Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0014350

Physical Location & Seq

Genomic Coordinates Forward (+)

623753 .. 624361

Gene Structure 609 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG007300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 609 bp

ATGAGAACAAAAGGTTGTACAATTTCTTCTCCTACTGCAAAAACTTATGCAATCATGATTGTGGCGCTTGTGGAGAATGACAGAATGGAGGAGTGCTTCAAACTTCTGGGACATATGATAAGTAGTGGCTGCCTTCCTGATGTTTCTACATACAAGGAACTACTCGAAGGGATGTGTTTGGCTGGAAAGGTCGAGGAGGCCTACAAGTTCTTGCAGGAGATGGGAAACAAAGGTTACCCTCCCGATGTAGTTACTTATAATTGTTTTCTAAAGGTGCTATGTGAGAATAAAAAGGGTGATGAAGCACTGAAGCTTTACGGGAGAATGATAGATATAGGTTGTATGCCTAGTGTGCAGACTTATAATATGTTGATTTCAATGTACTTTGAGATGGGTGATCCTGATGGGGCATTTGAGACTTGGCATGAGATGGATAAGAGGGGCTGTGCACAGGACACTGATACTTATTGCATGATGATTGAAGGGCTTTTCGGTTGCAATAAAGTGGAAGATGCGTGTTGTCTCTTGGAGGATGTGGTGAACAAGGGAATGAAATTGCCATATACCAAGTTTGACTCCTTTCTAATGCAGCTTTCTGTCATTCTGTGA

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

202

Amino Acids

22.77

Weight (kDa)

4.79

Isoelectric Point (pI)

