Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Reverse (-)

10923782 .. 10925034

Gene Structure 1253 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG061800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGCCCTCTCTCTCCTCCCCATCTCTGACTCTGCCGCCCAAACCTAACAAACGCCTCCTCCCCAACAAGCACAACAAGCCTTCCTGCCTCGTCCAATCCATCCTCAACCTCTGCTCCCAAGGCCAGCTCTCCCAAGCCGTCTCGTCCCTCGACATCTTATTCCGAAAAGGGATTCGCTTGCCCACCAAGTCTCTCGCTTTTCTACTGCAGCATTGCGGAGACGCTCGGTCCCTCAGAGAAGGCAAATGGGTTCACTTGTATTTGAGGCTCACCGGATTCAAACGCCCGCCTTTGCTTTTGGCTAACCATTTGATTGGGATGTACTTCAAATGCGGCGATGAGGTTGATGCACGCATGGTGTTTGATAAAATGTTTGTGAGGAATTTGTACTCGTGGAACAATATGTTATCTGGGCATGTGAAGATGAGGAATCTGAAGGAGGCCCGGAGCTTGTTTGATAAAATGCCTGAGAGGGATGTTGTGTCCTGGAACACCATGGTGATTGGTTATGCCCAGAGTGGGGATTGTAATGAGGCTTTGAGGTTTTATAGAGAGTTGCGGAGGTCGCCGGTTGGGTTGAATGAGTTTAGTTTTGCAGATGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

201

Amino Acids

23.0

Weight (kDa)

9.85

Isoelectric Point (pI)

67.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	128 - 159	8.6e-06	PPR repeat family
PPR	PF01535	130 - 159	2.8e-07	PPR repeat
PPR_2	PF13041	158 - 198	1.9e-06	PPR repeat family
PPR	PF01535	161 - 189	9.4e-07	PPR repeat

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)

