Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0008991

Physical Location & Seq

Genomic Coordinates Forward (+)

61402249 .. 61406596

Gene Structure 4348 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0484300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1773 bp

ATGCCTCAAGCCCTTTTCTTAAAGCCCTTTATTTCCGCTCCTTTGGATAATTGGAGTAAATTGAAAGAATGCACAAATTCTATAGGTGCCAATGTGAAGATGCGTGGAAGACTGGAGGTAGTTTGTATGGGAATGCTGGCACCAAGAAAGTTCTTGCAGAAAAGGAAGAAAGTGGAGGTTTTTAAAGACGTTGGCGATGAGGCTGACCAGAAGAACTGGAGGAGACTGATGAATGAAATCGAAGAGAAGGGTTCTGCTGTTGCAGTGCTCAAAAGTGAAAAGCTCAAAAACAAGACGATACCGAAGGATCTTGTCCTTGGAACCTTGGTTAGATTCAAGCAATTGAGGAAATGGAACCTTGTTGGTGAGATTCTTGAATGGCTTCAGACTCAGGACTGGTGGGACTTCAGCGAAATGGATTTTCTGATGCTTATAACAGCTTATGGAAAGCAAGGCAAATTCAACAGGGCTGAGAAGGTTTTAAGCTTGTTGAATGAAAAGGGCTATGCACCAAGTGTAATATCGCATACTGCTCTTATGGAAGCATATGGAAAAGGAGGCCGATACAATAATGCTGAAGCAATATTTCGAAGAATGCAGTCTTCAGGGCCTGAACCATCTGCTGTGACATATCAAATTATTCTAAAAATATTTGTTGAGGGCTGCAAGTTTAAGGAAGCTGAAGAAATCTTTGAGACCCTTTTGGATGAGGAAAAGTCACCTTTAAAGCCAGACCAAAAGATGTTCCACATGATGATCTATATGTTTAAGAAGGCTGGAAGTTATGAAAAAGCTCGTAAGATGTTTGCAGTGATGACTGAGAGAGGGGTTCGGCAATCAACAGTTACTTATAATAGCCTAATGTCGTTTGAAACTAACTACAAGGAAGTATCAAAGATGTACAACCAGATGCAAAGAGCTGGTCTCCGACCTGACGTTGTGAGTTATGCCTTACTCATTAATGCTTATGGGAAAGCTAGAAGAGAGGAAGAAGCCTTAGCTGTTTTTGAGGAAATGCTTGATGCTGGTGTCAGACCTACCCGCAAAGCATACAATATTTTGCTCGACGCATTTGCAGTATCAGGAATGGTGGACCAAGCTCGAACTGTTTTTAAAAGCATGAGAAGGGACAGGTATGAACCCGATATATACTCGTATACCACTATGCTGTCAGCTTATGTAAATGCACCCGACATGGAAGGTGCTGAAAAATTCTTCACAAGACTAAAGCAAGATGGATTCAAACCCAATGTCGTCACTTATGGGACCTTAATCAAGGGTTATGCTAAGACAAATGATATTGAGAAGATGATGGAGAAGTATGAGGAAATGCAGGCATGTGGTGTCAAACCAAATCAAACGATCTTGACAACCATAATGGATGCGTATGGCAAGAACATTGATTTTGGGAGTGCTGTTGTTTGGTACAAGGAAATGGAATCCTGCAGGCTTACTCCTGATCAGAAAGCAAAGAATATCCTTTTATCTTTGGCAAAAACTGTAGAAGAACAACAGTTAGCAAACCAAATTGTAGGATATTTGGATAATACTAGCAATGAACAAGGACTTGGTCGTTTATCAATCTCTGTTAAGCAGAATGATGAGGATGAAGACAATTACGAAGATGATGAAGACGACGATGATGATGAGAAAGTCGATGGTCCTTCACAGGTCACTTCATCATATGATGATGAACAAGAAAGTGAGCTGGTTTATTTAAATGCTGATAGTGAAAAAAACCTCGATGACTTGCTTACAGTGGCTGAATTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

590

Amino Acids

67.61

Weight (kDa)

5.27

Isoelectric Point (pI)

