Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0014380

Physical Location & Seq

Genomic Coordinates Reverse (-)

36384034 .. 36386112

Gene Structure 2079 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG194100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 855 bp

ATGACTGAGGAGGAGGGGTTAAAGCCCAATGAAGTCACTGTCCTCGGCGCGCTCTCGGCGTGTTCTCAATTGGGTGCATTGAGAGGTGGAGAGAGAATACATACCTATATAGTGAATGCCAAGCTTGATACGCATGTCATTGTTTGCAATGCGGTTATTGATATGTATGCGAAATGCGGGTTCGTGGATAGAGCATATGAGGTGTTTGAGAATGTGAGATGTGGGAAGAATTTGATAACTTGGAATACGATGATGATGGCATTTGCCATGCATGGCGATGGTTGTAAAGCGCTTGAGCTTTTTGAGAAGATGGGTAAAAATGGAGTGTGCCCTGATGCAGTGTCGTATCTTGCTGCGTTGTGTGCGTGCAATCATGCAGGACTGGTGGAAGATGGGGTTAAGTTATTTAATTCAATGGCGGGCAGTGGGATGGTGCGGAATGTTAAGCATTATGGGACTGTGGTTGATTTGTTGGGACGAGCTGGGAGACTTCAAGAGGCTTATGATATTGTAAAATCTATGCCGATGTTTCCTGATGTAGTACTGTGGCAGACTTTGCTTGGTGCCAGCAAGACCTATGGGAATGTGGAAATGGCAGAGATGGCGTCACGGAACTTGGTTGAGTTGGGGTCTGAGGGTTGTGGTGATTTCGTGTTGTTATCAAATGTTTATGCGGCTCATAAGAGATGGGATGATGTAGGCAGGGTGAGGGAAGCCATGAAGAGAAGGGATGTGAAGAAGATACCGGGTTTCGGTTACATAGAAGTAGAAGAAGAAGATAGAAGTCCAGGATTTGATAGATATCCCCCTTACGGCAATTTGCGCTACTATTACAGCTTTGGATACTGTAAATAG

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:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 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:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 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

DYW_deaminase PPR PPR_2 ThiC_Rad_SAM

Protein Analysis

284

Amino Acids

31.52

Weight (kDa)

6.11

Isoelectric Point (pI)

