Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0018895

Physical Location & Seq

Genomic Coordinates Forward (+)

51330891 .. 51331634

Gene Structure 744 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG216500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGCTCATATCTCTGAGACCCAAATCCCTCACCAGCCTTCCACACCTTTCTGCCGCTTCACCTCTCAAATGGGTCTCCACAGCCACCACCCAAAACCCAGAGGACCATCTGCGTCTCTTCTTCAAATCCAGAACGAACCAAACCCACATCGACTACGAGCGCCAATTGGTCTCTGTTCTAAAATCTTGCGCAACCCTTTCGGCCCTCTTCCAAGGCCAGCAACTCCATTCCCTTGTTCTCAAGTCCGGTCTCGACTCCAACACTTTCATCAACAACAGTTTGATTAGCATGTACGCCAAATGCGGCTCCATTTCCGGCGCCGAATCGTTGTTCGGCTCTTGCTCTGAGCCGGACCCGGTTTCCTGTAACATTATGGTTGCTGGAAATGGGTTTTGGAGGGAGGCTGTTGAGGTTTTTAGGGATATGAGGAATGCCGGTGTGATGCCGAATGAGCTGACAATGGGGACTGTGATCTCGACGTTTTCGCATTTGGGTGGGATTTGGAATTGTCGAATGCTTCATGGTTTGGTGGTTAAGTTGCAGCTTGATGGAATGGTGCTTGTTTCGACGAATTTGGTGAAGGTGTATTGTGCTTGTAAGAGTGTGTGGGAAGCGAGAAGTTTGTTTGATGCGATGCCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

213

Amino Acids

23.42

Weight (kDa)

8.5

Isoelectric Point (pI)

38.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	117 - 162	5.4e-06	PPR repeat family

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: OG0018895)