38.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	139 - 185	9.8e-06	Pentatricopeptide repeat domain
TPR_24	PF23276	149 - 239	5.2e-07	Fungal tetratrico peptide repeats
PPR_2	PF13041	171 - 217	2.5e-08	PPR repeat family
PPR_long	PF17177	242 - 364	7e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	302 - 358	9.7e-12	Pentatricopeptide repeat domain
TPR_24	PF23276	303 - 407	2.6e-07	Fungal tetratrico peptide repeats
PPR_1	PF12854	308 - 339	1.2e-06	PPR repeat
PPR_2	PF13041	311 - 359	4.3e-12	PPR repeat family
PPR	PF01535	314 - 344	2e-06	PPR repeat
PPR_2	PF13041	350 - 394	2.8e-10	PPR repeat family
TPR_24	PF23276	351 - 443	7.2e-06	Fungal tetratrico peptide repeats
PPR_long	PF17177	364 - 483	3.4e-09	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	370 - 428	2.8e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	381 - 430	2.2e-13	PPR repeat family
PPR_3	PF13812	410 - 466	4.5e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	412 - 444	3.3e-06	PPR repeat
PPR_2	PF13041	416 - 453	5.7e-09	PPR repeat family
PPR	PF01535	419 - 449	5.5e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0008991)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40340 AT2G40340 AT2G40340 AT2G40340 AT2G40340 AT2G40340 AT2G40350 AT2G40350
fragaria_vesca	FvH4_6g43870
malus_domestica	MD17G1089700.v1.1
prunus_persica	Prupe.3G223300_v2.0.a1
pyrus_communis	pycom17g08690
rosa_chinensis	RchiOBHm_Chr2g0160621
rosa_laevigata	RLG00000021227
rosa_multiflora	Rmu_sc0000674.1_g000028
rosa_roxburghii	Rroxscaffold_2G00089550
rosa_rugosa	Rorug02G0484300
rosa_samantha	Rh2AG549400 Rh2BG563800 Rh2CG534000 Rh2DG572800
rosa_wichuraiana	Rw2G045510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	434, 852
AccB1I	GGYRCC	2 cut(s)	86, 139
AccBSI	CCGCTC	1 cut(s)	38
AccI	GTMKAC	1 cut(s)	1157
AciI	CCGC	2 cut(s)	36, 1042
AclWI	GGATC	1 cut(s)	315
AcsI	RAATTY	3 cut(s)	76, 458, 1211
AcuI	CTGAAG	5 cut(s)	368, 391, 588, 597, 702
AdeI	CACNNNGTG	1 cut(s)	515
AfaI	GTAC	2 cut(s)	902, 1427
AgsI	TTSAA	7 cut(s)	64, 337, 377, 463, 493, 872, 1243
AjuI	GAANNNNNNNTTGG	2 cut(s)	1551, 1583
Alw21I	GWGCWC	1 cut(s)	270
Alw26I	GTCTC	3 cut(s)	217, 689, 929
AlwI	GGATC	1 cut(s)	315
AlwNI	CAGNNNCTG	2 cut(s)	611, 1763
AoxI	GGCC	2 cut(s)	559, 608
ApeKI	GCWGC	1 cut(s)	663
ApoI	RAATTY	3 cut(s)	76, 458, 1211
ArsI	GACNNNNNNTTYG	4 cut(s)	907, 939, 1236, 1268
AseI	ATTAAT	1 cut(s)	960
Asp700I	GAANNNNTTC	1 cut(s)	381
AspS9I	GGNCC	4 cut(s)	608, 1093, 1266, 1661
AsuHPI	GGTGA	2 cut(s)	377, 711
AsuII	TTCGAA	1 cut(s)	589
