Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0007750

Physical Location & Seq

Genomic Coordinates Forward (+)

84984650 .. 84986640

Gene Structure 1991 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG501800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGCTTTCAACACTTTCCCTCCATCTTCCTCCTCTGAACCACACGCAGTCCCCAACTTCACAAAACCTCACACCCCATCATCATCATCTTCTCCACACCTTCACCTCCCCATTTGAGCTCAAACAACTCCATGCCCACCTCATCAAAACCAACACTCCCCTCTCCACCCTCCCTCCCACCCGAATCGCCTTCGCTTGCTCTCTCACTCCCAGCTTCTCCTACGCCCAGACACTCTTCCAACACCTCGAATACCCCGATATCACTGCCTGGAATTCCTGCCTGAAAGCCGTCGCCGAAGGCGATGAGCCCATTGATGCAATGCTGCTCTTCCATCAGCTGCATTGCTTCAATGTAATTCCTGACAGTTTCACTCTGTCCTTTGTTCTAAAGGCCTGTACCCGCTTGTTGGATTTTCACACTGGTAGACTGCTACATGGCTATGTGGAGAAGCTTGGGTTTCGGTCCAATCTGTTTTTGATGAATATGATTCTGAATTTGTATGCATTGTGTGGGGAAATTAGGGATGCACGGCTGATGTTTGATAAAATGCCGCAGAGGGATGTTGTCACGTGGAATATAATGATGACTCTGTTGGTGAAGAGAGGTGATATAGAGCAAGCTTATGATTTGTTTTCGGGGATGCCGGATAGAAGTGTGAGGTCGTGGACGCTGATGATTTCGGGGTTTGGTCAGTGCGGTAAGCCTAAGGAGGCGATTCGTGTGTTTTTGGAGATGGAGGAGGCTGGTGTGAGGGCAAATGAGGTGACTGTAGTGGCGGTTCTTGCGGCTTGTGCTGATTTGGGTGACTTGGATTTGGGTAGGAGAGTTCATGAGTACTCGAAGGAAAGTGGGTTTGGAAGAAATGTTTGGATTTGTAACACGCTGATCGAGATGTATGTCAAATGTGGGTGTTTGGAGGATGCTTGTAGAGTTTTTGATGCGATGGAAGAACGAACGGTTGTGTCGTGTAACAAAGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

326

Amino Acids

36.88

Weight (kDa)

6.3

Isoelectric Point (pI)

46.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	186 - 219	3.8e-08	PPR repeat family
PPR_2	PF13041	218 - 265	4.3e-09	PPR repeat family
PPR	PF01535	221 - 250	1.5e-08	PPR repeat

