Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Reverse (-)

31169161 .. 31170207

Gene Structure 1047 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG162400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1047 bp

ATGCTCTCCACTTCCTCAAGGCGTTTCCGATGCCACAGAGCAGCAGAGCTATCCAAACCCCCTCTGGGTCCCGACCCATTTCCGATTCGGATTCAGAAATCTCCACCACTTCCCGACCCGAACAACCGGCCATCCTTCACCACCGTAACTTCATCCATCAACCACACTCGCCCCTCTTCCGAATCACAACAACAAGCACTAGTGACCCAAATTCTCTCCACCATTGAAAAGGCCCCTACATTACTTCAATCCCTACACAACAAACGCATCTTCCTAAACCCCAAATCTTTCAACCGCGTTTTGATCTCAGCCGCCCAAAGAAACCATCTTTACCTCGTAACCCAAATCTTCAAGCTCGCAATTGCTTCCAAAATTCAACCTTTAAACTCGAATTGTTATCTCACTGTAGCCAAAGCCTTTGCAAAGGCAAGTGATTGTGTTGTGGAGCTGCTCAGTTTTACCGAGCAAGTATTGGAATTGACCCAACCGAGCATGACAGTGATAAACAGGCTTCTCTTTGCATTTGGTAAATGCAAAGAGACCGATAATGCAATTCTGATCTTCACCCAGGTGAAAGATCGAAACTTTACTCCGGATATGTACACATACAACACTGTTCTTGAGATATTGGGCCGGGCGGGTCGGACAGGTGAGATGCTGGGGCTGTTTGGGGAAATGAAGGAAGCTGGGATTGACCCGGATTTGGTTTCTTACAATACAGTAATAAACCATGTGAGGAAGTTTGGGGAAGTTGATATGTGCTTGTTCTATTTCAAGGAAATGTGTGAAAAGGGTGTCCAGCCTGATTTGCTTACTTACACTGCAGTCATTGACGGGTTGGGGAGGTCAGGAGACATTGAGGAGTCGTTGAAGTTGTTTGGTGAGATGAAGGAGAGGCGGATTCGGCCTTCGTTGTATCTTTATAGAGCAGTGATTAGTAATTTGAAGAAGATGGGGAAGCTGGAGATGGCGGCGAGTTTTATGGAGGAGATGAATTCGTGTGCTTCAAGTCTTCGTGCTAGTCGTAAATCGAATAAATGCGAGTAG

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

348

Amino Acids

39.2

Weight (kDa)

9.25

Isoelectric Point (pI)

39.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	164 - 208	5.4e-06	PPR repeat family
PPR_long	PF17177	176 - 290	2.4e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	187 - 244	2.8e-10	Pentatricopeptide repeat domain
PPR	PF01535	201 - 231	4.2e-06	PPR repeat
PPR_2	PF13041	202 - 243	1.3e-09	PPR repeat family
PPR_2	PF13041	233 - 281	3.1e-12	PPR repeat family
PPR_3	PF13812	258 - 313	7.4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	264 - 297	7.8e-09	PPR repeat
PPR_2	PF13041	268 - 315	1.6e-09	PPR repeat family
PPR	PF01535	272 - 301	1.8e-08	PPR repeat

