Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0008146

Physical Location & Seq

Genomic Coordinates Forward (+)

2116641 .. 2118312

Gene Structure 1672 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0027300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1467 bp

ATGGCACCTACAAACCCTAGTAGTGCCTTTTGTCATTTACGCAAGTATTATTATAGTTTGGTGGTCATCACTATTTTTTCCATTCATCTCGTATGTTTTTTTTATACCGCAGCGGCAGATATCAACAATTATAATGGTGGATTTAGTGCTCATCTTATCCGAAGAAACTCTCTAAATTCACTCTTGTACAATCACAAAAGGAACAAAAGTTTCCGACGTTTGATGGGTCCAGAAACGCCGCAATCAACACTAGCAACCGATCCAGATGGTAGCGAACATCTTATGAAATTGTCAATAGGAACTCCGCCTTTCGATATCTATGTAATTGCTGATACAGGCAGCACTCTACTATGGACTCAATGCCAGCCATGTAAAAGTTGCTTCAAGACGAAACATGCCATATTTGACCCGAAAGAATCCTCAACTTATAGGAACATTACTTGTTCTCAAAGCGAGTGTAGACTTGTTGACGAGTTCTCACCTCGAAACTATTGCAAAAGAAATCCTCAAGCTGCTTGCATGTATGATTCAACGTATGCAGATGAGTCATACTCTAAAGGTACAGTGGCTAAAGAAGTAATTACCTTGAAGTCCACGTCAGGTAAGGTTGTAATCCTAAAAGATATTGTCATTGGGTGTGGGCAAAACAACAGTGGTATAGAGGCAAGTGAGAATGAAATGGGAATAATAGGGCTTGGACGCGGGCCCTTGTCATTTGCTTCTCAAATCAGTCCCTATGTTGGAGGCAAAAAATTCTCGTATTGCTTTGTGCCTGTTAGTACTGATCCCAAAATCGAAAGTACTATTAATTTCGGGAATGGGAGTGAAGTTTCGGGTGAAGGGGTGGTGTCAACACCTTTGATCGATGTAGAATCGGACATGGATAGTTATCTTGTGACGATGAAAGGAATTACAATTGGAAATGATTTTGTTCCTTTTAACTCAACAGGAACATTGCTTGAGAAAGGTAACACGTTGATCGACTCAGGCACAGCTTTATCATATTTACCTCAAGATTTTTATGAACGGGTGGTGAATCAGCTGGTACACAAACTTGATCCGAATTTGGAGGTAATCAATTATATTGACGAAGATAATTCAAGTAGCATATGCTTCAACACGACAACGCTTCCAAAAGCACCAAATATGGCTGTGCATTTTGACGATGGTGGAAAATTACAATTAACGGCGGAACATATATTTAGAGACGAAGAGAAAAAATTAGTCTGCCTTGGACTAATGAACTCTAGTAAGCAGGGCTTCTCTAGTGACGATATTGGTGTTCTCGGAAACAATGTTCAAGAAAATTTCTTGATTGGTTTTGACTTGGATAAAAAATGGGTCTCCTTCAAGCCTACTAATTGCATAAAGATGGCTGCTGCTAGTGGTGCTAATATTGCTACTCATCTCTTTTCCATTTTCTCTACTTGCCTTTTGTATTTGTTTTTGATTGTGAAATCATCTTAG

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

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

488

Amino Acids

53.71

Weight (kDa)

5.96

Isoelectric Point (pI)

40.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TAXi_N	PF14543	94 - 273	3.6e-48	Xylanase inhibitor N-terminal
Asp	PF00026	94 - 145	2.8e-08	Eukaryotic aspartyl protease
Asp	PF00026	147 - 450	1e-10	Eukaryotic aspartyl protease
TAXi_C	PF14541	297 - 451	1.5e-24	Xylanase inhibitor C-terminal