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007750)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15930
fragaria_vesca	FvH4_3g42650
malus_domestica	MD03G1030100.v1.1 MD11G1035200.v1.1 MD17G1214200.v1.1
prunus_persica	Prupe.3G090100_v2.0.a1 Prupe.6G026400_v2.0.a1
pyrus_communis	pycom17g21890
rosa_chinensis	RchiOBHm_Chr2g0134941 RchiOBHm_Chr5g0076281 RchiOBHm_Chr5g0076601 RchiOBHm_Chr5g0076611
rosa_laevigata	RLG00000019432 RLG00000036613
rosa_multiflora	Rmu_sc0001385.1_g000005 Rmu_sc0007475.1_g000006
rosa_roxburghii	Rroxscaffold_1G00005580
rosa_rugosa	Rorug02G0321400 Rorug05G0446800
rosa_samantha	Rh2CG357900 Rh5AG501800 Rh5BG523600 Rh5CG547300
rosa_wichuraiana	Rw2G030420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	424
AciI	CCGC	5 cut(s)	400, 551, 696, 776, 785
AcsI	RAATTY	2 cut(s)	271, 493
AcvI	CACGTG	1 cut(s)	570
AfaI	GTAC	2 cut(s)	397, 836
AfiI	CCNNNNNNNGG	1 cut(s)	406
AgsI	TTSAA	2 cut(s)	9, 349
AjnI	CCWGG	1 cut(s)	266
AjuI	GAANNNNNNNTTGG	4 cut(s)	837, 850, 869, 882
AluBI	AGCT	5 cut(s)	118, 213, 337, 451, 620
AluI	AGCT	5 cut(s)	118, 213, 337, 451, 620
Alw21I	GWGCWC	1 cut(s)	120
AoxI	GGCC	1 cut(s)	390
ApeKI	GCWGC	2 cut(s)	322, 337
ApoI	RAATTY	2 cut(s)	271, 493
AspS9I	GGNCC	1 cut(s)	462
AsuHPI	GGTGA	5 cut(s)	94, 607, 617, 775, 815
AvaII	GGWCC	1 cut(s)	462
AxyI	CCTNAGG	1 cut(s)	705
BanII	GRGCYC	2 cut(s)	120, 309
BbrPI	CACGTG	1 cut(s)	570
Bbv12I	GWGCWC	1 cut(s)	120
BbvI	GCAGC	2 cut(s)	309, 324
BccI	CCATC	5 cut(s)	30, 84, 339, 727, 937
BceAI	ACGGC	2 cut(s)	272, 545
BcgI	CGANNNNNNTGC	2 cut(s)	245, 279
BciT130I	CCWGG	1 cut(s)	268
BfmI	CTRYAG	1 cut(s)	768
BisI	GCNGC	4 cut(s)	323, 338, 551, 786
BlsI	GCNGC	4 cut(s)	324, 339, 552, 787
BmcAI	AGTACT	1 cut(s)	836
Bme1390I	CCNGG	1 cut(s)	268
Bme18I	GGWCC	1 cut(s)	462
BmgT120I	GGNCC	1 cut(s)	462
BmrFI	CCNGG	1 cut(s)	268
BmsI	GCATC	5 cut(s)	304, 514, 630, 910, 928
BsaAI	YACGTR	1 cut(s)	570
BsaXI	ACNNNNNCTCC	5 cut(s)	33, 139, 157, 169, 187
Bsc4I	CCNNNNNNNGG	1 cut(s)	406
Bse1I	ACTGG	1 cut(s)	424
Bse21I	CCTNAGG	1 cut(s)	705
Bse3DI	GCAATG	2 cut(s)	324, 340
BseBI	CCWGG	1 cut(s)	268
BseGI	GGATG	4 cut(s)	529, 565, 645, 925
BseLI	CCNNNNNNNGG	1 cut(s)	406
BseMI	GCAATG	2 cut(s)	324, 340
BseNI	ACTGG	1 cut(s)	424
BseRI	GAGGAG	2 cut(s)	21, 752
BseXI	GCAGC	2 cut(s)	309, 324
BseYI	CCCAGC	1 cut(s)	209
BshFI	GGCC	1 cut(s)	392
BsiHKAI	GWGCWC	1 cut(s)	120
BsiSI	CCGG	1 cut(s)	644
BslFI	GGGAC	1 cut(s)	34
BslI	CCNNNNNNNGG	1 cut(s)	406
BsmFI	GGGAC	1 cut(s)	34
BsnI	GGCC	1 cut(s)	392
Bsp1286I	GDGCHC	2 cut(s)	120, 309
Bsp143I	GATC	1 cut(s)	885
BspACI	CCGC	5 cut(s)	400, 551, 696, 776, 785