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: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	297
AccIII	TCCGGA	1 cut(s)	592
AciI	CCGC	5 cut(s)	295, 312, 638, 898, 971
AcoI	YGGCCR	1 cut(s)	128
AcsI	RAATTY	3 cut(s)	210, 372, 994
AfaI	GTAC	1 cut(s)	602
AfiI	CCNNNNNNNGG	2 cut(s)	65, 703
AgsI	TTSAA	9 cut(s)	227, 248, 292, 352, 377, 775, 871, 946, 1008
AhlI	ACTAGT	1 cut(s)	199
AjnI	CCWGG	1 cut(s)	567
AleI	CACNNNNGTG	1 cut(s)	569
AluBI	AGCT	5 cut(s)	49, 355, 448, 686, 961
AluI	AGCT	5 cut(s)	49, 355, 448, 686, 961
Alw26I	GTCTC	2 cut(s)	533, 846
Aor13HI	TCCGGA	1 cut(s)	592
AoxI	GGCC	4 cut(s)	128, 231, 631, 905
ApeKI	GCWGC	2 cut(s)	41, 448
ApoI	RAATTY	3 cut(s)	210, 372, 994
AspS9I	GGNCC	3 cut(s)	68, 232, 631
AsuC2I	CCSGG	2 cut(s)	635, 698
AsuHPI	GGTGA	5 cut(s)	130, 556, 583, 662, 893
AvaII	GGWCC	1 cut(s)	68
BbsI	GAAGAC	1 cut(s)	1004
BbvI	GCAGC	2 cut(s)	53, 435
BccI	CCATC	5 cut(s)	139, 164, 333, 946, 961
BciT130I	CCWGG	1 cut(s)	569
BcnI	CCSGG	2 cut(s)	635, 698
BcoDI	GTCTC	2 cut(s)	533, 846
BcuI	ACTAGT	1 cut(s)	199
BfaI	CTAG	2 cut(s)	200, 1020
BfmI	CTRYAG	2 cut(s)	405, 822
BisI	GCNGC	4 cut(s)	42, 312, 449, 972
BlsI	GCNGC	4 cut(s)	43, 313, 450, 973
Bme1390I	CCNGG	3 cut(s)	569, 635, 698
Bme18I	GGWCC	1 cut(s)	68
BmgT120I	GGNCC	3 cut(s)	68, 232, 631
BmiI	GGNNCC	3 cut(s)	69, 70, 234
BmrFI	CCNGG	3 cut(s)	569, 635, 698
BmsI	GCATC	3 cut(s)	20, 276, 645
BpiI	GAAGAC	1 cut(s)	1004
BpmI	CTGGAG	1 cut(s)	983
BpuEI	CTTGAG	1 cut(s)	641
BpuMI	CCSGG	2 cut(s)	635, 698
BsaI	GGTCTC	1 cut(s)	533
BsaJI	CCNNGG	1 cut(s)	567
BsaWI	WCCGGW	1 cut(s)	592
Bsc4I	CCNNNNNNNGG	2 cut(s)	65, 703
Bse118I	RCCGGY	1 cut(s)	126
BseAI	TCCGGA	1 cut(s)	592
BseBI	CCWGG	1 cut(s)	569
BseDI	CCNNGG	1 cut(s)	567
BseGI	GGATG	2 cut(s)	131, 152
BseLI	CCNNNNNNNGG	2 cut(s)	65, 703
BseMII	CTCAG	2 cut(s)	321, 466
BseRI	GAGGAG	2 cut(s)	875, 1001
BseXI	GCAGC	2 cut(s)	53, 435
BseYI	CCCAGC	2 cut(s)	658, 686
Bsh1236I	CGCG	1 cut(s)	297
BshFI	GGCC	4 cut(s)	130, 233, 633, 907
BsiSI	CCGG	4 cut(s)	127, 593, 634, 698
BslFI	GGGAC	1 cut(s)	54
BslI	CCNNNNNNNGG	2 cut(s)	65, 703
BsmAI	GTCTC	2 cut(s)	533, 846
BsmFI	GGGAC	1 cut(s)	54
BsnI	GGCC	4 cut(s)	130, 233, 633, 907
Bso31I	GGTCTC	1 cut(s)	533
Bsp13I	TCCGGA	1 cut(s)	592
Bsp1407I	TGTACA	1 cut(s)	600
Bsp143I	GATC	3 cut(s)	303, 558, 577
BspACI	CCGC	5 cut(s)	295, 312, 638, 898, 971
BspANI	GGCC	4 cut(s)	130, 233, 633, 907
BspCNI	CTCAG	2 cut(s)	320, 465
BspEI	TCCGGA	1 cut(s)	592
BspFNI	CGCG	1 cut(s)	297
BspLI	GGNNCC	3 cut(s)	69, 70, 234
BspMAI	CTGCAG	1 cut(s)	826
BspTNI	GGTCTC	1 cut(s)	533
BsrFI	RCCGGY	1 cut(s)	126
