Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0015328

Physical Location & Seq

Genomic Coordinates Forward (+)

71016108 .. 71017753

Gene Structure 1646 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG488100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 522 bp

ATGCTAGAAAACCAATGCACCAACATGAAAGACCTCCAGAAAATCCATGCCCACCTCATCAAAACTGGCCTAGCCAATGACACAGTTGCCGCCAGCCGTGTCTTGGCCTTTTGTGCCTCCCCAGCCGGAAACATCAACTATGCCTACATGGTTTTCAGACATATCCAGAACCCAAACCTCTTCATCTGGAACACCATCATTAGAGGTTTCTCTAACAGCTCAAACCCTGAAGCTGCCATCTCTCTTTTCATTGACATGTTGGTCACTTCAGCTATCCAGCCACAAGGGTTGACTTACCCTTCAGTTTTCAAGGCTTACGCTCAAGTGGGTCTTGCCCGTGATGGAGCTCAGCTTCATGGGAGAGTTGTGAAGTTGGGTCTTGAAAGGGACCAGTTTATAAGGAACACCATCATACATATGTACTCAAACTGTGGCTTTTTGAGTGAAGCAAAAAGAGTGTTTGAAGAAGAGTTGGAATTTGACATTGTTGCATGGAATTCTATGGAAAAACCAGCATTTTAA

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

173

Amino Acids

19.43

Weight (kDa)

6.96

Isoelectric Point (pI)

