Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0001506

Physical Location & Seq

Genomic Coordinates Reverse (-)

21513961 .. 21516518

Gene Structure 2558 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG127200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 564 bp

ATGCTGCTGCAGGATCTGCATACGCAGAATTTGGAAATACCAAGATTTGGGCCAAGAGAGAGCAAGAAGGCAATGATGTACAGTGATATAGGCCGATTGAATTGCAATATCAGCCATACAACTTTTGCCACTCCAGCTCGTGGACAGGGGTCGGACCACAAAGAATTTTCTTCGATGCTTCATAAAGCTTTGGAGGGTGCAATAATATTGGAAACTTTCCCCAAGACTACTGTGGATGTTTTTGCATTGGTATTGGAATCTGGGGGCAGTGATCTTCCTGTAGTAATATCATGCGCTAGTCTAGCCCTAGCAGATGCAGGGATAATGATTCTTGGAAAGAACCTAGTGATTGATCCTGTTTTGGAGGAAGAAAGTTACCAAGATGGGAGCTTAATGCTTACTTGCATGCCTTCTCGCTATGAAGTCACTCAGCTAACTATGTCGGGGGAATGGTCAACCCCAAAAATTAATGAGGGAATGCAGATATACCTCGACGCCAGCGCAAAGATTGCAACAATCATGAGGGAATGCTTAAAAGGAGCTGATTCTGCTTTGGAAGAATAG

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

187

Amino Acids

20.42

Weight (kDa)

4.83

Isoelectric Point (pI)