41.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	11 - 59	5.5e-10	PPR repeat family
TPR_24	PF23276	15 - 108	1.8e-07	Fungal tetratrico peptide repeats
PPR_3	PF13812	35 - 94	3.6e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	43 - 74	3.3e-10	PPR repeat
PPR_2	PF13041	54 - 94	1.2e-11	PPR repeat family
PPR_3	PF13812	70 - 128	9.2e-12	Pentatricopeptide repeat domain
PPR_1	PF12854	77 - 109	1.6e-07	PPR repeat
PPR_2	PF13041	81 - 127	1.3e-14	PPR repeat family
PPR	PF01535	84 - 114	1.4e-06	PPR repeat
PPR_3	PF13812	112 - 161	9.4e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	113 - 144	5e-07	PPR repeat
PPR_2	PF13041	116 - 163	3.6e-14	PPR repeat family
PPR	PF01535	120 - 149	8.9e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0014350)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G73400
fragaria_vesca	FvH4_5g17981
malus_domestica	MD14G1242500.v1.1
prunus_persica	Prupe.5G240200_v2.0.a1
pyrus_communis	pycom06g21040 pycom06g21050
rosa_chinensis	RchiOBHm_Chr7g0177611 RchiOBHm_Chr7g0224181
rosa_laevigata	RLG00000005521
rosa_multiflora	Rmu_ssc0000330.1_g000014
rosa_rugosa	Rorug06G0407800
rosa_samantha	Rh7AG007100 Rh7BG007100 Rh7CG007600 Rh7DG007200 Rh7DG007300
rosa_wichuraiana	Rw7G000610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	258, 363
AclWI	GGATC	1 cut(s)	392
AcuI	CTGAAG	1 cut(s)	329
AfaI	GTAC	2 cut(s)	19, 383
AgsI	TTSAA	3 cut(s)	100, 378, 482
AluBI	AGCT	2 cut(s)	313, 592
AluI	AGCT	2 cut(s)	313, 592
Alw21I	GWGCWC	1 cut(s)	451
Alw26I	GTCTC	2 cut(s)	410, 527
Alw44I	GTGCAC	1 cut(s)	447
AlwI	GGATC	1 cut(s)	392
AoxI	GGCC	1 cut(s)	198
ApaLI	GTGCAC	1 cut(s)	447
ApeKI	GCWGC	2 cut(s)	129, 589
AspLEI	GCGC	1 cut(s)	67
AsuHPI	GGTGA	3 cut(s)	308, 407, 550
BaeGI	GKGCMC	1 cut(s)	451
BarI	GAAGNNNNNNTAC	2 cut(s)	10, 42
Bbv12I	GWGCWC	1 cut(s)	451
BbvI	GCAGC	2 cut(s)	116, 601
BccI	CCATC	4 cut(s)	214, 385, 398, 424
BcoDI	GTCTC	2 cut(s)	410, 527
BfaI	CTAG	1 cut(s)	348
BfoI	RGCGCY	1 cut(s)	68
BisI	GCNGC	2 cut(s)	130, 590
BlsI	GCNGC	2 cut(s)	131, 591
BmsI	GCATC	1 cut(s)	502
BseGI	GGATG	2 cut(s)	177, 538
BseRI	GAGGAG	2 cut(s)	104, 209
BseSI	GKGCMC	1 cut(s)	451
BseXI	GCAGC	2 cut(s)	116, 601
BsgI	GTGCAG	1 cut(s)	374
BshFI	GGCC	1 cut(s)	200
BsiHKAI	GWGCWC	1 cut(s)	451
BslFI	GGGAC	1 cut(s)	123
BsmAI	GTCTC	2 cut(s)	410, 527
BsmFI	GGGAC	1 cut(s)	123
BsnI	GGCC	1 cut(s)	200
Bsp1286I	GDGCHC	1 cut(s)	451
Bsp1407I	TGTACA	1 cut(s)	17
Bsp143I	GATC	1 cut(s)	397
BspANI	GGCC	1 cut(s)	200
BspHI	TCATGA	1 cut(s)	54
BspPI	GGATC	1 cut(s)	392
BsrGI	TGTACA	1 cut(s)	17
BssMI	GATC	1 cut(s)	397
BstAUI	TGTACA	1 cut(s)	17
BstEII	GGTNACC	1 cut(s)	233
BstF5I	GGATG	2 cut(s)	177, 538
BstH2I	RGCGCY	1 cut(s)	68
BstHHI	GCGC	1 cut(s)	67
BstKTI	GATC	1 cut(s)	400
BstMAI	GTCTC	2 cut(s)	410, 527
BstMBI	GATC	1 cut(s)	397
BstMWI	GCNNNNNNNGC	1 cut(s)	352
BstPI	GGTNACC	1 cut(s)	233