Species	Orthologous Gene IDs
malus_domestica	MD16G1182800.v1.1
rosa_chinensis	RchiOBHm_Chr4g0418811
rosa_multiflora	Rmu_sc0000935.1_g000025 Rmu_sc0000935.1_g000032 Rmu_sc0006705.1_g000001 Rmu_sc0020345.1_g000004
rosa_samantha	Rh4AG216500 Rh4CG228500
rosa_wichuraiana	Rw4G018470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	190
AccB1I	GGYRCC	1 cut(s)	317
AciI	CCGC	2 cut(s)	54, 303
AcsI	RAATTY	1 cut(s)	571
AcyI	GRCGYC	1 cut(s)	318
AfaI	GTAC	1 cut(s)	293
AgsI	TTSAA	1 cut(s)	124
AjuI	GAANNNNNNNTTGG	2 cut(s)	376, 408
AluBI	AGCT	2 cut(s)	454, 544
AluI	AGCT	2 cut(s)	454, 544
Alw26I	GTCTC	5 cut(s)	10, 79, 119, 175, 254
AoxI	GGCC	2 cut(s)	201, 214
ApeKI	GCWGC	1 cut(s)	541
ApoI	RAATTY	1 cut(s)	571
AspLEI	GCGC	3 cut(s)	162, 191, 320
AspS9I	GGNCC	3 cut(s)	103, 202, 352
AsuC2I	CCSGG	1 cut(s)	356
AsuHPI	GGTGA	3 cut(s)	22, 51, 589
AvaII	GGWCC	2 cut(s)	103, 352
BanI	GGYRCC	1 cut(s)	317
BbvI	GCAGC	1 cut(s)	553
BccI	CCATC	2 cut(s)	114, 542
BcgI	CGANNNNNNTGC	2 cut(s)	180, 214
BcnI	CCSGG	1 cut(s)	356
BcoDI	GTCTC	5 cut(s)	10, 79, 119, 175, 254
BfoI	RGCGCY	2 cut(s)	163, 321
BisI	GCNGC	3 cut(s)	54, 304, 542
BlsI	GCNGC	3 cut(s)	55, 305, 543
Bme1390I	CCNGG	1 cut(s)	356
Bme18I	GGWCC	2 cut(s)	103, 352
BmgT120I	GGNCC	3 cut(s)	103, 202, 352
BmiI	GGNNCC	3 cut(s)	307, 319, 354
BmrFI	CCNGG	1 cut(s)	356
BmsI	GCATC	3 cut(s)	432, 619, 624
BpuEI	CTTGAG	1 cut(s)	224
BpuMI	CCSGG	1 cut(s)	356
BsaHI	GRCGYC	1 cut(s)	318
BsaI	GGTCTC	4 cut(s)	10, 79, 175, 254
BsaJI	CCNNGG	1 cut(s)	211
BsaWI	WCCGGW	1 cut(s)	245
Bse118I	RCCGGY	1 cut(s)	434
BseDI	CCNNGG	1 cut(s)	211
BseMII	CTCAG	2 cut(s)	5, 336
BseXI	GCAGC	1 cut(s)	553
BshFI	GGCC	2 cut(s)	203, 216
BshNI	GGYRCC	1 cut(s)	317
BsiSI	CCGG	5 cut(s)	246, 315, 350, 356, 435
BslFI	GGGAC	1 cut(s)	478
BsmAI	GTCTC	5 cut(s)	10, 79, 119, 175, 254
BsmBI	CGTCTC	1 cut(s)	119
BsmFI	GGGAC	1 cut(s)	478
BsmI	GAATGC	2 cut(s)	436, 519
BsnI	GGCC	2 cut(s)	203, 216
Bso31I	GGTCTC	4 cut(s)	10, 79, 175, 254
Bsp143I	GATC	1 cut(s)	471
BspACI	CCGC	2 cut(s)	54, 303
BspANI	GGCC	2 cut(s)	203, 216
BspCNI	CTCAG	2 cut(s)	6, 337
BspLI	GGNNCC	3 cut(s)	307, 319, 354
BspT107I	GGYRCC	1 cut(s)	317
BspTNI	GGTCTC	4 cut(s)	10, 79, 175, 254
BsrFI	RCCGGY	1 cut(s)	434
BssAI	RCCGGY	1 cut(s)	434
BssECI	CCNNGG	1 cut(s)	211
BssMI	GATC	1 cut(s)	471
BssNI	GRCGYC	1 cut(s)	318
BssT1I	CCWWGG	1 cut(s)	211
Bst4CI	ACNGT	2 cut(s)	278, 469
Bst6I	CTCTTC	2 cut(s)	122, 212
BstACI	GRCGYC	1 cut(s)	318
BstC8I	GCNNGC	1 cut(s)	218
BstDEI	CTNAG	2 cut(s)	14, 345
BstH2I	RGCGCY	2 cut(s)	163, 321
BstHHI	GCGC	3 cut(s)	162, 191, 320
BstKTI	GATC	1 cut(s)	474
BstMAI	GTCTC	5 cut(s)	10, 79, 119, 175, 254
BstMBI	GATC	1 cut(s)	471
BstMWI	GCNNNNNNNGC	1 cut(s)	451
BstNSI	RCATGY	1 cut(s)	292
BstSCI	CCNGG	1 cut(s)	354
BstV1I	GCAGC	1 cut(s)	553
BsuRI	GGCC	2 cut(s)	203, 216
Cac8I	GCNNGC	1 cut(s)	218
CfoI	GCGC	3 cut(s)	162, 191, 320
Cfr10I	RCCGGY	1 cut(s)	434
Cfr13I	GGNCC	3 cut(s)	103, 202, 352
CseI	GACGC	1 cut(s)	101
Csp6I	GTAC	1 cut(s)	292
CviAII	CATG	2 cut(s)	289, 521
CviQI	GTAC	1 cut(s)	292
DdeI	CTNAG	2 cut(s)	14, 345
DinI	GGCGCC	1 cut(s)	319
DpnI	GATC	1 cut(s)	473
DpnII	GATC	1 cut(s)	471
Eam1104I	CTCTTC	2 cut(s)	122, 212
EarI	CTCTTC	2 cut(s)	122, 212
Eco130I	CCWWGG	1 cut(s)	211
Eco31I	GGTCTC	4 cut(s)	10, 79, 175, 254
Eco47I	GGWCC	2 cut(s)	103, 352
EcoT14I	CCWWGG	1 cut(s)	211
EgeI	GGCGCC	1 cut(s)	319