42.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	17 - 108	2.5e-16	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)
AccB7I	CCANNNNNTGG	2 cut(s)	47, 140
AclWI	GGATC	2 cut(s)	21, 347
AcsI	RAATTY	2 cut(s)	28, 164
AcyI	GRCGYC	1 cut(s)	495
AfaI	GTAC	1 cut(s)	80
AfiI	CCNNNNNNNGG	2 cut(s)	47, 140
AgsI	TTSAA	1 cut(s)	100
AluBI	AGCT	5 cut(s)	137, 188, 390, 433, 542
AluI	AGCT	5 cut(s)	137, 188, 390, 433, 542
AlwI	GGATC	2 cut(s)	21, 347
AlwNI	CAGNNNCTG	1 cut(s)	16
AoxI	GGCC	2 cut(s)	50, 91
ApeKI	GCWGC	2 cut(s)	4, 7
ApoI	RAATTY	2 cut(s)	28, 164
AseI	ATTAAT	1 cut(s)	468
AspLEI	GCGC	2 cut(s)	296, 503
AspS9I	GGNCC	2 cut(s)	50, 154
AvaII	GGWCC	1 cut(s)	154
BauI	CACGAG	1 cut(s)	138
BccI	CCATC	1 cut(s)	377
BcgI	CGANNNNNNTGC	2 cut(s)	84, 118
BfaI	CTAG	4 cut(s)	297, 302, 308, 344
BfmI	CTRYAG	2 cut(s)	8, 279
BisI	GCNGC	2 cut(s)	5, 8
BlsI	GCNGC	2 cut(s)	6, 9
Bme18I	GGWCC	1 cut(s)	154
BmgT120I	GGNCC	2 cut(s)	50, 154
BmsI	GCATC	2 cut(s)	165, 304
BoxI	GACNNNNGTC	1 cut(s)	148
BpmI	CTGGAG	1 cut(s)	117
BsaHI	GRCGYC	1 cut(s)	495
Bsc4I	CCNNNNNNNGG	2 cut(s)	47, 140
Bse3DI	GCAATG	1 cut(s)	78
BseGI	GGATG	1 cut(s)	241
BseLI	CCNNNNNNNGG	2 cut(s)	47, 140
BseMI	GCAATG	1 cut(s)	78
BseMII	CTCAG	1 cut(s)	443
BshFI	GGCC	2 cut(s)	52, 93
BslI	CCNNNNNNNGG	2 cut(s)	47, 140
BsmI	GAATGC	2 cut(s)	483, 533
BsnI	GGCC	2 cut(s)	52, 93
Bsp1407I	TGTACA	1 cut(s)	78
Bsp143I	GATC	3 cut(s)	13, 271, 352
BspANI	GGCC	2 cut(s)	52, 93
BspCNI	CTCAG	1 cut(s)	442
BspHI	TCATGA	1 cut(s)	519
BspMAI	CTGCAG	1 cut(s)	12
BspPI	GGATC	2 cut(s)	21, 347
BsrDI	GCAATG	1 cut(s)	78
BsrGI	TGTACA	1 cut(s)	78
BssMI	GATC	3 cut(s)	13, 271, 352
BssNI	GRCGYC	1 cut(s)	495
BssSI	CACGAG	1 cut(s)	138
Bst2BI	CACGAG	1 cut(s)	138
Bst4CI	ACNGT	2 cut(s)	83, 232
BstACI	GRCGYC	1 cut(s)	495
BstAPI	GCANNNNNTGC	2 cut(s)	16, 509
BstAUI	TGTACA	1 cut(s)	78
BstC8I	GCNNGC	2 cut(s)	407, 499
BstDEI	CTNAG	1 cut(s)	429
BstF5I	GGATG	1 cut(s)	241
BstHHI	GCGC	2 cut(s)	296, 503
BstKTI	GATC	3 cut(s)	16, 274, 355
BstMBI	GATC	3 cut(s)	13, 271, 352
BstMWI	GCNNNNNNNGC	6 cut(s)	16, 111, 134, 302, 509, 548
BstNSI	RCATGY	1 cut(s)	409
BstPAI	GACNNNNGTC	1 cut(s)	148
BstSFI	CTRYAG	2 cut(s)	8, 279
BstX2I	RGATCY	1 cut(s)	13
BstYI	RGATCY	1 cut(s)	13
BsuRI	GGCC	2 cut(s)	52, 93
BtsCI	GGATG	1 cut(s)	241
BtsI	GCAGTG	1 cut(s)	274
BtsIMutI	CAGTG	2 cut(s)	88, 274
Cac8I	GCNNGC	2 cut(s)	407, 499
CaiI	CAGNNNCTG	1 cut(s)	16
CciI	TCATGA	1 cut(s)	519
CfoI	GCGC	2 cut(s)	296, 503
Cfr13I	GGNCC	2 cut(s)	50, 154
CseI	GACGC	1 cut(s)	503
Csp6I	GTAC	1 cut(s)	79
CviAII	CATG	3 cut(s)	291, 406, 520
CviJI	RGCY	9 cut(s)	52, 93, 114, 137, 188, 305, 390, 433, 542
CviKI_1	RGCY	9 cut(s)	52, 93, 114, 137, 188, 305, 390, 433, 542
CviQI	GTAC	1 cut(s)	79
DdeI	CTNAG	1 cut(s)	429
DpnI	GATC	3 cut(s)	15, 273, 354
DpnII	GATC	3 cut(s)	13, 271, 352
Eco47I	GGWCC	1 cut(s)	154
FaeI	CATG	3 cut(s)	294, 409, 523
FatI	CATG	3 cut(s)	290, 405, 519
Fnu4HI	GCNGC	2 cut(s)	5, 8
FokI	GGATG	1 cut(s)	248
Fsp4HI	GCNGC	2 cut(s)	5, 8
FspBI	CTAG	4 cut(s)	297, 302, 308, 344