BspANI	GGCC	1 cut(s)	392
BspHI	TCATGA	1 cut(s)	829
BspQI	GCTCTTC	1 cut(s)	332
BsrDI	GCAATG	2 cut(s)	324, 340
BsrI	ACTGG	1 cut(s)	424
BssMI	GATC	1 cut(s)	885
Bst2UI	CCWGG	1 cut(s)	268
Bst4CI	ACNGT	3 cut(s)	365, 769, 958
Bst6I	CTCTTC	3 cut(s)	239, 332, 593
BstBAI	YACGTR	1 cut(s)	570
BstC8I	GCNNGC	2 cut(s)	196, 618
BstDEI	CTNAG	1 cut(s)	705
BstF5I	GGATG	4 cut(s)	529, 565, 645, 925
BstKTI	GATC	1 cut(s)	888
BstMBI	GATC	1 cut(s)	885
BstMWI	GCNNNNNNNGC	2 cut(s)	782, 791
BstNI	CCWGG	1 cut(s)	268
BstSCI	CCNGG	1 cut(s)	266
BstSFI	CTRYAG	1 cut(s)	768
BstV1I	GCAGC	2 cut(s)	309, 324
Bsu36I	CCTNAGG	1 cut(s)	705
BsuRI	GGCC	1 cut(s)	392
BtgZI	GCGATG	2 cut(s)	315, 956
BtsCI	GGATG	4 cut(s)	529, 565, 645, 925
BtsI	GCAGTG	1 cut(s)	261
BtsIMutI	CAGTG	3 cut(s)	261, 417, 698
Cac8I	GCNNGC	2 cut(s)	196, 618
CciI	TCATGA	1 cut(s)	829
Cfr13I	GGNCC	1 cut(s)	462
CseI	GACGC	1 cut(s)	676
Csp6I	GTAC	2 cut(s)	396, 835
CviAII	CATG	4 cut(s)	131, 434, 830, 978
CviQI	GTAC	2 cut(s)	396, 835
DdeI	CTNAG	1 cut(s)	705
DpnI	GATC	1 cut(s)	887
DpnII	GATC	1 cut(s)	885
Eam1104I	CTCTTC	3 cut(s)	239, 332, 593
EarI	CTCTTC	3 cut(s)	239, 332, 593
Ecl136II	GAGCTC	1 cut(s)	118
Eco147I	AGGCCT	1 cut(s)	392
Eco24I	GRGCYC	2 cut(s)	120, 309
Eco32I	GATATC	1 cut(s)	259
Eco47I	GGWCC	1 cut(s)	462
Eco53kI	GAGCTC	1 cut(s)	118
Eco72I	CACGTG	1 cut(s)	570
Eco81I	CCTNAGG	1 cut(s)	705
EcoICRI	GAGCTC	1 cut(s)	118
EcoRI	GAATTC	1 cut(s)	271
EcoRII	CCWGG	1 cut(s)	266
EcoRV	GATATC	1 cut(s)	259
EcoT22I	ATGCAT	1 cut(s)	505
EcoT38I	GRGCYC	2 cut(s)	120, 309
FaeI	CATG	4 cut(s)	134, 437, 833, 981
FaqI	GGGAC	1 cut(s)	34
FatI	CATG	4 cut(s)	130, 433, 829, 977
FauI	CCCGC	1 cut(s)	407
FblI	GTMKAC	1 cut(s)	424
Fnu4HI	GCNGC	4 cut(s)	323, 338, 551, 786
FokI	GGATG	4 cut(s)	536, 572, 652, 932
FriOI	GRGCYC	2 cut(s)	120, 309
Fsp4HI	GCNGC	4 cut(s)	323, 338, 551, 786
GluI	GCNGC	4 cut(s)	323, 338, 551, 786
GsaI	CCCAGC	1 cut(s)	213
HaeIII	GGCC	1 cut(s)	392
HapII	CCGG	1 cut(s)	644
HgaI	GACGC	1 cut(s)	676
Hin1II	CATG	4 cut(s)	134, 437, 833, 981
HindIII	AAGCTT	2 cut(s)	449, 618
HinfI	GANTC	4 cut(s)	183, 487, 586, 715
HpaII	CCGG	1 cut(s)	644
HphI	GGTGA	5 cut(s)	94, 607, 617, 775, 815
Hpy166II	GTNNAC	2 cut(s)	425, 666
Hpy188I	TCNGA	2 cut(s)	36, 492
Hpy188III	TCNNGA	3 cut(s)	359, 830, 889
Hpy8I	GTNNAC	2 cut(s)	425, 666
Hpy99I	CGWCG	1 cut(s)	293
HpyAV	CCTTC	4 cut(s)	109, 199, 290, 835
HpyCH4III	ACNGT	3 cut(s)	365, 769, 958
HpyCH4IV	ACGT	1 cut(s)	569
HpyCH4V	TGCA	4 cut(s)	317, 340, 503, 527
HpyF10VI	GCNNNNNNNGC	2 cut(s)	782, 791
HpyF3I	CTNAG	1 cut(s)	705
HpySE526I	ACGT	1 cut(s)	569
Hsp92II	CATG	4 cut(s)	134, 437, 833, 981