AvaII	GGWCC	3 cut(s)	1093, 1266, 1661
BanI	GGYRCC	2 cut(s)	86, 139
BbsI	GAAGAC	4 cut(s)	115, 594, 1617, 1638
Bbv12I	GWGCWC	1 cut(s)	270
BbvI	GCAGC	1 cut(s)	650
BccI	CCATC	4 cut(s)	625, 1229, 1306, 1652
BcgI	CGANNNNNNTGC	2 cut(s)	1055, 1089
BclI	TGATCA	1 cut(s)	1459
BcoDI	GTCTC	3 cut(s)	217, 689, 929
BfaI	CTAG	2 cut(s)	978, 1551
BfmI	CTRYAG	3 cut(s)	81, 1444, 1500
BisI	GCNGC	1 cut(s)	664
BlsI	GCNGC	1 cut(s)	665
Bme18I	GGWCC	3 cut(s)	1093, 1266, 1661
BmgT120I	GGNCC	4 cut(s)	608, 1093, 1266, 1661
BmiI	GGNNCC	5 cut(s)	88, 141, 322, 356, 1267
BmsI	GCATC	5 cut(s)	90, 417, 900, 1012, 1372
BpiI	GAAGAC	4 cut(s)	115, 594, 1617, 1638
BplI	GAGNNNNNCTC	2 cut(s)	909, 941
BpmI	CTGGAG	2 cut(s)	134, 238
Bpu10I	CCTNAGC	1 cut(s)	997
Bpu14I	TTCGAA	1 cut(s)	589
BsaI	GGTCTC	2 cut(s)	689, 929
BsaJI	CCNNGG	2 cut(s)	316, 324
Bse1I	ACTGG	3 cut(s)	117, 221, 401
Bse3DI	GCAATG	1 cut(s)	1561
BseDI	CCNNGG	2 cut(s)	316, 324
BseGI	GGATG	3 cut(s)	712, 1387, 1612
BseMI	GCAATG	1 cut(s)	1561
BseMII	CTCAG	3 cut(s)	404, 462, 810
BseNI	ACTGG	3 cut(s)	117, 221, 401
BseRI	GAGGAG	1 cut(s)	235
BseXI	GCAGC	1 cut(s)	650
BshFI	GGCC	2 cut(s)	561, 610
BshNI	GGYRCC	2 cut(s)	86, 139
BsiHKAI	GWGCWC	1 cut(s)	270
BslFI	GGGAC	3 cut(s)	416, 1142, 1279
BsmAI	GTCTC	3 cut(s)	217, 689, 929
BsmFI	GGGAC	3 cut(s)	416, 1142, 1279
BsmI	GAATGC	3 cut(s)	74, 138, 600
BsnI	GGCC	2 cut(s)	561, 610
Bso31I	GGTCTC	2 cut(s)	689, 929
Bsp119I	TTCGAA	1 cut(s)	589
Bsp1286I	GDGCHC	1 cut(s)	270
Bsp1407I	TGTACA	1 cut(s)	900
Bsp143I	GATC	4 cut(s)	307, 756, 1362, 1459
BspACI	CCGC	2 cut(s)	36, 1042
BspANI	GGCC	2 cut(s)	561, 610
BspCNI	CTCAG	3 cut(s)	403, 463, 811
BspLI	GGNNCC	5 cut(s)	88, 141, 322, 356, 1267
BspMAI	CTGCAG	1 cut(s)	1448
BspPI	GGATC	1 cut(s)	315
BspT104I	TTCGAA	1 cut(s)	589
BspT107I	GGYRCC	2 cut(s)	86, 139
BspTNI	GGTCTC	2 cut(s)	689, 929
BsrBI	CCGCTC	1 cut(s)	38
BsrDI	GCAATG	1 cut(s)	1561
BsrGI	TGTACA	1 cut(s)	900
BsrI	ACTGG	3 cut(s)	117, 221, 401
BssECI	CCNNGG	2 cut(s)	316, 324
BssMI	GATC	4 cut(s)	307, 756, 1362, 1459
BssNAI	GTATAC	1 cut(s)	1158
BssT1I	CCWWGG	2 cut(s)	316, 324
Bst1107I	GTATAC	1 cut(s)	1158
Bst4CI	ACNGT	5 cut(s)	844, 1108, 1501, 1515, 1759
Bst6I	CTCTTC	2 cut(s)	237, 976
BstAUI	TGTACA	1 cut(s)	900
BstBI	TTCGAA	1 cut(s)	589
BstC8I	GCNNGC	3 cut(s)	138, 1335, 1448
BstDEI	CTNAG	5 cut(s)	390, 471, 819, 997, 1287
BstF5I	GGATG	3 cut(s)	712, 1387, 1612
BstKTI	GATC	4 cut(s)	310, 759, 1365, 1462
BstMAI	GTCTC	3 cut(s)	217, 689, 929
BstMBI	GATC	4 cut(s)	307, 756, 1362, 1459
