Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0024612

Physical Location & Seq

Genomic Coordinates Forward (+)

54606698 .. 54607255

Gene Structure 558 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG428900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGATGAATGTATATGCTACTGGAGGACTTTATCAAGAAGCTGAGAAATTATTCAAAGCCATGAAGCAAGATGGTTGGTTACCTGACTCATTCACTTACCTCTCCCTAGTTCGAGCTTACACAGAGAATTTGAAATATTCAGAAGCAGAGGAAACCATTAATTCTATGCAAGAAGACGGTGTCTATCCTTCATGTTCACATTTTAACCTCATTCTCTCTGCTTTTGCCAAAATGGGATTGATAGGGGAAGCAGAAAGAGTTTATGAGGAACTACTTGCAGCAGGTTTAAGCCCAGATGCAGCTTGTTATGGGACTATGCTGCGAGGTTACATGGACTACGGACACGTGGAAGAAGGCATCAAGTTCTATGAACAAATAAGTGAGTCTATAAAGGCAGACAGGTTTATTTTGAGTGCAGCTGTGCATTTTTACAGATCTGTAGGAAAGGAAGTAGAAGCTCAGAGTGTTTTGCATTCCATGAGTAGCATGGGAATTTCATTTCTGGAGAACCTAGAAGTTGGATCCAAGCTAAAATCTCCGCCAATGTTGCAGAACTGA

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 PPR_3

Protein Analysis

185

Amino Acids

20.69

Weight (kDa)

4.85

Isoelectric Point (pI)

47.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 40	1.1e-07	PPR repeat family
PPR_long	PF17177	13 - 130	1.7e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	16 - 77	8.4e-10	Pentatricopeptide repeat domain
PPR_2	PF13041	67 - 110	1.2e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0024612)