Kzo9I	GATC	1 cut(s)	885
LguI	GCTCTTC	1 cut(s)	332
Lsp1109I	GCAGC	2 cut(s)	309, 324
LweI	GCATC	5 cut(s)	304, 514, 630, 910, 928
MaeII	ACGT	1 cut(s)	569
MaeIII	GTNAC	5 cut(s)	565, 763, 803, 875, 968
MalI	GATC	1 cut(s)	887
MboI	GATC	1 cut(s)	885
MboII	GAAGA	7 cut(s)	17, 80, 226, 319, 610, 870, 959
MhlI	GDGCHC	2 cut(s)	120, 309
MluCI	AATT	4 cut(s)	271, 354, 493, 516
MlyI	GAGTC	1 cut(s)	580
MmeI	TCCRAC	2 cut(s)	262, 387
Mph1103I	ATGCAT	1 cut(s)	505
MslI	CAYNNNNRTG	1 cut(s)	438
MspA1I	CMGCKG	1 cut(s)	337
MspI	CCGG	1 cut(s)	644
MspR9I	CCNGG	1 cut(s)	268
MvaI	CCWGG	1 cut(s)	268
MwoI	GCNNNNNNNGC	2 cut(s)	782, 791
NdeII	GATC	1 cut(s)	885
NlaIII	CATG	4 cut(s)	134, 437, 833, 981
NmuCI	GTSAC	3 cut(s)	565, 763, 803
NsiI	ATGCAT	1 cut(s)	505
PagI	TCATGA	1 cut(s)	829
PceI	AGGCCT	1 cut(s)	392
PciSI	GCTCTTC	1 cut(s)	332
PcsI	WCGNNNNNNNCGW	3 cut(s)	252, 297, 962
PfeI	GAWTC	3 cut(s)	183, 487, 715
PkrI	GCNGC	4 cut(s)	324, 339, 552, 787
PleI	GAGTC	1 cut(s)	580
PmaCI	CACGTG	1 cut(s)	570
PmlI	CACGTG	1 cut(s)	570
PpsI	GAGTC	1 cut(s)	580
Ppu21I	YACGTR	1 cut(s)	570
Psp124BI	GAGCTC	1 cut(s)	120
Psp6I	CCWGG	1 cut(s)	266
PspCI	CACGTG	1 cut(s)	570
PspFI	CCCAGC	1 cut(s)	209
PspGI	CCWGG	1 cut(s)	266
PspPI	GGNCC	1 cut(s)	462
PsrI	GAACNNNNNNTAC	2 cut(s)	762, 794
PvuII	CAGCTG	1 cut(s)	337
RsaI	GTAC	2 cut(s)	397, 836
RsaNI	GTAC	2 cut(s)	396, 835
RseI	CAYNNNNRTG	1 cut(s)	438
SacI	GAGCTC	1 cut(s)	120
SapI	GCTCTTC	1 cut(s)	332
SatI	GCNGC	4 cut(s)	323, 338, 551, 786
Sau3AI	GATC	1 cut(s)	885
Sau96I	GGNCC	1 cut(s)	462
ScaI	AGTACT	1 cut(s)	836
SchI	GAGTC	1 cut(s)	580
ScrFI	CCNGG	1 cut(s)	268
SduI	GDGCHC	2 cut(s)	120, 309
SfaNI	GCATC	5 cut(s)	304, 514, 630, 910, 928
SfcI	CTRYAG	1 cut(s)	768
SinI	GGWCC	1 cut(s)	462
SmiMI	CAYNNNNRTG	1 cut(s)	438
Sse9I	AATT	4 cut(s)	271, 354, 493, 516
SseBI	AGGCCT	1 cut(s)	392
SsiI	CCGC	5 cut(s)	400, 551, 696, 776, 785
SstI	GAGCTC	1 cut(s)	120
StuI	AGGCCT	1 cut(s)	392
StyD4I	CCNGG	1 cut(s)	266
TaaI	ACNGT	3 cut(s)	365, 769, 958
TaiI	ACGT	1 cut(s)	572
TaqI	TCGA	3 cut(s)	246, 839, 888
TaqII	GACCGA	1 cut(s)	450
TasI	AATT	4 cut(s)	271, 354, 493, 516
TatI	WGTACW	1 cut(s)	834
TauI	GCSGC	2 cut(s)	553, 788
TfiI	GAWTC	3 cut(s)	183, 487, 715
TscAI	CASTG	3 cut(s)	268, 424, 698
TseFI	GTSAC	3 cut(s)	565, 763, 803
TseI	GCWGC	2 cut(s)	322, 337
Tsp45I	GTSAC	3 cut(s)	565, 763, 803
TspDTI	ATGAA	2 cut(s)	494, 818
TspRI	CASTG	3 cut(s)	268, 424, 698
VpaK11BI	GGWCC	1 cut(s)	462
XapI	RAATTY	2 cut(s)	271, 493
XmiI	GTMKAC	1 cut(s)	424
ZrmI	AGTACT	1 cut(s)	836
Zsp2I	ATGCAT	1 cut(s)	505

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