37.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	58 - 107	2.5e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0015328)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42920 AT2G42920
fragaria_vesca	FvH4_6g38310
malus_domestica	MD09G1151200.v1.1 MD17G1138800.v1.1
prunus_persica	Prupe.3G173600_v2.0.a1
pyrus_communis	pycom17g13190
rosa_chinensis	RchiOBHm_Chr2g0151611
rosa_laevigata	RLG00000020563
rosa_multiflora	Rmu_sc0005287.1_g000006
rosa_roxburghii	Rroxscaffold_2G00096320
rosa_rugosa	Rorug02G0427200
rosa_samantha	Rh2AG488100 Rh2BG500700 Rh2CG474600
rosa_wichuraiana	Rw2G040010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	398
AasI	GACNNNNNNGTC	1 cut(s)	260
AciI	CCGC	1 cut(s)	90
AcsI	RAATTY	2 cut(s)	476, 496
AcuI	CTGAAG	3 cut(s)	249, 252, 285
AfaI	GTAC	1 cut(s)	422
AfiI	CCNNNNNNNGG	1 cut(s)	103
AflIII	ACRYGT	1 cut(s)	255
AgsI	TTSAA	3 cut(s)	310, 383, 464
AluBI	AGCT	5 cut(s)	219, 233, 272, 347, 352
AluI	AGCT	5 cut(s)	219, 233, 272, 347, 352
Alw21I	GWGCWC	1 cut(s)	349
AoxI	GGCC	2 cut(s)	67, 105
ApeKI	GCWGC	1 cut(s)	233
ApoI	RAATTY	2 cut(s)	476, 496
AspS9I	GGNCC	1 cut(s)	388
AvaII	GGWCC	1 cut(s)	388
BanII	GRGCYC	1 cut(s)	349
Bbv12I	GWGCWC	1 cut(s)	349
BbvI	GCAGC	1 cut(s)	220
BccI	CCATC	4 cut(s)	203, 245, 335, 416
BceAI	ACGGC	1 cut(s)	81
BfaI	CTAG	2 cut(s)	5, 71
BisI	GCNGC	2 cut(s)	90, 234
BlpI	GCTNAGC	1 cut(s)	348
BlsI	GCNGC	2 cut(s)	91, 235
Bme18I	GGWCC	1 cut(s)	388
BmgT120I	GGNCC	1 cut(s)	388
BmiI	GGNNCC	1 cut(s)	389
BpmI	CTGGAG	1 cut(s)	20
Bpu1102I	GCTNAGC	1 cut(s)	348
BpuEI	CTTGAG	1 cut(s)	306
Bsc4I	CCNNNNNNNGG	1 cut(s)	103
Bse1I	ACTGG	2 cut(s)	70, 391
BseLI	CCNNNNNNNGG	1 cut(s)	103
BseMII	CTCAG	1 cut(s)	362
BseNI	ACTGG	2 cut(s)	70, 391
BseXI	GCAGC	1 cut(s)	220
BseYI	CCCAGC	1 cut(s)	121
BshFI	GGCC	2 cut(s)	69, 107
BsiHKAI	GWGCWC	1 cut(s)	349
BsiSI	CCGG	1 cut(s)	126
BslFI	GGGAC	1 cut(s)	401
BslI	CCNNNNNNNGG	1 cut(s)	103
BsmFI	GGGAC	1 cut(s)	401
BsnI	GGCC	2 cut(s)	69, 107
Bsp1286I	GDGCHC	1 cut(s)	349
Bsp1720I	GCTNAGC	1 cut(s)	348
BspACI	CCGC	1 cut(s)	90
BspANI	GGCC	2 cut(s)	69, 107
BspCNI	CTCAG	1 cut(s)	361
BspLI	GGNNCC	1 cut(s)	389
BsrI	ACTGG	2 cut(s)	70, 391
Bst4CI	ACNGT	2 cut(s)	85, 431
Bst6I	CTCTTC	2 cut(s)	185, 462
BstC8I	GCNNGC	1 cut(s)	94
BstDEI	CTNAG	1 cut(s)	348
BstMWI	GCNNNNNNNGC	2 cut(s)	113, 122
BstNSI	RCATGY	1 cut(s)	259
BstV1I	GCAGC	1 cut(s)	220
BsuRI	GGCC	2 cut(s)	69, 107
Cac8I	GCNNGC	1 cut(s)	94
Cfr13I	GGNCC	1 cut(s)	388
Csp6I	GTAC	1 cut(s)	421
CspCI	CAANNNNNGTGG	2 cut(s)	270, 305
CviAII	CATG	6 cut(s)	25, 47, 148, 256, 356, 492
CviQI	GTAC	1 cut(s)	421
DdeI	CTNAG	1 cut(s)	348
DrdI	GACNNNNNNGTC	1 cut(s)	260
DseDI	GACNNNNNNGTC	1 cut(s)	260
Eam1104I	CTCTTC	2 cut(s)	185, 462
EarI	CTCTTC	2 cut(s)	185, 462
Ecl136II	GAGCTC	1 cut(s)	347
Eco24I	GRGCYC	1 cut(s)	349
