Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0016045

Physical Location & Seq

Genomic Coordinates Forward (+)

7730550 .. 7731491

Gene Structure 942 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG097300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGATTCCGGTGAAGGATCTGATCTCTTGGACTGTGATAATTGCTGGTTATGGGATGCATGGATTTGGAAGGGAAGCTATTGCTGCTTTTAATGAGATGAAAAAGGCTGGAATTGAACCGGACAGCATTTCCTTCATCTCTATACTTTATGCTTGCAGTCATTCTGGATTAGTTCAGGAAGGATGGAGATTCTTTGATATTATGAGAAATGATTACAAAATCGAGCCCATGTTGGAGCATTATGCTTGTATGGTAGATCTTCTTGCTCGTACTGGGAATCTAACCAAGGCATATAAATTTATTAACATGATGCCAATTGAGCCAGATGCCACAGTCTGGGGTTCCTTGCTCTGTGGTTGTAGGATTCACCATGATGTGAAACTAGCAGAGAAAGTTGCAGAGCATGTCTTTGAACTAGAGCCAGAAAACACTGGCTATTATATACTTCTAGCAAATATTTATGCAGAGGCAGAAAAGTGGGAAGAGGTGAAGAAGTTGAGGGAGAGGATTGGTCGGCGAGGCTTGAAAAAGAATCCGGGCTGTAGTTGGATAGAAATCAAGGGAAAAGTTAATATCTTTGTTGCAGGAGACACTTCACACCCAGAGGCCATGAAGATAGAGTCCCTAGTGAAGAAGTTTAGATTGAGGATGAAGGAAGATGGCTATAATCCTAAAATGCAGTACGCTTTGATTAATGCAGATGAGGTGGAAAAAGAGGTGGCTCTCTGTGGGCATAGTGAGAAGTTAGCCATAGCATTTGGGATACTGAACTTGCCACCCGGAAAAACCATACGGGTGACCAAGAATCTACGAGCCTGCGGTGACTGCCATGAGATGGCCAAGTTCATATCCAAGACATCTAGGAGGGAAATTGTTTTGAGAGATTCTAATCGCTTTCATCATATGAAGGATGGAAATTGTTCTTGTAGGGGCTTCTGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0007389 GO:0008150 GO:0008152 GO:0009451 GO:0009653 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009965 GO:0009987 GO:0010016 GO:0010051 GO:0010087 GO:0010154 GO:0010305 GO:0010588 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0048316 GO:0048366 GO:0048367 GO:0048598 GO:0048608 GO:0048731 GO:0048825 GO:0048826 GO:0048827 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0090698 GO:0097159 GO:0099402 GO:1900865 GO:1901360 GO:1901363 GO:1905392

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

313

Amino Acids

35.69

Weight (kDa)

8.57

Isoelectric Point (pI)

45.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	6 - 53	5.1e-10	PPR repeat family
PPR	PF01535	8 - 38	1.7e-06	PPR repeat
E_motif	PF20431	123 - 185	4.1e-21	E motif
DYW_deaminase	PF14432	221 - 313	3.3e-38	DYW family of nucleic acid deaminases

