Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0006117

Physical Location & Seq

Genomic Coordinates Reverse (-)

53214167 .. 53215087

Gene Structure 921 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG402800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 921 bp

ATGGGCAAAGAAGGGGTGAAGGCTGATGCTGATTGTTTTCATTCTTTGTTTGAGTTGTGTGGGAATTCGAAGTTGCTAGAGAATGCAAAGAAAGTTCATGATTTCTTTTTGCAGTCTACATGTAGGGTTAATCGTGACTTGAGCCATAAAGTAATCGAAATGTATGGAAAATGTGGAAGCATGACTGATGCCAGGAGAGTGTTTGATCACCTGCTTGAGAAGAACATTGATTCTTGGCATTTGATGATAAACTGTTATGCGGAGAACGGGTTAGGGGATGATGGGTTGCACATGTTTGAGTCGATGAGGGAGCAAGGTTTGAAACCCAATTCGGAAACATTCCTTGCAGTCTTTTCGGCTTGTGCCAGTGCAGATGCTGTTGAAGAAGCATTTATACATTTTGAGTCGATGAAAACTGATTACGGATTTGATCCTGTAGTGGAGCATTATTTGGGGATTCTTGATGTACTTGGAAAATGCGGTCATCTGAATGAAGCAGTTGATTATATTGAGAAGCTCCCATTTGAGCCGACTGTGACAGTTTGGGAGGCATTGAGGAATTATGCCCAGGTTCATGGAGATATTGATCTTGAAGATCACGCTGAGGAGTTAATGGTTGCTCTTGACCCGTCAACGGCTGTTGCTGGTAAGATTCCAACTCCACCACCTAGAAAGCGTAGTGCTATTTGCATGCTTGATGGGAAGAACAGAACCAGTGAGTTTAAAAATCCCACATTGTACAAGGATTGTGAAAAGTTAAAGGAGCAAGCACTGCTCTATCACAGTGAGCTTTTGGCAATCGCATATGGCCTGATTAGTACTCCAGCAAGATACCTCTTAGGATCATTAACAACCTCCGTGTCTGTGGTGACTGCCACAGTGCCATTAAGATCATGTCCAAGATTGTTGGAAGGCAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

306

Amino Acids

34.13

Weight (kDa)

5.31

Isoelectric Point (pI)