Eco47I	GGWCC	1 cut(s)	388
Eco53kI	GAGCTC	1 cut(s)	347
Eco57I	CTGAAG	3 cut(s)	249, 252, 285
EcoICRI	GAGCTC	1 cut(s)	347
EcoRI	GAATTC	1 cut(s)	496
EcoT38I	GRGCYC	1 cut(s)	349
FaeI	CATG	6 cut(s)	28, 50, 151, 259, 359, 495
FalI	AAGNNNNNCTT	2 cut(s)	315, 347
FaqI	GGGAC	1 cut(s)	401
FatI	CATG	6 cut(s)	24, 46, 147, 255, 355, 491
FauNDI	CATATG	1 cut(s)	417
Fnu4HI	GCNGC	2 cut(s)	90, 234
FriOI	GRGCYC	1 cut(s)	349
Fsp4HI	GCNGC	2 cut(s)	90, 234
FspBI	CTAG	2 cut(s)	5, 71
GluI	GCNGC	2 cut(s)	90, 234
GsaI	CCCAGC	1 cut(s)	125
GsuI	CTGGAG	1 cut(s)	20
HaeIII	GGCC	2 cut(s)	69, 107
HapII	CCGG	1 cut(s)	126
Hin1II	CATG	6 cut(s)	28, 50, 151, 259, 359, 495
HincII	GTYRAC	1 cut(s)	291
HindII	GTYRAC	1 cut(s)	291
HpaII	CCGG	1 cut(s)	126
Hpy166II	GTNNAC	1 cut(s)	291
Hpy188I	TCNGA	1 cut(s)	158
Hpy188III	TCNNGA	4 cut(s)	37, 166, 187, 380
Hpy8I	GTNNAC	1 cut(s)	291
HpyAV	CCTTC	1 cut(s)	309
HpyCH4III	ACNGT	2 cut(s)	85, 431
HpyCH4V	TGCA	2 cut(s)	18, 491
HpyF10VI	GCNNNNNNNGC	2 cut(s)	113, 122
HpyF3I	CTNAG	1 cut(s)	348
Hsp92II	CATG	6 cut(s)	28, 50, 151, 259, 359, 495
LmnI	GCTCC	1 cut(s)	344
Lsp1109I	GCAGC	1 cut(s)	220
MaeI	CTAG	2 cut(s)	5, 71
MaeIII	GTNAC	1 cut(s)	262
MboII	GAAGA	3 cut(s)	172, 476, 479
MhlI	GDGCHC	1 cut(s)	349
MluCI	AATT	2 cut(s)	476, 496
MmeI	TCCRAC	1 cut(s)	453
MnlI	CCTC	5 cut(s)	44, 65, 127, 188, 197
MseI	TTAA	1 cut(s)	520
MslI	CAYNNNNRTG	3 cut(s)	23, 254, 416
MspI	CCGG	1 cut(s)	126
MwoI	GCNNNNNNNGC	2 cut(s)	113, 122
NdeI	CATATG	1 cut(s)	417
NlaIII	CATG	6 cut(s)	28, 50, 151, 259, 359, 495
NlaIV	GGNNCC	1 cut(s)	389
NmuCI	GTSAC	1 cut(s)	262
NspI	RCATGY	1 cut(s)	259
PciI	ACATGT	1 cut(s)	255
PkrI	GCNGC	2 cut(s)	91, 235
PscI	ACATGT	1 cut(s)	255
PsiI	TTATAA	1 cut(s)	398
Psp124BI	GAGCTC	1 cut(s)	349
PspFI	CCCAGC	1 cut(s)	121
PspN4I	GGNNCC	1 cut(s)	389
PspPI	GGNCC	1 cut(s)	388
RsaI	GTAC	1 cut(s)	422
RsaNI	GTAC	1 cut(s)	421
RseI	CAYNNNNRTG	3 cut(s)	23, 254, 416
SacI	GAGCTC	1 cut(s)	349
SaqAI	TTAA	1 cut(s)	520
SatI	GCNGC	2 cut(s)	90, 234
Sau96I	GGNCC	1 cut(s)	388
SduI	GDGCHC	1 cut(s)	349
SetI	ASST	9 cut(s)	36, 57, 180, 208, 221, 235, 274, 349, 354
SinI	GGWCC	1 cut(s)	388
SmiMI	CAYNNNNRTG	3 cut(s)	23, 254, 416
SmlI	CTYRAG	1 cut(s)	321
SmoI	CTYRAG	1 cut(s)	321
Sse9I	AATT	2 cut(s)	476, 496
SsiI	CCGC	1 cut(s)	90
SspMI	CTAG	2 cut(s)	5, 71
SstI	GAGCTC	1 cut(s)	349
TaaI	ACNGT	2 cut(s)	85, 431
TasI	AATT	2 cut(s)	476, 496
TatI	WGTACW	1 cut(s)	420
TauI	GCSGC	1 cut(s)	92
Tru1I	TTAA	1 cut(s)	520
Tru9I	TTAA	1 cut(s)	520
TseFI	GTSAC	1 cut(s)	262
TseI	GCWGC	1 cut(s)	233
Tsp45I	GTSAC	1 cut(s)	262
TspDTI	ATGAA	4 cut(s)	41, 172, 238, 344
VpaK11BI	GGWCC	1 cut(s)	388
XapI	RAATTY	2 cut(s)	476, 496
XceI	RCATGY	1 cut(s)	259
XcmI	CCANNNNNNNNNTGG	1 cut(s)	100
XspI	CTAG	2 cut(s)	5, 71

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