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: OG0016045)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18750
fragaria_vesca	FvH4_3g36560 FvH4_3g36640
malus_domestica	MD10G1276800.v1.1
prunus_persica	Prupe.4G065400_v2.0.a1
pyrus_communis	pycom10g23110
rosa_chinensis	RchiOBHm_Chr5g0011421
rosa_laevigata	RLG00000031832
rosa_multiflora	Rmu_co8262965.1_g000001 Rmu_sc0009975.1_g000017
rosa_roxburghii	Rroxscaffold_1G00065030
rosa_rugosa	Rorug04G0456900
rosa_samantha	Rh5BG083800 Rh5CG097300
rosa_wichuraiana	Rw5G007710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	336, 835
AciI	CCGC	1 cut(s)	819
AclWI	GGATC	1 cut(s)	24
AcoI	YGGCCR	1 cut(s)	837
AcsI	RAATTY	1 cut(s)	296
AfaI	GTAC	2 cut(s)	271, 683
AfiI	CCNNNNNNNGG	2 cut(s)	336, 835
AgsI	TTSAA	3 cut(s)	116, 413, 526
AluBI	AGCT	1 cut(s)	77
AluI	AGCT	1 cut(s)	77
Alw26I	GTCTC	1 cut(s)	582
AlwI	GGATC	1 cut(s)	24
AoxI	GGCC	2 cut(s)	606, 837
ApeKI	GCWGC	1 cut(s)	83
ApoI	RAATTY	1 cut(s)	296
AseI	ATTAAT	1 cut(s)	693
Asp700I	GAANNNNTTC	1 cut(s)	919
AsuC2I	CCSGG	2 cut(s)	537, 780
AsuHPI	GGTGA	5 cut(s)	22, 359, 499, 808, 833
BalI	TGGCCA	1 cut(s)	839
BanII	GRGCYC	1 cut(s)	228
BbvI	GCAGC	1 cut(s)	70
BccI	CCATC	4 cut(s)	177, 653, 829, 905
BciVI	GTATCC	1 cut(s)	756
BcnI	CCSGG	2 cut(s)	537, 780
BcoDI	GTCTC	1 cut(s)	582
BfaI	CTAG	5 cut(s)	383, 416, 449, 626, 861
BfmI	CTRYAG	1 cut(s)	541
BfuI	GTATCC	1 cut(s)	756
BglII	AGATCT	1 cut(s)	256
BisI	GCNGC	1 cut(s)	84
BlsI	GCNGC	1 cut(s)	85
Bme1390I	CCNGG	2 cut(s)	537, 780
BmiI	GGNNCC	1 cut(s)	343
BmrFI	CCNGG	2 cut(s)	537, 780
BmrI	ACTGGG	1 cut(s)	282
BmsI	GCATC	3 cut(s)	45, 300, 316
BmuI	ACTGGG	1 cut(s)	282
BpuMI	CCSGG	2 cut(s)	537, 780
BsaBI	GATNNNNATC	2 cut(s)	554, 888
BsaJI	CCNNGG	1 cut(s)	285
BsaWI	WCCGGW	2 cut(s)	7, 118
Bsc4I	CCNNNNNNNGG	2 cut(s)	336, 835
Bse1I	ACTGG	2 cut(s)	277, 436
Bse8I	GATNNNNATC	2 cut(s)	554, 888
BseDI	CCNNGG	1 cut(s)	285
BseGI	GGATG	4 cut(s)	60, 188, 654, 916
BseJI	GATNNNNATC	2 cut(s)	554, 888
BseLI	CCNNNNNNNGG	2 cut(s)	336, 835
BseNI	ACTGG	2 cut(s)	277, 436
BseXI	GCAGC	1 cut(s)	70
BshFI	GGCC	2 cut(s)	608, 839
BsiSI	CCGG	4 cut(s)	8, 119, 536, 780
BslFI	GGGAC	1 cut(s)	607
BslI	CCNNNNNNNGG	2 cut(s)	336, 835
BsmAI	GTCTC	1 cut(s)	582
BsmFI	GGGAC	1 cut(s)	607
BsnI	GGCC	2 cut(s)	608, 839
Bsp1286I	GDGCHC	1 cut(s)	228
Bsp143I	GATC	3 cut(s)	16, 21, 256
BspACI	CCGC	1 cut(s)	819
BspANI	GGCC	2 cut(s)	608, 839
BspLI	GGNNCC	1 cut(s)	343
BspPI	GGATC	1 cut(s)	24