BsrGI	TGTACA	1 cut(s)	600
BssAI	RCCGGY	1 cut(s)	126
BssECI	CCNNGG	1 cut(s)	567
BssMI	GATC	3 cut(s)	303, 558, 577
Bst2UI	CCWGG	1 cut(s)	569
Bst4CI	ACNGT	5 cut(s)	145, 406, 499, 616, 721
Bst6I	CTCTTC	1 cut(s)	181
BstAUI	TGTACA	1 cut(s)	600
BstC8I	GCNNGC	1 cut(s)	357
BstDEI	CTNAG	2 cut(s)	307, 452
BstF5I	GGATG	2 cut(s)	131, 152
BstFNI	CGCG	1 cut(s)	297
BstKTI	GATC	3 cut(s)	306, 561, 580
BstMAI	GTCTC	2 cut(s)	533, 846
BstMBI	GATC	3 cut(s)	303, 558, 577
BstMWI	GCNNNNNNNGC	2 cut(s)	808, 904
BstNI	CCWGG	1 cut(s)	569
BstSCI	CCNGG	3 cut(s)	567, 633, 696
BstSFI	CTRYAG	2 cut(s)	405, 822
BstUI	CGCG	1 cut(s)	297
BstV1I	GCAGC	2 cut(s)	53, 435
BstV2I	GAAGAC	1 cut(s)	1004
BsuRI	GGCC	4 cut(s)	130, 233, 633, 907
BtsCI	GGATG	2 cut(s)	131, 152
BtsI	GCAGTG	2 cut(s)	819, 936
BtsIMutI	CAGTG	5 cut(s)	402, 504, 612, 819, 936
Cac8I	GCNNGC	1 cut(s)	357
Cfr10I	RCCGGY	1 cut(s)	126
Cfr13I	GGNCC	3 cut(s)	68, 232, 631
Csp6I	GTAC	1 cut(s)	601
CviAII	CATG	2 cut(s)	493, 731
CviQI	GTAC	1 cut(s)	601
DdeI	CTNAG	2 cut(s)	307, 452
DpnI	GATC	3 cut(s)	305, 560, 579
DpnII	GATC	3 cut(s)	303, 558, 577
DraI	TTTAAA	1 cut(s)	384
EaeI	YGGCCR	1 cut(s)	128
Eam1104I	CTCTTC	1 cut(s)	181
EarI	CTCTTC	1 cut(s)	181
EciI	GGCGGA	1 cut(s)	913
Eco31I	GGTCTC	1 cut(s)	533
Eco47I	GGWCC	1 cut(s)	68
EcoO109I	RGGNCCY	2 cut(s)	68, 232
EcoRI	GAATTC	1 cut(s)	994
EcoRII	CCWGG	1 cut(s)	567
FaeI	CATG	2 cut(s)	496, 734
FaiI	YATR	7 cut(s)	494, 599, 607, 732, 758, 924, 983
FaqI	GGGAC	1 cut(s)	54
FatI	CATG	2 cut(s)	492, 730
FauI	CCCGC	1 cut(s)	631
Fnu4HI	GCNGC	4 cut(s)	42, 312, 449, 972
FokI	GGATG	2 cut(s)	118, 139
Fsp4HI	GCNGC	4 cut(s)	42, 312, 449, 972
FspBI	CTAG	2 cut(s)	200, 1020
GluI	GCNGC	4 cut(s)	42, 312, 449, 972
GsaI	CCCAGC	2 cut(s)	662, 690
GsuI	CTGGAG	1 cut(s)	983
HaeIII	GGCC	4 cut(s)	130, 233, 633, 907
HapII	CCGG	4 cut(s)	127, 593, 634, 698
Hin1II	CATG	2 cut(s)	496, 734
HinfI	GANTC	5 cut(s)	85, 91, 182, 863, 901
HpaII	CCGG	4 cut(s)	127, 593, 634, 698
HphI	GGTGA	5 cut(s)	130, 556, 583, 662, 893
Hpy166II	GTNNAC	1 cut(s)	603
Hpy188I	TCNGA	7 cut(s)	29, 84, 90, 96, 181, 558, 645
Hpy188III	TCNNGA	5 cut(s)	71, 113, 593, 620, 849
Hpy8I	GTNNAC	1 cut(s)	603
HpyAV	CCTTC	4 cut(s)	145, 673, 883, 918
HpyCH4III	ACNGT	5 cut(s)	145, 406, 499, 616, 721
HpyCH4V	TGCA	5 cut(s)	422, 521, 534, 551, 824
HpyF10VI	GCNNNNNNNGC	2 cut(s)	808, 904
HpyF3I	CTNAG	2 cut(s)	307, 452
Hsp92II	CATG	2 cut(s)	496, 734
KflI	GGGWCCC	1 cut(s)	68
Kpn2I	TCCGGA	1 cut(s)	592
Kzo9I	GATC	3 cut(s)	303, 558, 577
LmnI	GCTCC	1 cut(s)	445
Lsp1109I	GCAGC	2 cut(s)	53, 435
LweI	GCATC	3 cut(s)	20, 276, 645
MaeI	CTAG	2 cut(s)	200, 1020