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

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

Orthologous Genes (Group: OG0008146)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g08430 FvH4_6g08430 FvH4_6g08430 FvH4_6g08430
malus_domestica	MD04G1187000.v1.1 MD12G1200400.v1.1
prunus_persica	Prupe.6G305500_v2.0.a1 Prupe.6G305500_v2.0.a1
pyrus_communis	pycom04g16510
rosa_chinensis	RchiOBHm_Chr3g0458391
rosa_laevigata	RLG00000025162
rosa_multiflora	Rmu_sc0036031.1_g000001
rosa_roxburghii	Rroxscaffold_6G00421110
rosa_rugosa	Rorug03G0027100 Rorug03G0027200 Rorug03G0027300 Rorug03G0027400 Rorug03G0027400 Rorug03G0027500
rosa_samantha	Rh3AG087200 Rh3BG090000 Rh3CG090400 Rh3DG091000
rosa_wichuraiana	Rw3G007410

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	132
AccB1I	GGYRCC	1 cut(s)	4
AccI	GTMKAC	1 cut(s)	460
AccII	CGCG	1 cut(s)	702
AciI	CCGC	6 cut(s)	108, 113, 239, 305, 702, 1190
AclWI	GGATC	3 cut(s)	254, 779, 1052
AcsI	RAATTY	4 cut(s)	175, 752, 1063, 1306
AfaI	GTAC	5 cut(s)	188, 562, 781, 802, 1047
AfiI	CCNNNNNNNGG	1 cut(s)	740
AflIII	ACRYGT	1 cut(s)	972
AgsI	TTSAA	7 cut(s)	385, 531, 589, 1101, 1117, 1301, 1351
AjiI	CACGTC	1 cut(s)	597
AloI	GAACNNNNNNTCC	2 cut(s)	1281, 1313
AluBI	AGCT	3 cut(s)	512, 995, 1042
AluI	AGCT	3 cut(s)	512, 995, 1042
Alw21I	GWGCWC	1 cut(s)	151
Alw26I	GTCTC	2 cut(s)	1200, 1348
AlwI	GGATC	3 cut(s)	254, 779, 1052
AoxI	GGCC	1 cut(s)	704
ApaI	GGGCCC	1 cut(s)	708
ApeKI	GCWGC	5 cut(s)	110, 339, 512, 1376, 1379
ApoI	RAATTY	4 cut(s)	175, 752, 1063, 1306
AseI	ATTAAT	1 cut(s)	807
AspS9I	GGNCC	3 cut(s)	227, 704, 705
AsuHPI	GGTGA	3 cut(s)	471, 848, 1045
AvaII	GGWCC	1 cut(s)	227
BaeGI	GKGCMC	1 cut(s)	708
BanI	GGYRCC	1 cut(s)	4
BanII	GRGCYC	1 cut(s)	708
Bbv12I	GWGCWC	1 cut(s)	151
BbvI	GCAGC	5 cut(s)	122, 351, 499, 1363, 1366
BccI	CCATC	4 cut(s)	217, 260, 1160, 1366
BceAI	ACGGC	1 cut(s)	1203
BcgI	CGANNNNNNTGC	2 cut(s)	474, 508
BcoDI	GTCTC	2 cut(s)	1200, 1348
BfaI	CTAG	5 cut(s)	18, 251, 1248, 1266, 1383
BisI	GCNGC	7 cut(s)	111, 114, 239, 340, 513, 1377, 1380
BlsI	GCNGC	7 cut(s)	112, 115, 240, 341, 514, 1378, 1381
BmcAI	AGTACT	2 cut(s)	781, 802
Bme18I	GGWCC	1 cut(s)	227
BmgBI	CACGTC	1 cut(s)	597
BmgT120I	GGNCC	3 cut(s)	227, 704, 705
BmiI	GGNNCC	3 cut(s)	6, 228, 706