39.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	77 - 123	5.4e-10	PPR repeat family
PPR	PF01535	79 - 109	3.5e-06	PPR repeat
E_motif	PF20431	193 - 255	1.9e-19	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014380)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G34160 AT1G34160
fragaria_vesca	FvH4_2g12730
malus_domestica	MD05G1037500.v1.1 MD10G1041300.v1.1
prunus_persica	Prupe.8G045500_v2.0.a1 Prupe.8G045500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0273501
rosa_laevigata	RLG00000013612
rosa_multiflora	Rmu_co8087438.1_g000001 Rmu_sc0026438.1_g000001
rosa_roxburghii	Rroxscaffold_7G00195290
rosa_rugosa	Rorug06G0075900
rosa_samantha	Rh6AG190600 Rh6BG194100 Rh6DG185200
rosa_wichuraiana	Rw6G016680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	563
AccII	CGCG	1 cut(s)	50
AciI	CCGC	5 cut(s)	152, 177, 419, 436, 674
AcsI	RAATTY	1 cut(s)	229
AcyI	GRCGYC	1 cut(s)	605
AfaI	GTAC	1 cut(s)	543
AfeI	AGCGCT	1 cut(s)	291
AfiI	CCNNNNNNNGG	2 cut(s)	752, 812
AgsI	TTSAA	2 cut(s)	414, 494
AjnI	CCWGG	1 cut(s)	787
AluBI	AGCT	4 cut(s)	124, 298, 482, 837
AluI	AGCT	4 cut(s)	124, 298, 482, 837
Alw26I	GTCTC	1 cut(s)	481
Aor51HI	AGCGCT	1 cut(s)	291
ApeKI	GCWGC	1 cut(s)	353
ApoI	RAATTY	1 cut(s)	229
AspLEI	GCGC	4 cut(s)	50, 52, 292, 825
AsuC2I	CCSGG	1 cut(s)	747
AsuHPI	GGTGA	2 cut(s)	656, 718
BaeGI	GKGCMC	1 cut(s)	332
BaeI	ACNNNNGTAYC	2 cut(s)	120, 153
BanI	GGYRCC	1 cut(s)	563
BbvI	GCAGC	1 cut(s)	340
BccI	CCATC	7 cut(s)	250, 272, 304, 386, 424, 595, 681
BceAI	ACGGC	1 cut(s)	829
BciT130I	CCWGG	1 cut(s)	789
BciVI	GTATCC	1 cut(s)	836
BcnI	CCSGG	1 cut(s)	747
BcoDI	GTCTC	1 cut(s)	481
BfoI	RGCGCY	1 cut(s)	293
BfuI	GTATCC	1 cut(s)	836
BisI	GCNGC	2 cut(s)	354, 675
BlsI	GCNGC	2 cut(s)	355, 676
BmcAI	AGTACT	1 cut(s)	543
Bme1390I	CCNGG	2 cut(s)	747, 789
BmiI	GGNNCC	1 cut(s)	565
BmrFI	CCNGG	2 cut(s)	747, 789
BmsI	GCATC	1 cut(s)	325
BpuEI	CTTGAG	1 cut(s)	314
BpuMI	CCSGG	1 cut(s)	747
BsaBI	GATNNNNATC	1 cut(s)	801
BsaHI	GRCGYC	1 cut(s)	605
BsaJI	CCNNGG	1 cut(s)	43
BsaXI	ACNNNNNCTCC	1 cut(s)	32
Bsc4I	CCNNNNNNNGG	2 cut(s)	752, 812
Bse1I	ACTGG	1 cut(s)	387
Bse3DI	GCAATG	1 cut(s)	154
Bse8I	GATNNNNATC	1 cut(s)	801
BseBI	CCWGG	1 cut(s)	789
BseDI	CCNNGG	1 cut(s)	43
BseGI	GGATG	3 cut(s)	435, 697, 736
BseJI	GATNNNNATC	1 cut(s)	801
BseLI	CCNNNNNNNGG	2 cut(s)	752, 812
BseMI	GCAATG	1 cut(s)	154
BseMII	CTCAG	1 cut(s)	624
BseNI	ACTGG	1 cut(s)	387
BsePI	GCGCGC	1 cut(s)	48
BseRI	GAGGAG	2 cut(s)	23, 26
BseSI	GKGCMC	1 cut(s)	332
BseXI	GCAGC	1 cut(s)	340
BseYI	CCCAGC	1 cut(s)	482