MaeIII	GTNAC	3 cut(s)	145, 202, 337
MalI	GATC	3 cut(s)	305, 560, 579
MboI	GATC	3 cut(s)	303, 558, 577
MboII	GAAGA	7 cut(s)	168, 262, 340, 553, 958, 961, 1004
MfeI	CAATTG	1 cut(s)	360
MluCI	AATT	8 cut(s)	210, 360, 372, 391, 476, 552, 940, 994
MlyI	GAGTC	1 cut(s)	872
MmeI	TCCRAC	1 cut(s)	623
MnlI	CCTC	9 cut(s)	25, 72, 184, 344, 729, 837, 853, 888, 979
MroI	TCCGGA	1 cut(s)	592
MseI	TTAA	1 cut(s)	383
MslI	CAYNNNNRTG	2 cut(s)	497, 569
MspI	CCGG	4 cut(s)	127, 593, 634, 698
MspR9I	CCNGG	3 cut(s)	569, 635, 698
MunI	CAATTG	1 cut(s)	360
MvaI	CCWGG	1 cut(s)	569
MvnI	CGCG	1 cut(s)	297
MwoI	GCNNNNNNNGC	2 cut(s)	808, 904
NciI	CCSGG	2 cut(s)	635, 698
NdeII	GATC	3 cut(s)	303, 558, 577
NlaIII	CATG	2 cut(s)	496, 734
NlaIV	GGNNCC	3 cut(s)	69, 70, 234
NmuCI	GTSAC	1 cut(s)	202
OliI	CACNNNNGTG	1 cut(s)	569
PcsI	WCGNNNNNNNCGW	1 cut(s)	1021
PfeI	GAWTC	4 cut(s)	85, 91, 182, 901
PkrI	GCNGC	4 cut(s)	43, 313, 450, 973
PleI	GAGTC	1 cut(s)	871
PpsI	GAGTC	1 cut(s)	871
PpuMI	RGGWCCY	1 cut(s)	68
Psp5II	RGGWCCY	1 cut(s)	68
Psp6I	CCWGG	1 cut(s)	567
PspFI	CCCAGC	2 cut(s)	658, 686
PspGI	CCWGG	1 cut(s)	567
PspN4I	GGNNCC	3 cut(s)	69, 70, 234
PspPI	GGNCC	3 cut(s)	68, 232, 631
PspPPI	RGGWCCY	1 cut(s)	68
PstI	CTGCAG	1 cut(s)	826
RsaI	GTAC	1 cut(s)	602
RsaNI	GTAC	1 cut(s)	601
RseI	CAYNNNNRTG	2 cut(s)	497, 569
SaqAI	TTAA	1 cut(s)	383
SatI	GCNGC	4 cut(s)	42, 312, 449, 972
Sau3AI	GATC	3 cut(s)	303, 558, 577
Sau96I	GGNCC	3 cut(s)	68, 232, 631
SchI	GAGTC	1 cut(s)	872
ScrFI	CCNGG	3 cut(s)	569, 635, 698
SfaNI	GCATC	3 cut(s)	20, 276, 645
SfcI	CTRYAG	2 cut(s)	405, 822
SinI	GGWCC	1 cut(s)	68
SmiMI	CAYNNNNRTG	2 cut(s)	497, 569
SmlI	CTYRAG	2 cut(s)	16, 620
SmoI	CTYRAG	2 cut(s)	16, 620
SpeI	ACTAGT	1 cut(s)	199
Sse9I	AATT	8 cut(s)	210, 360, 372, 391, 476, 552, 940, 994
SsiI	CCGC	5 cut(s)	295, 312, 638, 898, 971
SspMI	CTAG	2 cut(s)	200, 1020
StyD4I	CCNGG	3 cut(s)	567, 633, 696
TaaI	ACNGT	5 cut(s)	145, 406, 499, 616, 721
TaqI	TCGA	3 cut(s)	389, 580, 1031
TaqII	GACCGA	1 cut(s)	557
TasI	AATT	8 cut(s)	210, 360, 372, 391, 476, 552, 940, 994
TatI	WGTACW	1 cut(s)	600
TauI	GCSGC	2 cut(s)	314, 974
TfiI	GAWTC	4 cut(s)	85, 91, 182, 901
Tru1I	TTAA	1 cut(s)	383
Tru9I	TTAA	1 cut(s)	383
TscAI	CASTG	5 cut(s)	409, 504, 619, 826, 936
TseFI	GTSAC	1 cut(s)	202
TseI	GCWGC	2 cut(s)	41, 448
Tsp45I	GTSAC	1 cut(s)	202
TspDTI	ATGAA	4 cut(s)	141, 692, 902, 1007
TspRI	CASTG	5 cut(s)	409, 504, 619, 826, 936
VpaK11BI	GGWCC	1 cut(s)	68
XapI	RAATTY	3 cut(s)	210, 372, 994
XcmI	CCANNNNNNNNNTGG	1 cut(s)	61
XspI	CTAG	2 cut(s)	200, 1020

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