
MvaI	CCWGG	1 cut(s)	15
MwoI	GCNNNNNNNGC	5 cut(s)	164, 179, 288, 311, 479
NciI	CCSGG	1 cut(s)	55
NdeI	CATATG	1 cut(s)	184
NdeII	GATC	2 cut(s)	448, 562
NlaIII	CATG	3 cut(s)	471, 619, 771
NlaIV	GGNNCC	1 cut(s)	101
NmuCI	GTSAC	2 cut(s)	66, 634
NsiI	ATGCAT	1 cut(s)	769
NspI	RCATGY	1 cut(s)	619
PaeI	GCATGC	1 cut(s)	619
PcsI	WCGNNNNNNNCGW	2 cut(s)	38, 90
PctI	GAATGC	1 cut(s)	764
PfeI	GAWTC	1 cut(s)	434
PflFI	GACNNNGTC	2 cut(s)	89, 515
PflMI	CCANNNNNTGG	1 cut(s)	317
PkrI	GCNGC	2 cut(s)	169, 172
Ppu21I	YACGTR	1 cut(s)	33
PshAI	GACNNNNGTC	1 cut(s)	325
PshBI	ATTAAT	1 cut(s)	678
Psp6I	CCWGG	1 cut(s)	13
PspGI	CCWGG	1 cut(s)	13
PspN4I	GGNNCC	1 cut(s)	101
PspPI	GGNCC	2 cut(s)	100, 227
PstI	CTGCAG	1 cut(s)	175
PstNI	CAGNNNCTG	2 cut(s)	179, 530
PsyI	GACNNNGTC	2 cut(s)	89, 515
PvuII	CAGCTG	1 cut(s)	697
RsaI	GTAC	3 cut(s)	31, 35, 257
RsaNI	GTAC	3 cut(s)	30, 34, 256
SaqAI	TTAA	2 cut(s)	602, 678
SatI	GCNGC	2 cut(s)	168, 171
Sau3AI	GATC	2 cut(s)	448, 562
Sau96I	GGNCC	2 cut(s)	100, 227
ScrFI	CCNGG	2 cut(s)	15, 55
SduI	GDGCHC	1 cut(s)	25
SfaNI	GCATC	1 cut(s)	481
SfcI	CTRYAG	2 cut(s)	171, 456
SinI	GGWCC	2 cut(s)	100, 227
SnaBI	TACGTA	1 cut(s)	33
SphI	GCATGC	1 cut(s)	619
Sse9I	AATT	4 cut(s)	119, 191, 277, 675
SsiI	CCGC	1 cut(s)	271
SspI	AATATT	1 cut(s)	384
SspMI	CTAG	3 cut(s)	474, 485, 554
StyD4I	CCNGG	2 cut(s)	13, 53
StyI	CCWWGG	1 cut(s)	204
TaaI	ACNGT	2 cut(s)	260, 409
TaiI	ACGT	2 cut(s)	35, 93
TaqI	TCGA	1 cut(s)	93
TasI	AATT	4 cut(s)	119, 191, 277, 675
TatI	WGTACW	1 cut(s)	255
TfiI	GAWTC	1 cut(s)	434
Tru1I	TTAA	2 cut(s)	602, 678
Tru9I	TTAA	2 cut(s)	602, 678
TscAI	CASTG	2 cut(s)	265, 451
TseFI	GTSAC	2 cut(s)	66, 634
TseI	GCWGC	2 cut(s)	167, 170
Tsp45I	GTSAC	2 cut(s)	66, 634
TspDTI	ATGAA	2 cut(s)	347, 645
TspRI	CASTG	2 cut(s)	265, 451
Tth111I	GACNNNGTC	2 cut(s)	89, 515
Van91I	CCANNNNNTGG	1 cut(s)	317
VpaK11BI	GGWCC	2 cut(s)	100, 227
VspI	ATTAAT	1 cut(s)	678
XapI	RAATTY	2 cut(s)	119, 191
XceI	RCATGY	1 cut(s)	619
XcmI	CCANNNNNNNNNTGG	1 cut(s)	406
XspI	CTAG	3 cut(s)	474, 485, 554
ZraI	GACGTC	1 cut(s)	91
Zsp2I	ATGCAT	1 cut(s)	769

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