Species	Orthologous Gene IDs
pyrus_communis	pycom01g24340
rosa_multiflora	Rmu_co8286693.1_g000001
rosa_samantha	Rh1BG428900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	272
AciI	CCGC	1 cut(s)	539
AclWI	GGATC	2 cut(s)	516, 529
AcsI	RAATTY	2 cut(s)	127, 492
AcvI	CACGTG	1 cut(s)	346
AflIII	ACRYGT	1 cut(s)	343
AgsI	TTSAA	2 cut(s)	55, 133
AluBI	AGCT	6 cut(s)	41, 116, 302, 419, 458, 529
AluI	AGCT	6 cut(s)	41, 116, 302, 419, 458, 529
AlwI	GGATC	2 cut(s)	516, 529
ApeKI	GCWGC	4 cut(s)	278, 299, 319, 416
ApoI	RAATTY	2 cut(s)	127, 492
AseI	ATTAAT	1 cut(s)	159
Asp700I	GAANNNNTTC	1 cut(s)	50
BamHI	GGATCC	1 cut(s)	521
BbrPI	CACGTG	1 cut(s)	346
BbsI	GAAGAC	1 cut(s)	180
BbvI	GCAGC	4 cut(s)	290, 306, 311, 428
BccI	CCATC	1 cut(s)	65
BfaI	CTAG	2 cut(s)	107, 512
BfmI	CTRYAG	1 cut(s)	438
BfuAI	ACCTGC	1 cut(s)	272
BglII	AGATCT	1 cut(s)	434
BisI	GCNGC	4 cut(s)	279, 300, 320, 417
BlsI	GCNGC	4 cut(s)	280, 301, 321, 418
BmiI	GGNNCC	1 cut(s)	523
BmsI	GCATC	2 cut(s)	286, 366
BpiI	GAAGAC	1 cut(s)	180
BpmI	CTGGAG	2 cut(s)	42, 524
BsaAI	YACGTR	1 cut(s)	346
Bse1I	ACTGG	1 cut(s)	25
BseMII	CTCAG	2 cut(s)	33, 473
BseNI	ACTGG	1 cut(s)	25
BseXI	GCAGC	4 cut(s)	290, 306, 311, 428
BsgI	GTGCAG	1 cut(s)	435
BslFI	GGGAC	1 cut(s)	325
BsmFI	GGGAC	1 cut(s)	325
BsmI	GAATGC	1 cut(s)	472
Bsp143I	GATC	2 cut(s)	434, 521
BspACI	CCGC	1 cut(s)	539
BspCNI	CTCAG	2 cut(s)	34, 472
BspLI	GGNNCC	1 cut(s)	523
BspMI	ACCTGC	1 cut(s)	272
BspPI	GGATC	2 cut(s)	516, 529
BsrI	ACTGG	1 cut(s)	25
BssMI	GATC	2 cut(s)	434, 521
Bst4CI	ACNGT	1 cut(s)	179
BstBAI	YACGTR	1 cut(s)	346
BstDEI	CTNAG	2 cut(s)	42, 459
BstEII	GGTNACC	1 cut(s)	78
BstKTI	GATC	2 cut(s)	437, 524
BstMBI	GATC	2 cut(s)	434, 521
BstMWI	GCNNNNNNNGC	1 cut(s)	547
BstPI	GGTNACC	1 cut(s)	78
BstSFI	CTRYAG	1 cut(s)	438
BstV1I	GCAGC	4 cut(s)	290, 306, 311, 428
BstV2I	GAAGAC	1 cut(s)	180
BstX2I	RGATCY	2 cut(s)	434, 521
BstYI	RGATCY	2 cut(s)	434, 521
BveI	ACCTGC	1 cut(s)	272
CviAII	CATG	5 cut(s)	61, 192, 331, 478, 487
CviJI	RGCY	8 cut(s)	41, 59, 116, 291, 302, 419, 458, 529
CviKI_1	RGCY	8 cut(s)	41, 59, 116, 291, 302, 419, 458, 529
DdeI	CTNAG	2 cut(s)	42, 459
DpnI	GATC	2 cut(s)	436, 523
DpnII	GATC	2 cut(s)	434, 521
EciI	GGCGGA	1 cut(s)	528
Eco72I	CACGTG	1 cut(s)	346
Eco91I	GGTNACC	1 cut(s)	78
EcoO65I	GGTNACC	1 cut(s)	78
FaeI	CATG	5 cut(s)	64, 195, 334, 481, 490
FaqI	GGGAC	1 cut(s)	325
FatI	CATG	5 cut(s)	60, 191, 330, 477, 486
Fnu4HI	GCNGC	4 cut(s)	279, 300, 320, 417
Fsp4HI	GCNGC	4 cut(s)	279, 300, 320, 417
FspBI	CTAG	2 cut(s)	107, 512
GluI	GCNGC	4 cut(s)	279, 300, 320, 417