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Publication-ready

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Orthologous Genes (Group: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	5 cut(s)	35, 216, 287, 333, 559
AcsI	RAATTY	1 cut(s)	382
AcuI	CTGAAG	1 cut(s)	455
AfaI	GTAC	2 cut(s)	323, 389
AfiI	CCNNNNNNNGG	2 cut(s)	519, 520
AgsI	TTSAA	3 cut(s)	280, 328, 580
AhdI	GACNNNNNGTC	1 cut(s)	226
AjnI	CCWGG	1 cut(s)	485
AleI	CACNNNNGTG	1 cut(s)	497
AluBI	AGCT	2 cut(s)	127, 450
AluI	AGCT	2 cut(s)	127, 450
Alw26I	GTCTC	3 cut(s)	145, 195, 213
AoxI	GGCC	2 cut(s)	121, 441
ApeKI	GCWGC	1 cut(s)	208
ApoI	RAATTY	1 cut(s)	382
AspS9I	GGNCC	2 cut(s)	228, 442
AsuC2I	CCSGG	1 cut(s)	445
AsuHPI	GGTGA	2 cut(s)	262, 511
AvaII	GGWCC	1 cut(s)	228
BauI	CACGAG	1 cut(s)	391
BbvI	GCAGC	1 cut(s)	220
BccI	CCATC	2 cut(s)	28, 107
BceAI	ACGGC	1 cut(s)	122
BciT130I	CCWGG	1 cut(s)	487
BcnI	CCSGG	1 cut(s)	445
BcoDI	GTCTC	3 cut(s)	145, 195, 213
BfmI	CTRYAG	1 cut(s)	206
BisI	GCNGC	3 cut(s)	35, 209, 334
BlsI	GCNGC	3 cut(s)	36, 210, 335
Bme1390I	CCNGG	2 cut(s)	445, 487
Bme18I	GGWCC	1 cut(s)	228
BmeRI	GACNNNNNGTC	1 cut(s)	226
BmgT120I	GGNCC	2 cut(s)	228, 442
BmiI	GGNNCC	1 cut(s)	230
BmrFI	CCNGG	2 cut(s)	445, 487
BmsI	GCATC	1 cut(s)	337
BpuMI	CCSGG	1 cut(s)	445
BsaJI	CCNNGG	2 cut(s)	118, 495
BsaWI	WCCGGW	1 cut(s)	272
BsaXI	ACNNNNNCTCC	4 cut(s)	42, 72, 98, 128
Bsc4I	CCNNNNNNNGG	2 cut(s)	519, 520
Bse118I	RCCGGY	1 cut(s)	568
Bse3DI	GCAATG	1 cut(s)	211
BseBI	CCWGG	1 cut(s)	487
BseDI	CCNNGG	2 cut(s)	118, 495
BseGI	GGATG	3 cut(s)	99, 324, 481
BseLI	CCNNNNNNNGG	2 cut(s)	519, 520
BseMI	GCAATG	1 cut(s)	211
BseMII	CTCAG	2 cut(s)	247, 459
BseRI	GAGGAG	2 cut(s)	4, 47
BseXI	GCAGC	1 cut(s)	220
BshFI	GGCC	2 cut(s)	123, 443
BsiSI	CCGG	3 cut(s)	273, 445, 569
BslFI	GGGAC	2 cut(s)	130, 214
BslI	CCNNNNNNNGG	2 cut(s)	519, 520
BsmAI	GTCTC	3 cut(s)	145, 195, 213
BsmBI	CGTCTC	2 cut(s)	145, 213
BsmFI	GGGAC	2 cut(s)	130, 214
BsnI	GGCC	2 cut(s)	123, 443
Bsp19I	CCATGG	1 cut(s)	495
BspACI	CCGC	5 cut(s)	35, 216, 287, 333, 559
BspANI	GGCC	2 cut(s)	123, 443
BspCNI	CTCAG	2 cut(s)	246, 460
BspLI	GGNNCC	1 cut(s)	230
BspMAI	CTGCAG	1 cut(s)	210
BsrDI	GCAATG	1 cut(s)	211
BsrFI	RCCGGY	1 cut(s)	568
BssAI	RCCGGY	1 cut(s)	568
BssECI	CCNNGG	2 cut(s)	118, 495
BssSI	CACGAG	1 cut(s)	391
BssT1I	CCWWGG	2 cut(s)	118, 495
Bst2BI	CACGAG	1 cut(s)	391
Bst2UI	CCWGG	1 cut(s)	487
BstC8I	GCNNGC	4 cut(s)	125, 179, 287, 352
BstDEI	CTNAG	2 cut(s)	233, 468
BstDSI	CCRYGG	1 cut(s)	495
BstF5I	GGATG	3 cut(s)	99, 324, 481
BstMAI	GTCTC	3 cut(s)	145, 195, 213
BstMWI	GCNNNNNNNGC	3 cut(s)	76, 120, 565
BstNI	CCWGG	1 cut(s)	487
BstNSI	RCATGY	1 cut(s)	419
BstSCI	CCNGG	2 cut(s)	443, 485
BstSFI	CTRYAG	1 cut(s)	206
BstV1I	GCAGC	1 cut(s)	220
BstXI	CCANNNNNNTGG	1 cut(s)	314
BsuRI	GGCC	2 cut(s)	123, 443
BtgI	CCRYGG	1 cut(s)	495
BtgZI	GCGATG	1 cut(s)	351
BtsCI	GGATG	3 cut(s)	99, 324, 481
Cac8I	GCNNGC	4 cut(s)	125, 179, 287, 352
Cfr10I	RCCGGY	1 cut(s)	568