BplI	GAGNNNNNCTC	2 cut(s)	536, 568
BpuEI	CTTGAG	3 cut(s)	492, 980, 996
Bsa29I	ATCGAT	1 cut(s)	864
BsaBI	GATNNNNATC	1 cut(s)	888
BsaI	GGTCTC	1 cut(s)	1348
BsaJI	CCNNGG	1 cut(s)	1231
Bsc4I	CCNNNNNNNGG	1 cut(s)	740
Bse3DI	GCAATG	1 cut(s)	953
Bse8I	GATNNNNATC	1 cut(s)	888
BseCI	ATCGAT	1 cut(s)	864
BseDI	CCNNGG	1 cut(s)	1231
BseJI	GATNNNNATC	1 cut(s)	888
BseLI	CCNNNNNNNGG	1 cut(s)	740
BseMI	GCAATG	1 cut(s)	953
BseMII	CTCAG	1 cut(s)	999
BseSI	GKGCMC	1 cut(s)	708
BseXI	GCAGC	5 cut(s)	122, 351, 499, 1363, 1366
Bsh1236I	CGCG	1 cut(s)	702
BshFI	GGCC	1 cut(s)	706
BshNI	GGYRCC	1 cut(s)	4
BshVI	ATCGAT	1 cut(s)	864
BsiHKAI	GWGCWC	1 cut(s)	151
BslFI	GGGAC	1 cut(s)	717
BslI	CCNNNNNNNGG	1 cut(s)	740
BsmAI	GTCTC	2 cut(s)	1200, 1348
BsmBI	CGTCTC	1 cut(s)	1200
BsmFI	GGGAC	1 cut(s)	717
BsnI	GGCC	1 cut(s)	706
Bso31I	GGTCTC	1 cut(s)	1348
Bsp120I	GGGCCC	1 cut(s)	704
Bsp1286I	GDGCHC	2 cut(s)	151, 708
Bsp1407I	TGTACA	1 cut(s)	186
Bsp143I	GATC	5 cut(s)	259, 784, 861, 978, 1057
BspACI	CCGC	6 cut(s)	108, 113, 239, 305, 702, 1190
BspANI	GGCC	1 cut(s)	706
BspCNI	CTCAG	1 cut(s)	998
BspDI	ATCGAT	1 cut(s)	864
BspFNI	CGCG	1 cut(s)	702
BspLI	GGNNCC	3 cut(s)	6, 228, 706
BspPI	GGATC	3 cut(s)	254, 779, 1052
BspT107I	GGYRCC	1 cut(s)	4
BspTNI	GGTCTC	1 cut(s)	1348
BsrDI	GCAATG	1 cut(s)	953
BsrGI	TGTACA	1 cut(s)	186
BssECI	CCNNGG	1 cut(s)	1231
BssMI	GATC	5 cut(s)	259, 784, 861, 978, 1057
BssT1I	CCWWGG	1 cut(s)	1231
Bst4CI	ACNGT	2 cut(s)	565, 653
Bst6I	CTCTTC	1 cut(s)	1206
BstAUI	TGTACA	1 cut(s)	186
BstC8I	GCNNGC	3 cut(s)	365, 517, 704
BstDEI	CTNAG	2 cut(s)	985, 1464
BstFNI	CGCG	1 cut(s)	702
BstKTI	GATC	5 cut(s)	262, 787, 864, 981, 1060
BstMAI	GTCTC	2 cut(s)	1200, 1348
BstMBI	GATC	5 cut(s)	259, 784, 861, 978, 1057
BstMWI	GCNNNNNNNGC	2 cut(s)	1388, 1397
BstNSI	RCATGY	2 cut(s)	398, 523
BstSLI	GKGCMC	1 cut(s)	708
BstUI	CGCG	1 cut(s)	702
BstV1I	GCAGC	5 cut(s)	122, 351, 499, 1363, 1366
Bsu15I	ATCGAT	1 cut(s)	864
BsuRI	GGCC	1 cut(s)	706
BsuTUI	ATCGAT	1 cut(s)	864
BtrI	CACGTC	1 cut(s)	597
BtsIMutI	CAGTG	2 cut(s)	570, 658
Cac8I	GCNNGC	3 cut(s)	365, 517, 704
Cfr13I	GGNCC	3 cut(s)	227, 704, 705
ClaI	ATCGAT	1 cut(s)	864
CseI	GACGC	1 cut(s)	708
Csp6I	GTAC	5 cut(s)	187, 561, 780, 801, 1046
CviAII	CATG	4 cut(s)	369, 395, 520, 880
CviQI	GTAC	5 cut(s)	187, 561, 780, 801, 1046