Bsh1236I	CGCG	1 cut(s)	50
BshNI	GGYRCC	1 cut(s)	563
BsiSI	CCGG	1 cut(s)	746
BslFI	GGGAC	2 cut(s)	469, 489
BslI	CCNNNNNNNGG	2 cut(s)	752, 812
BsmAI	GTCTC	1 cut(s)	481
BsmFI	GGGAC	2 cut(s)	469, 489
BsmI	GAATGC	1 cut(s)	121
Bsp1286I	GDGCHC	1 cut(s)	332
BspACI	CCGC	5 cut(s)	152, 177, 419, 436, 674
BspCNI	CTCAG	1 cut(s)	625
BspFNI	CGCG	1 cut(s)	50
BspLI	GGNNCC	1 cut(s)	565
BspT107I	GGYRCC	1 cut(s)	563
BsrDI	GCAATG	1 cut(s)	154
BsrI	ACTGG	1 cut(s)	387
BssECI	CCNNGG	1 cut(s)	43
BssHII	GCGCGC	1 cut(s)	48
BssNI	GRCGYC	1 cut(s)	605
Bst2UI	CCWGG	1 cut(s)	789
Bst4CI	ACNGT	4 cut(s)	40, 460, 546, 848
Bst6I	CTCTTC	1 cut(s)	716
BstACI	GRCGYC	1 cut(s)	605
BstAPI	GCANNNNNTGC	1 cut(s)	556
BstC8I	GCNNGC	4 cut(s)	50, 367, 421, 568
BstDEI	CTNAG	2 cut(s)	6, 633
BstF5I	GGATG	3 cut(s)	435, 697, 736
BstFNI	CGCG	1 cut(s)	50
BstH2I	RGCGCY	1 cut(s)	293
BstHHI	GCGC	4 cut(s)	50, 52, 292, 825
BstMAI	GTCTC	1 cut(s)	481
BstMWI	GCNNNNNNNGC	6 cut(s)	56, 130, 362, 556, 602, 822
BstNI	CCWGG	1 cut(s)	789
BstNSI	RCATGY	1 cut(s)	137
BstSCI	CCNGG	2 cut(s)	745, 787
BstSLI	GKGCMC	1 cut(s)	332
BstUI	CGCG	1 cut(s)	50
BstV1I	GCAGC	1 cut(s)	340
BsuI	GTATCC	1 cut(s)	836
BtgZI	GCGATG	1 cut(s)	291
BtsCI	GGATG	3 cut(s)	435, 697, 736
BtsI	GCAGTG	2 cut(s)	345, 430
BtsIMutI	CAGTG	3 cut(s)	36, 345, 430
Cac8I	GCNNGC	4 cut(s)	50, 367, 421, 568
CfoI	GCGC	4 cut(s)	50, 52, 292, 825
CseI	GACGC	1 cut(s)	594
Csp6I	GTAC	1 cut(s)	542
CviAII	CATG	5 cut(s)	134, 268, 272, 374, 718
CviJI	RGCY	8 cut(s)	25, 124, 298, 482, 500, 677, 716, 837
CviKI_1	RGCY	8 cut(s)	25, 124, 298, 482, 500, 677, 716, 837
CviQI	GTAC	1 cut(s)	542
DdeI	CTNAG	2 cut(s)	6, 633
Eam1104I	CTCTTC	1 cut(s)	716
EarI	CTCTTC	1 cut(s)	716
Eco32I	GATATC	1 cut(s)	803
Eco47III	AGCGCT	1 cut(s)	291
EcoRII	CCWGG	1 cut(s)	787
EcoRV	GATATC	1 cut(s)	803
EcoT22I	ATGCAT	1 cut(s)	273
FaeI	CATG	5 cut(s)	137, 271, 275, 377, 721
FaqI	GGGAC	2 cut(s)	469, 489
FatI	CATG	5 cut(s)	133, 267, 271, 373, 717
FauI	CCCGC	2 cut(s)	170, 412
FauNDI	CATATG	1 cut(s)	196
Fnu4HI	GCNGC	2 cut(s)	354, 675
FokI	GGATG	3 cut(s)	442, 704, 743
Fsp4HI	GCNGC	2 cut(s)	354, 675
GlaI	GCGC	4 cut(s)	49, 51, 291, 824
GluI	GCNGC	2 cut(s)	354, 675
GsaI	CCCAGC	1 cut(s)	486
HaeII	RGCGCY	1 cut(s)	293
HapII	CCGG	1 cut(s)	746
HgaI	GACGC	1 cut(s)	594
HhaI	GCGC	4 cut(s)	50, 52, 292, 825
Hin1I	GRCGYC	1 cut(s)	605
Hin1II	CATG	5 cut(s)	137, 271, 275, 377, 721
Hin6I	GCGC	4 cut(s)	48, 50, 290, 823
HinP1I	GCGC	4 cut(s)	48, 50, 290, 823
HindIII	AAGCTT	1 cut(s)	122
HpaII	CCGG	1 cut(s)	746
HphI	GGTGA	2 cut(s)	656, 718