Cfr13I	GGNCC	2 cut(s)	228, 442
CseI	GACGC	1 cut(s)	230
Csp6I	GTAC	2 cut(s)	322, 388
CviAII	CATG	3 cut(s)	355, 416, 496
CviJI	RGCY	9 cut(s)	79, 123, 127, 137, 268, 302, 443, 450, 536
CviKI_1	RGCY	9 cut(s)	79, 123, 127, 137, 268, 302, 443, 450, 536
CviQI	GTAC	2 cut(s)	322, 388
DdeI	CTNAG	2 cut(s)	233, 468
DriI	GACNNNNNGTC	1 cut(s)	226
Eam1105I	GACNNNNNGTC	1 cut(s)	226
Eco130I	CCWWGG	2 cut(s)	118, 495
Eco47I	GGWCC	1 cut(s)	228
Eco57I	CTGAAG	1 cut(s)	455
EcoRII	CCWGG	1 cut(s)	485
EcoT14I	CCWWGG	2 cut(s)	118, 495
ErhI	CCWWGG	2 cut(s)	118, 495
Esp3I	CGTCTC	2 cut(s)	145, 213
FaeI	CATG	3 cut(s)	358, 419, 499
FaiI	YATR	6 cut(s)	356, 404, 417, 497, 510, 549
FaqI	GGGAC	2 cut(s)	130, 214
FatI	CATG	3 cut(s)	354, 415, 495
FauI	CCCGC	1 cut(s)	294
Fnu4HI	GCNGC	3 cut(s)	35, 209, 334
FokI	GGATG	3 cut(s)	86, 331, 488
Fsp4HI	GCNGC	3 cut(s)	35, 209, 334
GluI	GCNGC	3 cut(s)	35, 209, 334
HaeIII	GGCC	2 cut(s)	123, 443
HapII	CCGG	3 cut(s)	273, 445, 569
HgaI	GACGC	1 cut(s)	230
Hin1II	CATG	3 cut(s)	358, 419, 499
HinfI	GANTC	4 cut(s)	28, 172, 276, 430
HpaII	CCGG	3 cut(s)	273, 445, 569
HphI	GGTGA	2 cut(s)	262, 511
Hpy166II	GTNNAC	1 cut(s)	253
Hpy188I	TCNGA	4 cut(s)	27, 164, 236, 435
Hpy8I	GTNNAC	1 cut(s)	253
HpyAV	CCTTC	3 cut(s)	90, 233, 430
HpyCH4V	TGCA	3 cut(s)	208, 350, 596
HpyF10VI	GCNNNNNNNGC	3 cut(s)	76, 120, 565
HpyF3I	CTNAG	2 cut(s)	233, 468
Hsp92II	CATG	3 cut(s)	358, 419, 499
LmnI	GCTCC	2 cut(s)	119, 447
Lsp1109I	GCAGC	1 cut(s)	220
LweI	GCATC	1 cut(s)	337
MboII	GAAGA	1 cut(s)	433
MluCI	AATT	1 cut(s)	382
MlyI	GAGTC	1 cut(s)	22
MslI	CAYNNNNRTG	1 cut(s)	497
MspI	CCGG	3 cut(s)	273, 445, 569
MspR9I	CCNGG	2 cut(s)	445, 487
MvaI	CCWGG	1 cut(s)	487
MwoI	GCNNNNNNNGC	3 cut(s)	76, 120, 565
NciI	CCSGG	1 cut(s)	445
NcoI	CCATGG	1 cut(s)	495
NlaIII	CATG	3 cut(s)	358, 419, 499
NlaIV	GGNNCC	1 cut(s)	230
NspI	RCATGY	1 cut(s)	419
OliI	CACNNNNGTG	1 cut(s)	497
PfeI	GAWTC	3 cut(s)	172, 276, 430
PfoI	TCCNGGA	1 cut(s)	485
PkrI	GCNGC	3 cut(s)	36, 210, 335
PleI	GAGTC	1 cut(s)	22
PpsI	GAGTC	1 cut(s)	22
Psp6I	CCWGG	1 cut(s)	485
PspGI	CCWGG	1 cut(s)	485
PspN4I	GGNNCC	1 cut(s)	230
PspPI	GGNCC	2 cut(s)	228, 442
PstI	CTGCAG	1 cut(s)	210
RsaI	GTAC	2 cut(s)	323, 389
RsaNI	GTAC	2 cut(s)	322, 388
RseI	CAYNNNNRTG	1 cut(s)	497
SatI	GCNGC	3 cut(s)	35, 209, 334
Sau96I	GGNCC	2 cut(s)	228, 442
SchI	GAGTC	1 cut(s)	22
ScrFI	CCNGG	2 cut(s)	445, 487
SetI	ASST	7 cut(s)	46, 111, 129, 345, 452, 545, 566
SfaNI	GCATC	1 cut(s)	337
SfcI	CTRYAG	1 cut(s)	206
SinI	GGWCC	1 cut(s)	228
SmiMI	CAYNNNNRTG	1 cut(s)	497
Sse9I	AATT	1 cut(s)	382
SsiI	CCGC	5 cut(s)	35, 216, 287, 333, 559
StyD4I	CCNGG	2 cut(s)	443, 485
StyI	CCWWGG	2 cut(s)	118, 495
TaqI	TCGA	1 cut(s)	150
TaqII	GACCGA	1 cut(s)	216
TasI	AATT	1 cut(s)	382
TatI	WGTACW	2 cut(s)	321, 387
TauI	GCSGC	2 cut(s)	37, 336
TfiI	GAWTC	3 cut(s)	172, 276, 430
TseI	GCWGC	1 cut(s)	208
VpaK11BI	GGWCC	1 cut(s)	228
XapI	RAATTY	1 cut(s)	382
XceI	RCATGY	1 cut(s)	419

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