DdeI	CTNAG	2 cut(s)	985, 1464
DpnI	GATC	5 cut(s)	261, 786, 863, 980, 1059
DpnII	GATC	5 cut(s)	259, 784, 861, 978, 1057
Eam1104I	CTCTTC	1 cut(s)	1206
EarI	CTCTTC	1 cut(s)	1206
EciI	GGCGGA	2 cut(s)	294, 1205
Eco130I	CCWWGG	1 cut(s)	1231
Eco24I	GRGCYC	1 cut(s)	708
Eco31I	GGTCTC	1 cut(s)	1348
Eco32I	GATATC	2 cut(s)	121, 316
Eco47I	GGWCC	1 cut(s)	227
EcoO109I	RGGNCCY	1 cut(s)	705
EcoRV	GATATC	2 cut(s)	121, 316
EcoT14I	CCWWGG	1 cut(s)	1231
EcoT38I	GRGCYC	1 cut(s)	708
ErhI	CCWWGG	1 cut(s)	1231
Esp3I	CGTCTC	1 cut(s)	1200
FaeI	CATG	4 cut(s)	372, 398, 523, 883
FalI	AAGNNNNNCTT	2 cut(s)	1244, 1276
FaqI	GGGAC	1 cut(s)	717
FatI	CATG	4 cut(s)	368, 394, 519, 879
FauI	CCCGC	1 cut(s)	695
FauNDI	CATATG	1 cut(s)	1109
FblI	GTMKAC	1 cut(s)	460
Fnu4HI	GCNGC	7 cut(s)	111, 114, 239, 340, 513, 1377, 1380
FriOI	GRGCYC	1 cut(s)	708
Fsp4HI	GCNGC	7 cut(s)	111, 114, 239, 340, 513, 1377, 1380
FspBI	CTAG	5 cut(s)	18, 251, 1248, 1266, 1383
GluI	GCNGC	7 cut(s)	111, 114, 239, 340, 513, 1377, 1380
HaeIII	GGCC	1 cut(s)	706
HgaI	GACGC	1 cut(s)	708
Hin1II	CATG	4 cut(s)	372, 398, 523, 883
HincII	GTYRAC	2 cut(s)	469, 852
HindII	GTYRAC	2 cut(s)	469, 852
HinfI	GANTC	7 cut(s)	355, 416, 527, 545, 872, 983, 1036
HphI	GGTGA	3 cut(s)	471, 848, 1045
Hpy166II	GTNNAC	5 cut(s)	461, 469, 594, 852, 1048
Hpy188I	TCNGA	5 cut(s)	161, 215, 877, 1062, 1289
Hpy188III	TCNNGA	7 cut(s)	230, 263, 385, 814, 1013, 1301, 1312
Hpy8I	GTNNAC	5 cut(s)	461, 469, 594, 852, 1048
Hpy99I	CGWCG	1 cut(s)	219
HpyAV	CCTTC	2 cut(s)	833, 1357
HpyCH4III	ACNGT	2 cut(s)	565, 653
HpyCH4IV	ACGT	4 cut(s)	217, 533, 596, 974
HpyCH4V	TGCA	5 cut(s)	495, 519, 539, 1156, 1365
HpyF10VI	GCNNNNNNNGC	2 cut(s)	1388, 1397
HpyF3I	CTNAG	2 cut(s)	985, 1464
HpySE526I	ACGT	4 cut(s)	217, 533, 596, 974
Hsp92II	CATG	4 cut(s)	372, 398, 523, 883
Kzo9I	GATC	5 cut(s)	259, 784, 861, 978, 1057
Lsp1109I	GCAGC	5 cut(s)	122, 351, 499, 1363, 1366
MaeI	CTAG	5 cut(s)	18, 251, 1248, 1266, 1383
MaeII	ACGT	4 cut(s)	217, 533, 596, 974
MaeIII	GTNAC	3 cut(s)	895, 968, 1268
MalI	GATC	5 cut(s)	261, 786, 863, 980, 1059
MboI	GATC	5 cut(s)	259, 784, 861, 978, 1057
MboII	GAAGA	3 cut(s)	174, 1103, 1223
MfeI	CAATTG	1 cut(s)	915
MhlI	GDGCHC	2 cut(s)	151, 708
MlyI	GAGTC	3 cut(s)	349, 554, 977
MmeI	TCCRAC	2 cut(s)	238, 721