38.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	75 - 122	3.1e-08	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: OG0006117)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15690
fragaria_vesca	FvH4_2g06150
malus_domestica	MD05G1080000.v1.1
prunus_persica	Prupe.8G123800_v2.0.a1
pyrus_communis	pycom05g07310 pycom10g07740
rosa_chinensis	RchiOBHm_Chr6g0257041 RchiOBHm_Chr7g0228581
rosa_laevigata	RLG00000001553 RLG00000014672
rosa_multiflora	Rmu_sc0008871.1_g000003 Rmu_sc0011334.1_g000001 Rmu_sc0019183.1_g000001
rosa_roxburghii	Rroxscaffold_3G00231050 Rroxscaffold_7G00208450
rosa_rugosa	Rorug05G0575600 Rorug07G0250600
rosa_samantha	Rh6AG093700 Rh6BG084500 Rh6CG081200 Rh6DG076600 Rh7AG402800 Rh7BG383700 Rh7CG422100 Rh7DG398500
rosa_wichuraiana	Rw6G008060 Rw7G033470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	219
Acc36I	ACCTGC	1 cut(s)	219
AccI	GTMKAC	1 cut(s)	116
AciI	CCGC	2 cut(s)	260, 480
AclWI	GGATC	2 cut(s)	425, 850
AcsI	RAATTY	1 cut(s)	64
AfaI	GTAC	3 cut(s)	468, 740, 820
AfiI	CCNNNNNNNGG	1 cut(s)	634
AflIII	ACRYGT	2 cut(s)	119, 291
AgsI	TTSAA	3 cut(s)	322, 383, 593
AjnI	CCWGG	2 cut(s)	191, 567
AluBI	AGCT	2 cut(s)	517, 790
AluI	AGCT	2 cut(s)	517, 790
AlwI	GGATC	2 cut(s)	425, 850
AlwNI	CAGNNNCTG	1 cut(s)	377
AoxI	GGCC	1 cut(s)	808
ApoI	RAATTY	1 cut(s)	64
AsuHPI	GGTGA	3 cut(s)	28, 200, 880
AsuII	TTCGAA	1 cut(s)	68
BarI	GAAGNNNNNNTAC	2 cut(s)	378, 410
BbvCI	CCTCAGC	1 cut(s)	603
BccI	CCATC	2 cut(s)	275, 692
BceAI	ACGGC	1 cut(s)	651
BcgI	CGANNNNNNTGC	2 cut(s)	336, 370
BciT130I	CCWGG	2 cut(s)	193, 569
BclI	TGATCA	1 cut(s)	205
BfaI	CTAG	2 cut(s)	77, 669
BfmI	CTRYAG	1 cut(s)	435
BfuAI	ACCTGC	1 cut(s)	219
BmcAI	AGTACT	1 cut(s)	820
Bme1390I	CCNGG	2 cut(s)	193, 569
BmrFI	CCNGG	2 cut(s)	193, 569
BmsI	GCATC	3 cut(s)	16, 178, 364
BpmI	CTGGAG	1 cut(s)	807
Bpu10I	CCTNAGC	1 cut(s)	603
Bpu14I	TTCGAA	1 cut(s)	68
BpuEI	CTTGAG	2 cut(s)	160, 236
BsaBI	GATNNNNATC	1 cut(s)	585
BsaJI	CCNNGG	1 cut(s)	567
BsaXI	ACNNNNNCTCC	2 cut(s)	254, 284
Bsc4I	CCNNNNNNNGG	1 cut(s)	634
Bse1I	ACTGG	2 cut(s)	366, 714
Bse8I	GATNNNNATC	1 cut(s)	585
BseBI	CCWGG	2 cut(s)	193, 569
BseDI	CCNNGG	1 cut(s)	567
BseGI	GGATG	1 cut(s)	283
BseJI	GATNNNNATC	1 cut(s)	585
BseLI	CCNNNNNNNGG	1 cut(s)	634
BseMII	CTCAG	1 cut(s)	594
BseNI	ACTGG	2 cut(s)	366, 714
BseRI	GAGGAG	1 cut(s)	620
BsgI	GTGCAG	1 cut(s)	390
BshFI	GGCC	1 cut(s)	810
BslI	CCNNNNNNNGG	1 cut(s)	634
BsmI	GAATGC	1 cut(s)	88
BsnI	GGCC	1 cut(s)	810
Bsp119I	TTCGAA	1 cut(s)	68
Bsp1407I	TGTACA	1 cut(s)	738
Bsp143I	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
BspACI	CCGC	2 cut(s)	260, 480