Hpy188I	TCNGA	1 cut(s)	634
Hpy188III	TCNNGA	2 cut(s)	494, 533
HpyAV	CCTTC	1 cut(s)	720
HpyCH4III	ACNGT	4 cut(s)	40, 460, 546, 848
HpyCH4V	TGCA	6 cut(s)	77, 147, 271, 338, 369, 377
HpyF10VI	GCNNNNNNNGC	6 cut(s)	56, 130, 362, 556, 602, 822
HpyF3I	CTNAG	2 cut(s)	6, 633
Hsp92I	GRCGYC	1 cut(s)	605
Hsp92II	CATG	5 cut(s)	137, 271, 275, 377, 721
HspAI	GCGC	4 cut(s)	48, 50, 290, 823
Lsp1109I	GCAGC	1 cut(s)	340
LweI	GCATC	1 cut(s)	325
MaeIII	GTNAC	3 cut(s)	34, 606, 755
MboII	GAAGA	9 cut(s)	238, 319, 401, 733, 748, 751, 782, 785, 788
MfeI	CAATTG	1 cut(s)	68
MhlI	GDGCHC	1 cut(s)	332
MluCI	AATT	4 cut(s)	68, 229, 409, 817
MnlI	CCTC	8 cut(s)	4, 7, 53, 77, 193, 490, 628, 702
Mph1103I	ATGCAT	1 cut(s)	273
MseI	TTAA	4 cut(s)	20, 399, 408, 444
MslI	CAYNNNNRTG	1 cut(s)	276
MspI	CCGG	1 cut(s)	746
MspR9I	CCNGG	2 cut(s)	747, 789
MunI	CAATTG	1 cut(s)	68
Mva1269I	GAATGC	1 cut(s)	121
MvaI	CCWGG	1 cut(s)	789
MvnI	CGCG	1 cut(s)	50
MwoI	GCNNNNNNNGC	6 cut(s)	56, 130, 362, 556, 602, 822
NciI	CCSGG	1 cut(s)	747
NdeI	CATATG	1 cut(s)	196
NlaIII	CATG	5 cut(s)	137, 271, 275, 377, 721
NlaIV	GGNNCC	1 cut(s)	565
NmeAIII	GCCGAG	2 cut(s)	24, 35
NmuCI	GTSAC	2 cut(s)	34, 606
NsiI	ATGCAT	1 cut(s)	273
NspI	RCATGY	1 cut(s)	137
PauI	GCGCGC	1 cut(s)	48
PctI	GAATGC	1 cut(s)	121
PfoI	TCCNGGA	1 cut(s)	787
PkrI	GCNGC	2 cut(s)	355, 676
Psp6I	CCWGG	1 cut(s)	787
PspFI	CCCAGC	1 cut(s)	482
PspGI	CCWGG	1 cut(s)	787
PspN4I	GGNNCC	1 cut(s)	565
PteI	GCGCGC	1 cut(s)	48
RsaI	GTAC	1 cut(s)	543
RsaNI	GTAC	1 cut(s)	542
RseI	CAYNNNNRTG	1 cut(s)	276
SaqAI	TTAA	4 cut(s)	20, 399, 408, 444
SatI	GCNGC	2 cut(s)	354, 675
ScaI	AGTACT	1 cut(s)	543
ScrFI	CCNGG	2 cut(s)	747, 789
SduI	GDGCHC	1 cut(s)	332
SetI	ASST	8 cut(s)	88, 107, 126, 204, 300, 484, 578, 839
SfaNI	GCATC	1 cut(s)	325
SmiMI	CAYNNNNRTG	1 cut(s)	276
SmlI	CTYRAG	1 cut(s)	293
SmoI	CTYRAG	1 cut(s)	293
Sse9I	AATT	4 cut(s)	68, 229, 409, 817
SsiI	CCGC	5 cut(s)	152, 177, 419, 436, 674
StyD4I	CCNGG	2 cut(s)	745, 787
TaaI	ACNGT	4 cut(s)	40, 460, 546, 848
TasI	AATT	4 cut(s)	68, 229, 409, 817
TatI	WGTACW	1 cut(s)	541
TauI	GCSGC	1 cut(s)	677
Tru1I	TTAA	4 cut(s)	20, 399, 408, 444
Tru9I	TTAA	4 cut(s)	20, 399, 408, 444
TscAI	CASTG	3 cut(s)	43, 345, 430
TseFI	GTSAC	2 cut(s)	34, 606
TseI	GCWGC	1 cut(s)	353
Tsp45I	GTSAC	2 cut(s)	34, 606
TspDTI	ATGAA	2 cut(s)	45, 734
TspGWI	ACGGA	1 cut(s)	625
TspRI	CASTG	3 cut(s)	43, 345, 430
XapI	RAATTY	1 cut(s)	229
XceI	RCATGY	1 cut(s)	137
ZrmI	AGTACT	1 cut(s)	543
Zsp2I	ATGCAT	1 cut(s)	273

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