GlaI	GCGC	2 cut(s)	295, 502
GluI	GCNGC	2 cut(s)	5, 8
GsuI	CTGGAG	1 cut(s)	117
HaeIII	GGCC	2 cut(s)	52, 93
HgaI	GACGC	1 cut(s)	503
HhaI	GCGC	2 cut(s)	296, 503
Hin1I	GRCGYC	1 cut(s)	495
Hin1II	CATG	3 cut(s)	294, 409, 523
Hin6I	GCGC	2 cut(s)	294, 501
HinP1I	GCGC	2 cut(s)	294, 501
HincII	GTYRAC	1 cut(s)	456
HindII	GTYRAC	1 cut(s)	456
HindIII	AAGCTT	1 cut(s)	186
HinfI	GANTC	3 cut(s)	257, 328, 545
Hpy166II	GTNNAC	2 cut(s)	143, 456
Hpy188I	TCNGA	1 cut(s)	154
Hpy188III	TCNNGA	1 cut(s)	520
Hpy8I	GTNNAC	2 cut(s)	143, 456
Hpy99I	CGWCG	1 cut(s)	497
HpyAV	CCTTC	2 cut(s)	61, 420
HpyCH4III	ACNGT	2 cut(s)	83, 232
HpyCH4V	TGCA	9 cut(s)	10, 19, 105, 200, 245, 317, 405, 481, 512
HpyF10VI	GCNNNNNNNGC	6 cut(s)	16, 111, 134, 302, 509, 548
HpyF3I	CTNAG	1 cut(s)	429
Hsp92I	GRCGYC	1 cut(s)	495
Hsp92II	CATG	3 cut(s)	294, 409, 523
HspAI	GCGC	2 cut(s)	294, 501
Kzo9I	GATC	3 cut(s)	13, 271, 352
LmnI	GCTCC	2 cut(s)	387, 539
LpnPI	CCDG	7 cut(s)	131, 147, 246, 291, 303, 369, 511
LweI	GCATC	2 cut(s)	165, 304
MaeI	CTAG	4 cut(s)	297, 302, 308, 344
MaeIII	GTNAC	2 cut(s)	374, 424
MalI	GATC	3 cut(s)	15, 273, 354
MboI	GATC	3 cut(s)	13, 271, 352
MboII	GAAGA	3 cut(s)	162, 266, 380
MflI	RGATCY	1 cut(s)	13
MluCI	AATT	4 cut(s)	28, 100, 164, 465
MmeI	TCCRAC	1 cut(s)	132
MnlI	CCTC	5 cut(s)	187, 358, 466, 500, 516
MseI	TTAA	3 cut(s)	392, 468, 533
Mva1269I	GAATGC	2 cut(s)	483, 533
MwoI	GCNNNNNNNGC	6 cut(s)	16, 111, 134, 302, 509, 548
NdeII	GATC	3 cut(s)	13, 271, 352
NlaIII	CATG	3 cut(s)	294, 409, 523
NmuCI	GTSAC	1 cut(s)	424
NspI	RCATGY	1 cut(s)	409
PaeI	GCATGC	1 cut(s)	409
PagI	TCATGA	1 cut(s)	519
PctI	GAATGC	2 cut(s)	483, 533
PfeI	GAWTC	3 cut(s)	257, 328, 545
PflMI	CCANNNNNTGG	2 cut(s)	47, 140
PkrI	GCNGC	2 cut(s)	6, 9
PshAI	GACNNNNGTC	1 cut(s)	148
PshBI	ATTAAT	1 cut(s)	468
PspPI	GGNCC	2 cut(s)	50, 154
PstI	CTGCAG	1 cut(s)	12
PstNI	CAGNNNCTG	1 cut(s)	16
PsuI	RGATCY	1 cut(s)	13
RsaI	GTAC	1 cut(s)	80
RsaNI	GTAC	1 cut(s)	79
SaqAI	TTAA	3 cut(s)	392, 468, 533
SatI	GCNGC	2 cut(s)	5, 8
Sau3AI	GATC	3 cut(s)	13, 271, 352
Sau96I	GGNCC	2 cut(s)	50, 154
SetI	ASST	7 cut(s)	139, 190, 345, 392, 435, 492, 544
SfaNI	GCATC	2 cut(s)	165, 304
SfcI	CTRYAG	2 cut(s)	8, 279
SinI	GGWCC	1 cut(s)	154
SphI	GCATGC	1 cut(s)	409
Sse9I	AATT	4 cut(s)	28, 100, 164, 465
SspI	AATATT	1 cut(s)	207
SspMI	CTAG	4 cut(s)	297, 302, 308, 344
TaaI	ACNGT	2 cut(s)	83, 232
TaqI	TCGA	2 cut(s)	173, 492
TasI	AATT	4 cut(s)	28, 100, 164, 465
TatI	WGTACW	1 cut(s)	78
TfiI	GAWTC	3 cut(s)	257, 328, 545
Tru1I	TTAA	3 cut(s)	392, 468, 533
Tru9I	TTAA	3 cut(s)	392, 468, 533
TscAI	CASTG	2 cut(s)	88, 274
TseFI	GTSAC	1 cut(s)	424
TseI	GCWGC	2 cut(s)	4, 7
Tsp45I	GTSAC	1 cut(s)	424
TspDTI	ATGAA	2 cut(s)	170, 435
TspRI	CASTG	2 cut(s)	88, 274
Van91I	CCANNNNNTGG	2 cut(s)	47, 140
VpaK11BI	GGWCC	1 cut(s)	154
VspI	ATTAAT	1 cut(s)	468
XapI	RAATTY	2 cut(s)	28, 164
XceI	RCATGY	1 cut(s)	409
XcmI	CCANNNNNNNNNTGG	1 cut(s)	229
XspI	CTAG	4 cut(s)	297, 302, 308, 344

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