EheI	GGCGCC	1 cut(s)	319
ErhI	CCWWGG	1 cut(s)	211
Esp3I	CGTCTC	1 cut(s)	119
FaeI	CATG	2 cut(s)	292, 524
FaiI	YATR	5 cut(s)	8, 290, 374, 425, 522
FaqI	GGGAC	1 cut(s)	478
FatI	CATG	2 cut(s)	288, 520
Fnu4HI	GCNGC	3 cut(s)	54, 304, 542
Fsp4HI	GCNGC	3 cut(s)	54, 304, 542
FspI	TGCGCA	1 cut(s)	190
GlaI	GCGC	3 cut(s)	161, 190, 319
GluI	GCNGC	3 cut(s)	54, 304, 542
HaeII	RGCGCY	2 cut(s)	163, 321
HaeIII	GGCC	2 cut(s)	203, 216
HapII	CCGG	5 cut(s)	246, 315, 350, 356, 435
HgaI	GACGC	1 cut(s)	101
HhaI	GCGC	3 cut(s)	162, 191, 320
Hin1I	GRCGYC	1 cut(s)	318
Hin1II	CATG	2 cut(s)	292, 524
Hin6I	GCGC	3 cut(s)	160, 189, 318
HinP1I	GCGC	3 cut(s)	160, 189, 318
HinfI	GANTC	2 cut(s)	254, 323
HpaII	CCGG	5 cut(s)	246, 315, 350, 356, 435
HphI	GGTGA	3 cut(s)	22, 51, 589
Hpy188I	TCNGA	2 cut(s)	15, 346
Hpy188III	TCNNGA	3 cut(s)	129, 251, 475
Hpy99I	CGWCG	2 cut(s)	481, 571
HpyAV	CCTTC	2 cut(s)	47, 574
HpyCH4III	ACNGT	2 cut(s)	278, 469
HpyCH4IV	ACGT	1 cut(s)	479
HpyCH4V	TGCA	1 cut(s)	541
HpyF10VI	GCNNNNNNNGC	1 cut(s)	451
HpyF3I	CTNAG	2 cut(s)	14, 345
HpySE526I	ACGT	1 cut(s)	479
Hsp92I	GRCGYC	1 cut(s)	318
Hsp92II	CATG	2 cut(s)	292, 524
HspAI	GCGC	3 cut(s)	160, 189, 318
KasI	GGCGCC	1 cut(s)	317
Kzo9I	GATC	1 cut(s)	471
LmnI	GCTCC	1 cut(s)	311
Lsp1109I	GCAGC	1 cut(s)	553
LweI	GCATC	3 cut(s)	432, 619, 624
MaeII	ACGT	1 cut(s)	479
MaeIII	GTNAC	1 cut(s)	365
MalI	GATC	1 cut(s)	473
MboI	GATC	1 cut(s)	471
MboII	GAAGA	3 cut(s)	109, 112, 199
MfeI	CAATTG	1 cut(s)	164
MluCI	AATT	3 cut(s)	164, 505, 571
Mly113I	GGCGCC	1 cut(s)	318
MlyI	GAGTC	1 cut(s)	248
MmeI	TCCRAC	1 cut(s)	282
MnlI	CCTC	8 cut(s)	38, 72, 94, 215, 390, 394, 403, 420
MseI	TTAA	1 cut(s)	534
MslI	CAYNNNNRTG	1 cut(s)	492
MspI	CCGG	5 cut(s)	246, 315, 350, 356, 435
MspR9I	CCNGG	1 cut(s)	356
MunI	CAATTG	1 cut(s)	164
Mva1269I	GAATGC	2 cut(s)	436, 519
MwoI	GCNNNNNNNGC	1 cut(s)	451
NarI	GGCGCC	1 cut(s)	318
NciI	CCSGG	1 cut(s)	356
NdeII	GATC	1 cut(s)	471
NlaIII	CATG	2 cut(s)	292, 524
NlaIV	GGNNCC	3 cut(s)	307, 319, 354
NsbI	TGCGCA	1 cut(s)	190
NspI	RCATGY	1 cut(s)	292
PctI	GAATGC	2 cut(s)	436, 519
PfeI	GAWTC	1 cut(s)	323
PkrI	GCNGC	3 cut(s)	55, 305, 543
PleI	GAGTC	1 cut(s)	248
PluTI	GGCGCC	1 cut(s)	321
PpsI	GAGTC	1 cut(s)	248
PspN4I	GGNNCC	3 cut(s)	307, 319, 354
PspPI	GGNCC	3 cut(s)	103, 202, 352
RsaI	GTAC	1 cut(s)	293
RsaNI	GTAC	1 cut(s)	292
RseI	CAYNNNNRTG	1 cut(s)	492
SaqAI	TTAA	1 cut(s)	534
SatI	GCNGC	3 cut(s)	54, 304, 542
Sau3AI	GATC	1 cut(s)	471
Sau96I	GGNCC	3 cut(s)	103, 202, 352
SchI	GAGTC	1 cut(s)	248
ScrFI	CCNGG	1 cut(s)	356
SetI	ASST	7 cut(s)	48, 64, 414, 456, 482, 546, 585
SfaNI	GCATC	3 cut(s)	432, 619, 624
SfoI	GGCGCC	1 cut(s)	319
SinI	GGWCC	2 cut(s)	103, 352
SmiMI	CAYNNNNRTG	1 cut(s)	492
SmlI	CTYRAG	1 cut(s)	239
SmoI	CTYRAG	1 cut(s)	239
Sse9I	AATT	3 cut(s)	164, 505, 571
SsiI	CCGC	2 cut(s)	54, 303
SspDI	GGCGCC	1 cut(s)	317
StyD4I	CCNGG	1 cut(s)	354
StyI	CCWWGG	1 cut(s)	211
TaaI	ACNGT	2 cut(s)	278, 469
TaiI	ACGT	1 cut(s)	482
TaqI	TCGA	5 cut(s)	150, 252, 476, 511, 566
TasI	AATT	3 cut(s)	164, 505, 571
TauI	GCSGC	2 cut(s)	56, 306
TfiI	GAWTC	1 cut(s)	323
Tru1I	TTAA	1 cut(s)	534
Tru9I	TTAA	1 cut(s)	534
TseI	GCWGC	1 cut(s)	541
TspDTI	ATGAA	2 cut(s)	256, 509
VpaK11BI	GGWCC	2 cut(s)	103, 352
XapI	RAATTY	1 cut(s)	571
XceI	RCATGY	1 cut(s)	292

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