BspANI	GGCC	1 cut(s)	810
BspCNI	CTCAG	1 cut(s)	595
BspHI	TCATGA	1 cut(s)	97
BspMI	ACCTGC	1 cut(s)	219
BspPI	GGATC	2 cut(s)	425, 850
BspT104I	TTCGAA	1 cut(s)	68
BsrGI	TGTACA	1 cut(s)	738
BsrI	ACTGG	2 cut(s)	366, 714
BssECI	CCNNGG	1 cut(s)	567
BssMI	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
Bst2UI	CCWGG	2 cut(s)	193, 569
Bst4CI	ACNGT	5 cut(s)	254, 535, 541, 785, 880
BstAPI	GCANNNNNTGC	1 cut(s)	772
BstAUI	TGTACA	1 cut(s)	738
BstBI	TTCGAA	1 cut(s)	68
BstC8I	GCNNGC	2 cut(s)	692, 768
BstDEI	CTNAG	2 cut(s)	603, 838
BstF5I	GGATG	1 cut(s)	283
BstKTI	GATC	6 cut(s)	208, 433, 589, 598, 845, 893
BstMBI	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
BstMWI	GCNNNNNNNGC	1 cut(s)	772
BstNI	CCWGG	2 cut(s)	193, 569
BstNSI	RCATGY	3 cut(s)	123, 295, 694
BstSCI	CCNGG	2 cut(s)	191, 567
BstSFI	CTRYAG	1 cut(s)	435
BstXI	CCANNNNNNTGG	1 cut(s)	575
BsuRI	GGCC	1 cut(s)	810
BtsCI	GGATG	1 cut(s)	283
BtsI	GCAGTG	1 cut(s)	770
BtsIMutI	CAGTG	5 cut(s)	373, 721, 770, 790, 885
BveI	ACCTGC	1 cut(s)	219
Cac8I	GCNNGC	2 cut(s)	692, 768
CaiI	CAGNNNCTG	1 cut(s)	377
CciI	TCATGA	1 cut(s)	97
Csp6I	GTAC	3 cut(s)	467, 739, 819
CviAII	CATG	7 cut(s)	98, 120, 181, 292, 575, 691, 894
CviJI	RGCY	8 cut(s)	23, 144, 359, 517, 529, 638, 790, 810
CviKI_1	RGCY	8 cut(s)	23, 144, 359, 517, 529, 638, 790, 810
CviQI	GTAC	3 cut(s)	467, 739, 819
DdeI	CTNAG	2 cut(s)	603, 838
DpnI	GATC	6 cut(s)	207, 432, 588, 597, 844, 892
DpnII	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
DraI	TTTAAA	1 cut(s)	724
EcoRI	GAATTC	1 cut(s)	64
EcoRII	CCWGG	2 cut(s)	191, 567
FaeI	CATG	7 cut(s)	101, 123, 184, 295, 578, 694, 897
FatI	CATG	7 cut(s)	97, 119, 180, 291, 574, 690, 893
FauNDI	CATATG	1 cut(s)	805
FbaI	TGATCA	1 cut(s)	205
FblI	GTMKAC	1 cut(s)	116
FokI	GGATG	1 cut(s)	290
FspBI	CTAG	2 cut(s)	77, 669
GsuI	CTGGAG	1 cut(s)	807
HaeIII	GGCC	1 cut(s)	810
Hin1II	CATG	7 cut(s)	101, 123, 184, 295, 578, 694, 897
HincII	GTYRAC	1 cut(s)	633
HindII	GTYRAC	1 cut(s)	633
HinfI	GANTC	5 cut(s)	230, 299, 404, 457, 652
HphI	GGTGA	3 cut(s)	28, 200, 880
Hpy166II	GTNNAC	2 cut(s)	117, 633
Hpy188I	TCNGA	2 cut(s)	334, 489
Hpy188III	TCNNGA	5 cut(s)	98, 134, 461, 590, 623
Hpy8I	GTNNAC	2 cut(s)	117, 633
HpyAV	CCTTC	3 cut(s)	5, 13, 905
HpyCH4III	ACNGT	5 cut(s)	254, 535, 541, 785, 880
HpyCH4V	TGCA	6 cut(s)	86, 112, 289, 347, 371, 690
HpyF10VI	GCNNNNNNNGC	1 cut(s)	772
HpyF3I	CTNAG	2 cut(s)	603, 838
Hsp92II	CATG	7 cut(s)	101, 123, 184, 295, 578, 694, 897
Ksp22I	TGATCA	1 cut(s)	205
Kzo9I	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
LmnI	GCTCC	4 cut(s)	310, 442, 522, 763