BsrI	ACTGG	2 cut(s)	277, 436
BssECI	CCNNGG	1 cut(s)	285
BssMI	GATC	3 cut(s)	16, 21, 256
BssT1I	CCWWGG	1 cut(s)	285
Bst4CI	ACNGT	2 cut(s)	34, 334
Bst6I	CTCTTC	1 cut(s)	477
BstC8I	GCNNGC	2 cut(s)	154, 817
BstEII	GGTNACC	1 cut(s)	796
BstF5I	GGATG	4 cut(s)	60, 188, 654, 916
BstKTI	GATC	3 cut(s)	19, 24, 259
BstMAI	GTCTC	1 cut(s)	582
BstMBI	GATC	3 cut(s)	16, 21, 256
BstMWI	GCNNNNNNNGC	3 cut(s)	83, 319, 825
BstNSI	RCATGY	1 cut(s)	407
BstPI	GGTNACC	1 cut(s)	796
BstSCI	CCNGG	2 cut(s)	535, 778
BstSFI	CTRYAG	1 cut(s)	541
BstV1I	GCAGC	1 cut(s)	70
BstX2I	RGATCY	2 cut(s)	16, 256
BstYI	RGATCY	2 cut(s)	16, 256
BsuI	GTATCC	1 cut(s)	756
BsuRI	GGCC	2 cut(s)	608, 839
BtsCI	GGATG	4 cut(s)	60, 188, 654, 916
BtsIMutI	CAGTG	1 cut(s)	429
Cac8I	GCNNGC	2 cut(s)	154, 817
Csp6I	GTAC	2 cut(s)	270, 682
CviAII	CATG	7 cut(s)	59, 229, 307, 371, 404, 610, 830
CviQI	GTAC	2 cut(s)	270, 682
DpnI	GATC	3 cut(s)	18, 23, 258
DpnII	GATC	3 cut(s)	16, 21, 256
EaeI	YGGCCR	1 cut(s)	837
Eam1104I	CTCTTC	1 cut(s)	477
EarI	CTCTTC	1 cut(s)	477
Eco130I	CCWWGG	1 cut(s)	285
Eco24I	GRGCYC	1 cut(s)	228
Eco91I	GGTNACC	1 cut(s)	796
EcoO65I	GGTNACC	1 cut(s)	796
EcoT14I	CCWWGG	1 cut(s)	285
EcoT22I	ATGCAT	1 cut(s)	60
EcoT38I	GRGCYC	1 cut(s)	228
ErhI	CCWWGG	1 cut(s)	285
FaeI	CATG	7 cut(s)	62, 232, 310, 374, 407, 613, 833
FaqI	GGGAC	1 cut(s)	607
FatI	CATG	7 cut(s)	58, 228, 306, 370, 403, 609, 829
FauNDI	CATATG	1 cut(s)	903
Fnu4HI	GCNGC	1 cut(s)	84
FokI	GGATG	4 cut(s)	67, 195, 661, 923
FriOI	GRGCYC	1 cut(s)	228
Fsp4HI	GCNGC	1 cut(s)	84
FspBI	CTAG	5 cut(s)	383, 416, 449, 626, 861
GluI	GCNGC	1 cut(s)	84
HaeIII	GGCC	2 cut(s)	608, 839
HapII	CCGG	4 cut(s)	8, 119, 536, 780
Hin1II	CATG	7 cut(s)	62, 232, 310, 374, 407, 613, 833
HinfI	GANTC	8 cut(s)	4, 189, 277, 364, 532, 620, 805, 884
HpaII	CCGG	4 cut(s)	8, 119, 536, 780
HphI	GGTGA	5 cut(s)	22, 359, 499, 808, 833
Hpy188I	TCNGA	1 cut(s)	21
Hpy188III	TCNNGA	2 cut(s)	165, 176
HpyAV	CCTTC	6 cut(s)	7, 63, 142, 173, 646, 901
HpyCH4III	ACNGT	2 cut(s)	34, 334
HpyCH4V	TGCA	7 cut(s)	58, 156, 398, 464, 584, 679, 698
HpyF10VI	GCNNNNNNNGC	3 cut(s)	83, 319, 825
Hsp92II	CATG	7 cut(s)	62, 232, 310, 374, 407, 613, 833
Kzo9I	GATC	3 cut(s)	16, 21, 256
LmnI	GCTCC	1 cut(s)	235
Lsp1109I	GCAGC	1 cut(s)	70
LweI	GCATC	3 cut(s)	45, 300, 316
MaeI	CTAG	5 cut(s)	383, 416, 449, 626, 861
MaeIII	GTNAC	2 cut(s)	796, 821
MalI	GATC	3 cut(s)	18, 23, 258
MboI	GATC	3 cut(s)	16, 21, 256
MboII	GAAGA	6 cut(s)	251, 494, 502, 625, 643, 668