GsuI	CTGGAG	2 cut(s)	42, 524
Hin1II	CATG	5 cut(s)	64, 195, 334, 481, 490
HinfI	GANTC	2 cut(s)	86, 383
Hpy166II	GTNNAC	1 cut(s)	197
Hpy188I	TCNGA	2 cut(s)	142, 462
Hpy188III	TCNNGA	2 cut(s)	35, 503
Hpy8I	GTNNAC	1 cut(s)	197
HpyAV	CCTTC	2 cut(s)	198, 347
HpyCH4III	ACNGT	1 cut(s)	179
HpyCH4IV	ACGT	1 cut(s)	345
HpyCH4V	TGCA	7 cut(s)	169, 278, 299, 416, 424, 472, 550
HpyF10VI	GCNNNNNNNGC	1 cut(s)	547
HpyF3I	CTNAG	2 cut(s)	42, 459
HpySE526I	ACGT	1 cut(s)	345
Hsp92II	CATG	5 cut(s)	64, 195, 334, 481, 490
Kzo9I	GATC	2 cut(s)	434, 521
LpnPI	CCDG	6 cut(s)	6, 96, 267, 306, 385, 488
Lsp1109I	GCAGC	4 cut(s)	290, 306, 311, 428
LweI	GCATC	2 cut(s)	286, 366
MaeI	CTAG	2 cut(s)	107, 512
MaeII	ACGT	1 cut(s)	345
MaeIII	GTNAC	2 cut(s)	78, 326
MalI	GATC	2 cut(s)	436, 523
MboI	GATC	2 cut(s)	434, 521
MboII	GAAGA	2 cut(s)	185, 362
MflI	RGATCY	2 cut(s)	434, 521
MluCI	AATT	4 cut(s)	47, 127, 160, 492
MlyI	GAGTC	2 cut(s)	80, 392
MmeI	TCCRAC	1 cut(s)	499
MnlI	CCTC	6 cut(s)	17, 110, 142, 218, 259, 317
MroXI	GAANNNNTTC	1 cut(s)	50
MseI	TTAA	3 cut(s)	159, 204, 287
MspA1I	CMGCKG	1 cut(s)	419
Mva1269I	GAATGC	1 cut(s)	472
MwoI	GCNNNNNNNGC	1 cut(s)	547
NdeII	GATC	2 cut(s)	434, 521
NlaIII	CATG	5 cut(s)	64, 195, 334, 481, 490
NlaIV	GGNNCC	1 cut(s)	523
PctI	GAATGC	1 cut(s)	472
PdmI	GAANNNNTTC	1 cut(s)	50
PflFI	GACNNNGTC	1 cut(s)	179
PkrI	GCNGC	4 cut(s)	280, 301, 321, 418
PleI	GAGTC	2 cut(s)	80, 391
PmaCI	CACGTG	1 cut(s)	346
PmlI	CACGTG	1 cut(s)	346
PpsI	GAGTC	2 cut(s)	80, 391
Ppu21I	YACGTR	1 cut(s)	346
PshBI	ATTAAT	1 cut(s)	159
PspCI	CACGTG	1 cut(s)	346
PspEI	GGTNACC	1 cut(s)	78
PspN4I	GGNNCC	1 cut(s)	523
PsuI	RGATCY	2 cut(s)	434, 521
PsyI	GACNNNGTC	1 cut(s)	179
PvuII	CAGCTG	1 cut(s)	419
SaqAI	TTAA	3 cut(s)	159, 204, 287
SatI	GCNGC	4 cut(s)	279, 300, 320, 417
Sau3AI	GATC	2 cut(s)	434, 521
SchI	GAGTC	2 cut(s)	80, 392
SfaNI	GCATC	2 cut(s)	286, 366
SfcI	CTRYAG	1 cut(s)	438
Sse9I	AATT	4 cut(s)	47, 127, 160, 492
SsiI	CCGC	1 cut(s)	539
SspI	AATATT	1 cut(s)	137
SspMI	CTAG	2 cut(s)	107, 512
TaaI	ACNGT	1 cut(s)	179
TaiI	ACGT	1 cut(s)	348
TaqI	TCGA	1 cut(s)	112
TasI	AATT	4 cut(s)	47, 127, 160, 492
Tru1I	TTAA	3 cut(s)	159, 204, 287
Tru9I	TTAA	3 cut(s)	159, 204, 287
TseI	GCWGC	4 cut(s)	278, 299, 319, 416
TspDTI	ATGAA	5 cut(s)	20, 77, 180, 384, 486
TspGWI	ACGGA	1 cut(s)	354
Tth111I	GACNNNGTC	1 cut(s)	179
VspI	ATTAAT	1 cut(s)	159
XapI	RAATTY	2 cut(s)	127, 492
XcmI	CCANNNNNNNNNTGG	1 cut(s)	484
XmnI	GAANNNNTTC	1 cut(s)	50
XspI	CTAG	2 cut(s)	107, 512

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