LweI	GCATC	3 cut(s)	16, 178, 364
MaeI	CTAG	2 cut(s)	77, 669
MaeIII	GTNAC	3 cut(s)	134, 535, 868
MalI	GATC	6 cut(s)	207, 432, 588, 597, 844, 892
MboI	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
MboII	GAAGA	4 cut(s)	232, 395, 605, 715
MluCI	AATT	4 cut(s)	64, 328, 559, 916
MlyI	GAGTC	2 cut(s)	308, 413
MmeI	TCCRAC	2 cut(s)	680, 888
MnlI	CCTC	6 cut(s)	300, 541, 549, 598, 845, 865
MseI	TTAA	7 cut(s)	129, 611, 723, 758, 848, 887, 919
MslI	CAYNNNNRTG	1 cut(s)	489
MspR9I	CCNGG	2 cut(s)	193, 569
Mva1269I	GAATGC	1 cut(s)	88
MvaI	CCWGG	2 cut(s)	193, 569
MwoI	GCNNNNNNNGC	1 cut(s)	772
NdeI	CATATG	1 cut(s)	805
NdeII	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
NlaIII	CATG	7 cut(s)	101, 123, 184, 295, 578, 694, 897
NmuCI	GTSAC	3 cut(s)	134, 535, 868
NspI	RCATGY	3 cut(s)	123, 295, 694
NspV	TTCGAA	1 cut(s)	68
PaeI	GCATGC	1 cut(s)	694
PagI	TCATGA	1 cut(s)	97
PaqCI	CACCTGC	1 cut(s)	219
PciI	ACATGT	2 cut(s)	119, 291
PctI	GAATGC	1 cut(s)	88
PfeI	GAWTC	3 cut(s)	230, 457, 652
PleI	GAGTC	2 cut(s)	307, 412
PpsI	GAGTC	2 cut(s)	307, 412
PscI	ACATGT	2 cut(s)	119, 291
Psp6I	CCWGG	2 cut(s)	191, 567
PspGI	CCWGG	2 cut(s)	191, 567
PstNI	CAGNNNCTG	1 cut(s)	377
RsaI	GTAC	3 cut(s)	468, 740, 820
RsaNI	GTAC	3 cut(s)	467, 739, 819
RseI	CAYNNNNRTG	1 cut(s)	489
SaqAI	TTAA	7 cut(s)	129, 611, 723, 758, 848, 887, 919
Sau3AI	GATC	6 cut(s)	205, 430, 586, 595, 842, 890
ScaI	AGTACT	1 cut(s)	820
SchI	GAGTC	2 cut(s)	308, 413
ScrFI	CCNGG	2 cut(s)	193, 569
SetI	ASST	8 cut(s)	213, 319, 519, 573, 670, 792, 837, 857
SfaNI	GCATC	3 cut(s)	16, 178, 364
SfcI	CTRYAG	1 cut(s)	435
SfuI	TTCGAA	1 cut(s)	68
SmiMI	CAYNNNNRTG	1 cut(s)	489
SmlI	CTYRAG	2 cut(s)	139, 215
SmoI	CTYRAG	2 cut(s)	139, 215
SphI	GCATGC	1 cut(s)	694
Sse9I	AATT	4 cut(s)	64, 328, 559, 916
SsiI	CCGC	2 cut(s)	260, 480
SspMI	CTAG	2 cut(s)	77, 669
StyD4I	CCNGG	2 cut(s)	191, 567
TaaI	ACNGT	5 cut(s)	254, 535, 541, 785, 880
TaqI	TCGA	4 cut(s)	68, 156, 302, 407
TasI	AATT	4 cut(s)	64, 328, 559, 916
TatI	WGTACW	3 cut(s)	466, 738, 818
TfiI	GAWTC	3 cut(s)	230, 457, 652
Tru1I	TTAA	7 cut(s)	129, 611, 723, 758, 848, 887, 919
Tru9I	TTAA	7 cut(s)	129, 611, 723, 758, 848, 887, 919
TscAI	CASTG	5 cut(s)	373, 721, 777, 790, 885
TseFI	GTSAC	3 cut(s)	134, 535, 868
Tsp45I	GTSAC	3 cut(s)	134, 535, 868
TspDTI	ATGAA	5 cut(s)	29, 86, 425, 507, 563
TspGWI	ACGGA	2 cut(s)	438, 847
TspRI	CASTG	5 cut(s)	373, 721, 777, 790, 885
XapI	RAATTY	1 cut(s)	64
XceI	RCATGY	3 cut(s)	123, 295, 694
XmiI	GTMKAC	1 cut(s)	116
XspI	CTAG	2 cut(s)	77, 669
ZrmI	AGTACT	1 cut(s)	820

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