BstNSI	RCATGY	1 cut(s)	1341
BstSFI	CTRYAG	3 cut(s)	81, 1444, 1500
BstV1I	GCAGC	1 cut(s)	650
BstV2I	GAAGAC	4 cut(s)	115, 594, 1617, 1638
BstX2I	RGATCY	1 cut(s)	307
BstYI	RGATCY	1 cut(s)	307
BstZ17I	GTATAC	1 cut(s)	1158
BsuRI	GGCC	2 cut(s)	561, 610
BtgZI	GCGATG	1 cut(s)	210
BtsCI	GGATG	3 cut(s)	712, 1387, 1612
BtsI	GCAGTG	2 cut(s)	270, 816
BtsIMutI	CAGTG	3 cut(s)	270, 816, 1764
Cac8I	GCNNGC	3 cut(s)	138, 1335, 1448
CaiI	CAGNNNCTG	2 cut(s)	611, 1763
Cfr13I	GGNCC	4 cut(s)	608, 1093, 1266, 1661
CseI	GACGC	1 cut(s)	1076
Csp6I	GTAC	2 cut(s)	901, 1426
CviAII	CATG	4 cut(s)	751, 1120, 1195, 1338
CviQI	GTAC	2 cut(s)	901, 1426
DdeI	CTNAG	5 cut(s)	390, 471, 819, 997, 1287
DpnI	GATC	4 cut(s)	309, 758, 1364, 1461
DpnII	GATC	4 cut(s)	307, 756, 1362, 1459
DraI	TTTAAA	4 cut(s)	184, 726, 1114, 1719
DraIII	CACNNNGTG	1 cut(s)	515
Eam1104I	CTCTTC	2 cut(s)	237, 976
EarI	CTCTTC	2 cut(s)	237, 976
Eco130I	CCWWGG	2 cut(s)	316, 324
Eco31I	GGTCTC	2 cut(s)	689, 929
Eco47I	GGWCC	3 cut(s)	1093, 1266, 1661
Eco57I	CTGAAG	5 cut(s)	368, 391, 588, 597, 702
EcoO109I	RGGNCCY	2 cut(s)	608, 1266
EcoT14I	CCWWGG	2 cut(s)	316, 324
ErhI	CCWWGG	2 cut(s)	316, 324
FaeI	CATG	4 cut(s)	754, 1123, 1198, 1341
FaqI	GGGAC	3 cut(s)	416, 1142, 1279
FatI	CATG	4 cut(s)	750, 1119, 1194, 1337
FauI	CCCGC	1 cut(s)	1049
FauNDI	CATATG	2 cut(s)	547, 1684
FbaI	TGATCA	1 cut(s)	1459
FblI	GTMKAC	1 cut(s)	1157
Fnu4HI	GCNGC	1 cut(s)	664
FokI	GGATG	3 cut(s)	719, 1394, 1619
Fsp4HI	GCNGC	1 cut(s)	664
FspBI	CTAG	2 cut(s)	978, 1551
GluI	GCNGC	1 cut(s)	664
GsuI	CTGGAG	2 cut(s)	134, 238
HaeIII	GGCC	2 cut(s)	561, 610
HgaI	GACGC	1 cut(s)	1076
Hin1II	CATG	4 cut(s)	754, 1123, 1198, 1341
HindIII	AAGCTT	1 cut(s)	484
HinfI	GANTC	5 cut(s)	333, 370, 388, 1239, 1439
HphI	GGTGA	2 cut(s)	377, 711
Hpy166II	GTNNAC	2 cut(s)	1093, 1158
Hpy188I	TCNGA	5 cut(s)	387, 426, 929, 1034, 1464
Hpy188III	TCNNGA	5 cut(s)	374, 392, 1083, 1366, 1457
Hpy8I	GTNNAC	2 cut(s)	1093, 1158
Hpy99I	CGWCG	2 cut(s)	1070, 1640
HpyAV	CCTTC	7 cut(s)	241, 298, 469, 766, 1119, 1193, 1674
HpyCH4III	ACNGT	5 cut(s)	844, 1108, 1501, 1515, 1759
HpyCH4IV	ACGT	2 cut(s)	189, 936
HpyF3I	CTNAG	5 cut(s)	390, 471, 819, 997, 1287
HpySE526I	ACGT	2 cut(s)	189, 936
Hsp92II	CATG	4 cut(s)	754, 1123, 1198, 1341
Ksp22I	TGATCA	1 cut(s)	1459
Kzo9I	GATC	4 cut(s)	307, 756, 1362, 1459
LmnI	GCTCC	1 cut(s)	43
Lsp1109I	GCAGC	1 cut(s)	650
LweI	GCATC	5 cut(s)	90, 417, 900, 1012, 1372
MaeI	CTAG	2 cut(s)	978, 1551
MaeII	ACGT	2 cut(s)	189, 936
MaeIII	GTNAC	5 cut(s)	625, 717, 844, 1255, 1672