MnlI	CCTC	7 cut(s)	430, 492, 516, 655, 737, 1020, 1063
MseI	TTAA	3 cut(s)	807, 939, 1184
MslI	CAYNNNNRTG	1 cut(s)	1370
MspA1I	CMGCKG	2 cut(s)	113, 1042
MunI	CAATTG	1 cut(s)	915
MvnI	CGCG	1 cut(s)	702
MwoI	GCNNNNNNNGC	2 cut(s)	1388, 1397
NdeI	CATATG	1 cut(s)	1109
NdeII	GATC	5 cut(s)	259, 784, 861, 978, 1057
NlaIII	CATG	4 cut(s)	372, 398, 523, 883
NlaIV	GGNNCC	3 cut(s)	6, 228, 706
NmuCI	GTSAC	2 cut(s)	895, 1268
NspI	RCATGY	2 cut(s)	398, 523
PfeI	GAWTC	4 cut(s)	416, 527, 872, 1036
PkrI	GCNGC	7 cut(s)	112, 115, 240, 341, 514, 1378, 1381
PleI	GAGTC	3 cut(s)	349, 553, 977
PpsI	GAGTC	3 cut(s)	349, 553, 977
PshBI	ATTAAT	1 cut(s)	807
PsiI	TTATAA	1 cut(s)	132
PspN4I	GGNNCC	3 cut(s)	6, 228, 706
PspOMI	GGGCCC	1 cut(s)	704
PspPI	GGNCC	3 cut(s)	227, 704, 705
PvuII	CAGCTG	1 cut(s)	1042
RsaI	GTAC	5 cut(s)	188, 562, 781, 802, 1047
RsaNI	GTAC	5 cut(s)	187, 561, 780, 801, 1046
RseI	CAYNNNNRTG	1 cut(s)	1370
SaqAI	TTAA	3 cut(s)	807, 939, 1184
SatI	GCNGC	7 cut(s)	111, 114, 239, 340, 513, 1377, 1380
Sau3AI	GATC	5 cut(s)	259, 784, 861, 978, 1057
Sau96I	GGNCC	3 cut(s)	227, 704, 705
ScaI	AGTACT	2 cut(s)	781, 802
SchI	GAGTC	3 cut(s)	349, 554, 977
SduI	GDGCHC	2 cut(s)	151, 708
SinI	GGWCC	1 cut(s)	227
SmiMI	CAYNNNNRTG	1 cut(s)	1370
SmlI	CTYRAG	3 cut(s)	507, 959, 1011
SmoI	CTYRAG	3 cut(s)	507, 959, 1011
SsiI	CCGC	6 cut(s)	108, 113, 239, 305, 702, 1190
SspI	AATATT	1 cut(s)	1396
SspMI	CTAG	5 cut(s)	18, 251, 1248, 1266, 1383
StyI	CCWWGG	1 cut(s)	1231
TaaI	ACNGT	2 cut(s)	565, 653
TaiI	ACGT	4 cut(s)	220, 536, 599, 977
TaqI	TCGA	5 cut(s)	312, 484, 795, 864, 981
TatI	WGTACW	3 cut(s)	186, 779, 800
TauI	GCSGC	2 cut(s)	116, 241
TfiI	GAWTC	4 cut(s)	416, 527, 872, 1036
Tru1I	TTAA	3 cut(s)	807, 939, 1184
Tru9I	TTAA	3 cut(s)	807, 939, 1184
TscAI	CASTG	2 cut(s)	570, 658
TseFI	GTSAC	2 cut(s)	895, 1268
TseI	GCWGC	5 cut(s)	110, 339, 512, 1376, 1379
Tsp45I	GTSAC	2 cut(s)	895, 1268
TspDTI	ATGAA	6 cut(s)	74, 299, 690, 917, 1038, 1256
TspRI	CASTG	2 cut(s)	570, 658
VpaK11BI	GGWCC	1 cut(s)	227
VspI	ATTAAT	1 cut(s)	807
XapI	RAATTY	4 cut(s)	175, 752, 1063, 1306
XceI	RCATGY	2 cut(s)	398, 523
XmiI	GTMKAC	1 cut(s)	460
XspI	CTAG	5 cut(s)	18, 251, 1248, 1266, 1383
ZrmI	AGTACT	2 cut(s)	781, 802

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