BstSLI	GKGCMC	1 cut(s)	451
BstV1I	GCAGC	2 cut(s)	116, 601
BsuRI	GGCC	1 cut(s)	200
BtsCI	GGATG	2 cut(s)	177, 538
BtsIMutI	CAGTG	2 cut(s)	305, 456
CciI	TCATGA	1 cut(s)	54
CfoI	GCGC	1 cut(s)	67
Csp6I	GTAC	2 cut(s)	18, 382
CviAII	CATG	3 cut(s)	55, 425, 472
CviJI	RGCY	7 cut(s)	129, 182, 200, 313, 444, 487, 592
CviKI_1	RGCY	7 cut(s)	129, 182, 200, 313, 444, 487, 592
CviQI	GTAC	2 cut(s)	18, 382
DpnI	GATC	1 cut(s)	399
DpnII	GATC	1 cut(s)	397
Eco147I	AGGCCT	1 cut(s)	200
Eco57I	CTGAAG	1 cut(s)	329
Eco91I	GGTNACC	1 cut(s)	233
EcoO65I	GGTNACC	1 cut(s)	233
FaeI	CATG	3 cut(s)	58, 428, 475
FaqI	GGGAC	1 cut(s)	123
FatI	CATG	3 cut(s)	54, 424, 471
FauNDI	CATATG	1 cut(s)	114
Fnu4HI	GCNGC	2 cut(s)	130, 590
FokI	GGATG	2 cut(s)	184, 545
Fsp4HI	GCNGC	2 cut(s)	130, 590
FspBI	CTAG	1 cut(s)	348
GlaI	GCGC	1 cut(s)	66
GluI	GCNGC	2 cut(s)	130, 590
HaeII	RGCGCY	1 cut(s)	68
HaeIII	GGCC	1 cut(s)	200
HhaI	GCGC	1 cut(s)	67
Hin1II	CATG	3 cut(s)	58, 428, 475
Hin6I	GCGC	1 cut(s)	65
HinP1I	GCGC	1 cut(s)	65
HindIII	AAGCTT	1 cut(s)	311
HinfI	GANTC	1 cut(s)	575
HphI	GGTGA	3 cut(s)	308, 407, 550
Hpy166II	GTNNAC	2 cut(s)	449, 541
Hpy188III	TCNNGA	4 cut(s)	55, 137, 242, 401
Hpy8I	GTNNAC	2 cut(s)	449, 541
HpyAV	CCTTC	3 cut(s)	143, 161, 476
HpyCH4V	TGCA	8 cut(s)	38, 50, 214, 355, 449, 471, 498, 589
HpyF10VI	GCNNNNNNNGC	1 cut(s)	352
Hsp92II	CATG	3 cut(s)	58, 428, 475
HspAI	GCGC	1 cut(s)	65
Kzo9I	GATC	1 cut(s)	397
LpnPI	CCDG	6 cut(s)	92, 150, 168, 200, 414, 437
Lsp1109I	GCAGC	2 cut(s)	116, 601
LweI	GCATC	1 cut(s)	502
MaeI	CTAG	1 cut(s)	348
MaeIII	GTNAC	2 cut(s)	233, 250
MalI	GATC	1 cut(s)	399
MboI	GATC	1 cut(s)	397
MboII	GAAGA	2 cut(s)	18, 521
MhlI	GDGCHC	1 cut(s)	451
MluCI	AATT	3 cut(s)	21, 259, 554
MlyI	GAGTC	1 cut(s)	569
MnlI	CCTC	6 cut(s)	82, 187, 190, 249, 432, 523
MslI	CAYNNNNRTG	1 cut(s)	59
MwoI	GCNNNNNNNGC	1 cut(s)	352
NdeI	CATATG	1 cut(s)	114
NdeII	GATC	1 cut(s)	397
NlaIII	CATG	3 cut(s)	58, 428, 475
PagI	TCATGA	1 cut(s)	54
PceI	AGGCCT	1 cut(s)	200
PkrI	GCNGC	2 cut(s)	131, 591
PleI	GAGTC	1 cut(s)	569
PpsI	GAGTC	1 cut(s)	569
PsiI	TTATAA	2 cut(s)	258, 363
PspEI	GGTNACC	1 cut(s)	233
RsaI	GTAC	2 cut(s)	19, 383
RsaNI	GTAC	2 cut(s)	18, 382
RseI	CAYNNNNRTG	1 cut(s)	59
SatI	GCNGC	2 cut(s)	130, 590
Sau3AI	GATC	1 cut(s)	397
SchI	GAGTC	1 cut(s)	569
SduI	GDGCHC	1 cut(s)	451
SetI	ASST	7 cut(s)	16, 192, 235, 276, 315, 340, 594
SfaNI	GCATC	1 cut(s)	502
SmiMI	CAYNNNNRTG	1 cut(s)	59
Sse9I	AATT	3 cut(s)	21, 259, 554
SseBI	AGGCCT	1 cut(s)	200
SspMI	CTAG	1 cut(s)	348
StuI	AGGCCT	1 cut(s)	200
TaqI	TCGA	2 cut(s)	165, 192
TasI	AATT	3 cut(s)	21, 259, 554
TatI	WGTACW	2 cut(s)	17, 381
TscAI	CASTG	2 cut(s)	312, 463
TseI	GCWGC	2 cut(s)	129, 589
TspDTI	ATGAA	2 cut(s)	315, 566
TspRI	CASTG	2 cut(s)	312, 463
VneI	GTGCAC	1 cut(s)	447
XspI	CTAG	1 cut(s)	348

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