MalI	GATC	4 cut(s)	309, 758, 1364, 1461
MbiI	CCGCTC	1 cut(s)	38
MboI	GATC	4 cut(s)	307, 756, 1362, 1459
MfeI	CAATTG	1 cut(s)	341
MflI	RGATCY	1 cut(s)	307
MhlI	GDGCHC	1 cut(s)	270
MlyI	GAGTC	1 cut(s)	382
MmeI	TCCRAC	1 cut(s)	952
MroXI	GAANNNNTTC	1 cut(s)	381
MunI	CAATTG	1 cut(s)	341
Mva1269I	GAATGC	3 cut(s)	74, 138, 600
NdeI	CATATG	2 cut(s)	547, 1684
NdeII	GATC	4 cut(s)	307, 756, 1362, 1459
NlaIII	CATG	4 cut(s)	754, 1123, 1198, 1341
NlaIV	GGNNCC	5 cut(s)	88, 141, 322, 356, 1267
NmuCI	GTSAC	4 cut(s)	625, 717, 1255, 1672
NspI	RCATGY	1 cut(s)	1341
NspV	TTCGAA	1 cut(s)	589
PctI	GAATGC	3 cut(s)	74, 138, 600
PdmI	GAANNNNTTC	1 cut(s)	381
PfeI	GAWTC	4 cut(s)	333, 370, 1239, 1439
PflFI	GACNNNGTC	1 cut(s)	1569
PkrI	GCNGC	1 cut(s)	665
PleI	GAGTC	1 cut(s)	382
PpsI	GAGTC	1 cut(s)	382
PpuMI	RGGWCCY	1 cut(s)	1266
PshBI	ATTAAT	1 cut(s)	960
PsiI	TTATAA	2 cut(s)	434, 852
Psp5II	RGGWCCY	1 cut(s)	1266
PspN4I	GGNNCC	5 cut(s)	88, 141, 322, 356, 1267
PspPI	GGNCC	4 cut(s)	608, 1093, 1266, 1661
PspPPI	RGGWCCY	1 cut(s)	1266
PstI	CTGCAG	1 cut(s)	1448
PstNI	CAGNNNCTG	2 cut(s)	611, 1763
PsuI	RGATCY	1 cut(s)	307
PsyI	GACNNNGTC	1 cut(s)	1569
RsaI	GTAC	2 cut(s)	902, 1427
RsaNI	GTAC	2 cut(s)	901, 1426
SatI	GCNGC	1 cut(s)	664
Sau3AI	GATC	4 cut(s)	307, 756, 1362, 1459
Sau96I	GGNCC	4 cut(s)	608, 1093, 1266, 1661
SbfI	CCTGCAGG	1 cut(s)	1448
SchI	GAGTC	1 cut(s)	382
SdaI	CCTGCAGG	1 cut(s)	1448
SduI	GDGCHC	1 cut(s)	270
SfaNI	GCATC	5 cut(s)	90, 417, 900, 1012, 1372
SfcI	CTRYAG	3 cut(s)	81, 1444, 1500
SfuI	TTCGAA	1 cut(s)	589
SinI	GGWCC	3 cut(s)	1093, 1266, 1661
SmiI	ATTTAAAT	1 cut(s)	1719
SmlI	CTYRAG	1 cut(s)	6
SmoI	CTYRAG	1 cut(s)	6
Sse8387I	CCTGCAGG	1 cut(s)	1448
SsiI	CCGC	2 cut(s)	36, 1042
SspI	AATATT	3 cut(s)	585, 651, 1057
SspMI	CTAG	2 cut(s)	978, 1551
StyI	CCWWGG	2 cut(s)	316, 324
SwaI	ATTTAAAT	1 cut(s)	1719
TaaI	ACNGT	5 cut(s)	844, 1108, 1501, 1515, 1759
TaiI	ACGT	2 cut(s)	192, 939
TaqI	TCGA	6 cut(s)	240, 589, 1065, 1102, 1656, 1743
TatI	WGTACW	1 cut(s)	900
TfiI	GAWTC	4 cut(s)	333, 370, 1239, 1439
TscAI	CASTG	3 cut(s)	270, 816, 1764
TseFI	GTSAC	4 cut(s)	625, 717, 1255, 1672
TseI	GCWGC	1 cut(s)	663
Tsp45I	GTSAC	4 cut(s)	625, 717, 1255, 1672
TspRI	CASTG	3 cut(s)	270, 816, 1764
Tth111I	GACNNNGTC	1 cut(s)	1569
VpaK11BI	GGWCC	3 cut(s)	1093, 1266, 1661
VspI	ATTAAT	1 cut(s)	960
XapI	RAATTY	3 cut(s)	76, 458, 1211
XceI	RCATGY	1 cut(s)	1341
XmiI	GTMKAC	1 cut(s)	1157
XmnI	GAANNNNTTC	1 cut(s)	381
XspI	CTAG	2 cut(s)	978, 1551

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