MfeI	CAATTG	1 cut(s)	315
MflI	RGATCY	2 cut(s)	16, 256
MhlI	GDGCHC	1 cut(s)	228
MlsI	TGGCCA	1 cut(s)	839
MluCI	AATT	6 cut(s)	39, 111, 296, 315, 870, 916
MluNI	TGGCCA	1 cut(s)	839
MlyI	GAGTC	1 cut(s)	629
MmeI	TCCRAC	2 cut(s)	213, 527
Mox20I	TGGCCA	1 cut(s)	839
Mph1103I	ATGCAT	1 cut(s)	60
MroXI	GAANNNNTTC	1 cut(s)	919
MscI	TGGCCA	1 cut(s)	839
MseI	TTAA	4 cut(s)	90, 303, 570, 693
MslI	CAYNNNNRTG	2 cut(s)	372, 794
Msp20I	TGGCCA	1 cut(s)	839
MspI	CCGG	4 cut(s)	8, 119, 536, 780
MspR9I	CCNGG	2 cut(s)	537, 780
MunI	CAATTG	1 cut(s)	315
MwoI	GCNNNNNNNGC	3 cut(s)	83, 319, 825
NciI	CCSGG	2 cut(s)	537, 780
NdeI	CATATG	1 cut(s)	903
NdeII	GATC	3 cut(s)	16, 21, 256
NlaIII	CATG	7 cut(s)	62, 232, 310, 374, 407, 613, 833
NlaIV	GGNNCC	1 cut(s)	343
NmuCI	GTSAC	2 cut(s)	796, 821
NsiI	ATGCAT	1 cut(s)	60
NspI	RCATGY	1 cut(s)	407
PdmI	GAANNNNTTC	1 cut(s)	919
PfeI	GAWTC	7 cut(s)	4, 189, 277, 364, 532, 805, 884
PflMI	CCANNNNNTGG	2 cut(s)	336, 835
PkrI	GCNGC	1 cut(s)	85
PleI	GAGTC	1 cut(s)	628
PpsI	GAGTC	1 cut(s)	628
PshBI	ATTAAT	1 cut(s)	693
PspEI	GGTNACC	1 cut(s)	796
PspN4I	GGNNCC	1 cut(s)	343
PsuI	RGATCY	2 cut(s)	16, 256
RsaI	GTAC	2 cut(s)	271, 683
RsaNI	GTAC	2 cut(s)	270, 682
RseI	CAYNNNNRTG	2 cut(s)	372, 794
SaqAI	TTAA	4 cut(s)	90, 303, 570, 693
SatI	GCNGC	1 cut(s)	84
Sau3AI	GATC	3 cut(s)	16, 21, 256
SchI	GAGTC	1 cut(s)	629
ScrFI	CCNGG	2 cut(s)	537, 780
SduI	GDGCHC	1 cut(s)	228
SetI	ASST	4 cut(s)	79, 489, 708, 720
SfaNI	GCATC	3 cut(s)	45, 300, 316
SfcI	CTRYAG	1 cut(s)	541
SmiMI	CAYNNNNRTG	2 cut(s)	372, 794
Sse9I	AATT	6 cut(s)	39, 111, 296, 315, 870, 916
SsiI	CCGC	1 cut(s)	819
SspI	AATATT	1 cut(s)	457
SspMI	CTAG	5 cut(s)	383, 416, 449, 626, 861
StyD4I	CCNGG	2 cut(s)	535, 778
StyI	CCWWGG	1 cut(s)	285
TaaI	ACNGT	2 cut(s)	34, 334
TaqI	TCGA	1 cut(s)	222
TasI	AATT	6 cut(s)	39, 111, 296, 315, 870, 916
TfiI	GAWTC	7 cut(s)	4, 189, 277, 364, 532, 805, 884
Tru1I	TTAA	4 cut(s)	90, 303, 570, 693
Tru9I	TTAA	4 cut(s)	90, 303, 570, 693
TscAI	CASTG	1 cut(s)	436
TseFI	GTSAC	2 cut(s)	796, 821
TseI	GCWGC	1 cut(s)	83
Tsp45I	GTSAC	2 cut(s)	796, 821
TspDTI	ATGAA	7 cut(s)	113, 124, 626, 665, 835, 887, 920
TspRI	CASTG	1 cut(s)	436
Van91I	CCANNNNNTGG	2 cut(s)	336, 835
VspI	ATTAAT	1 cut(s)	693
XapI	RAATTY	1 cut(s)	296
XceI	RCATGY	1 cut(s)	407
XmnI	GAANNNNTTC	1 cut(s)	919
XspI	CTAG	5 cut(s)	383, 416, 449, 626, 861
Zsp2I	ATGCAT	1 cut(s)	60

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