Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0015422

Physical Location & Seq

Genomic Coordinates Reverse (-)

4103788 .. 4105734

Gene Structure 1947 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G004880.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1947 bp

ATGAAATCCAAATGGGTCTTTCCCTACTCCCCCTCTTGGGCTTCTTCTCTATTCTCTCTTCTCAAAACCAGGGTTTACCAAAACCCCATTTCAGAAACCTCGGCATTGGTCCTCAACCATGTCGATGTAAGCCTGCTTCTTTCTTTTTGTGGGAAAAATCGTCACTTTCAATTGGGTTCTTCCCTCCACGCCTCTATTATTAAGAACCCTGAATTTTTCGAACCCGAGAATTGCAATGTCCTTGTAATTTGGAACTCTCTGCTCTCCATGTACTTGAAATGTGGTCAAGAAAAGAATGCAGTTAAGATGTTCGACGAAATGCCTGTGAGAGATACGGTTTCGTGGAATACTATGATTTCGGGGTTTTTGAGAAATGGGGAGTGTGAGATTGGTTTTGGGTACTTCAAGCGAATGCGGGAGTCGGGTTTTTATCGATTTGATAAAGCTACTTTGACTTGCATTATAGCGGGTTTTGATGGGGTGGAGTCTTGTTACTTGAACAAGATGATGCATGGTTTGGTGGTTTTGAATGGGTTTGAGAGGGAAACTGAAGTGGGGAATGCTTTGATAACATCGTATTGTAAATGTGGGTGTTTTGGCTCAGCAAGACGGGTTTTTGATGAGATGTTTGAGAAGAATGTGATTACATGGACGGCGATGATTTCGGGCCTTGCACAGAATGGTTTCTATGTTGAGAGCTTGAAGGTGTTTGCGGAGATGCGGAGTGGTGTGGTGGAACCGAATGCTGTGACGTTTTTGGGCTCACTCATGGCGTGTTCTGGATTGCAGGCGATAAGGGCGGGGCGTCAAATTCATGGACTTGTATGGAAATTGGGAGTTCAATCAGACCTGTGCATTGAGAGTTCATTGATGGACATGTACTCAAAATGTGGTAGTGTGGAAGATGCATGGAGAATATTTGAGTCCACCGAAGAACTTGATGAGGTTTCCATGACTGTTATCCTTGTGGGATTTGCACAAAATGGGTTTGAGACTGAAGCTATCCAGATTTTTGTGAAAATGATGAAGGCAGGGATTGAAATTGACCCAGACATGGTTTCAGCAGTTCTTGGGGTATTTGGTGTTGATACTTCTTTAGGCCTGGGAAAGCAACTCCACTGTTTAATTGTCAAAAAGAATTTTGGTTATAACTCTTTTGTTACAAATGGGCTTATAAATATGTATTCCAAGTGTGGAGAGCTGGAGGATTCGGCTAAAGTGTTCACTCGAATGCCTCAAAGGAACTCGGTTTCATGGAATTCAATGATTGCAGCTTTTGCCCGTCACGGAGATGGCTCCAAAGCATTACAATTGTATGAAAAGATGCAAATGGAAGGCGTACAACCAACAGACATTACATTTCTGTCTCTAGTTCATGCTTGTAGCCATGTTGGGTTGATCGAAAGGGGCATGGAGTTTCTGAACTCTATGAAAGAAGAACATGGGATGAGTCCGAGGCCAGAACACTATGCCTGTATTGTTGACATGTTAGGTCGGGCAGGACTTCTAACTGAGGCTAAAAATTTCATTAAAGAACTGCCTGAGAATCCTGGTGTACTTGTTTGGCAAGCATTGCTTGGTGCTTGTAGCATTCATGGTAATTCTGACATCGGTAAATATGCTGCAGATCAGTTGGTTTTGGCAGCACCGCAGAGTCCCGCACCATATGTTTTGCTTGCCAATATATATTCTTCTGAAGGAAGGTGGAAAGACAGAGCAAAGACTATTAAGGGGATGAAGGAGATGGGGGTGGCAAAAGAAACGGGTATTAGTTGGATTGAAATTGAAAAGAAAGTTCAGAGCTTTGTTGTTGGTGATAAAATGCATCCACAAGCAGAGATCATTTATAGGGTTTTGGCAGAATTGCTTAGACTTATGAAAGATGAAGGATATGTACCGGATGAGAGGTTTTTACTTTATTACTTAGATCAAGATGAAAAGAGATGA

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

DYW_deaminase DnaJ Fer4_15 PPR PPR_2

Protein Analysis

648

Amino Acids

72.57

Weight (kDa)

5.9

Isoelectric Point (pI)

43.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	110 - 158	1.7e-06	PPR repeat family
PPR	PF01535	113 - 143	1.8e-07	PPR repeat
PPR_2	PF13041	212 - 252	1.2e-07	PPR repeat family
PPR	PF01535	215 - 242	1.6e-06	PPR repeat
PPR_2	PF13041	415 - 462	1.2e-12	PPR repeat family
PPR	PF01535	417 - 447	1.6e-08	PPR repeat
E_motif	PF20431	532 - 594	2.6e-14	E motif

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: OG0015422)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05340
fragaria_vesca	FvH4_6g05850
malus_domestica	MD12G1219000.v1.1
prunus_persica	Prupe.6G325500_v2.0.a1
pyrus_communis	pycom12g20470
rosa_chinensis	RchiOBHm_Chr3g0454801
rosa_laevigata	RLG00000025406
rosa_multiflora	Rmu_sc0001792.1_g000013 Rmu_sc0013126.1_g000006
rosa_roxburghii	Rroxscaffold_6G00424720
rosa_rugosa	Rorug03G0002600
rosa_samantha	Rh3AG062600 Rh3BG064500 Rh3CG063400 Rh3DG064300
rosa_wichuraiana	Rw3G004880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	1149, 1175
AciI	CCGC	7 cut(s)	415, 467, 713, 721, 800, 1649, 1659
AcsI	RAATTY	5 cut(s)	212, 810, 1138, 1258, 1522
AcuI	CTGAAG	3 cut(s)	570, 1017, 1716
AcyI	GRCGYC	1 cut(s)	805
AfaI	GTAC	6 cut(s)	272, 401, 881, 1341, 1557, 1896
AfiI	CCNNNNNNNGG	3 cut(s)	36, 37, 1054
AflIII	ACRYGT	2 cut(s)	876, 1485
AjnI	CCWGG	3 cut(s)	68, 1101, 1549
AluBI	AGCT	6 cut(s)	446, 699, 1001, 1201, 1274, 1803
AluI	AGCT	6 cut(s)	446, 699, 1001, 1201, 1274, 1803
Alw26I	GTCTC	2 cut(s)	986, 1371
Ama87I	CYCGRG	1 cut(s)	224
AoxI	GGCC	3 cut(s)	667, 1099, 1457
ApeKI	GCWGC	3 cut(s)	1271, 1622, 1643
ApoI	RAATTY	5 cut(s)	212, 810, 1138, 1258, 1522
Asp700I	GAANNNNTTC	1 cut(s)	683
AspS9I	GGNCC	2 cut(s)	109, 667
AsuHPI	GGTGA	1 cut(s)	1826
AsuII	TTCGAA	1 cut(s)	219
AvaI	CYCGRG	1 cut(s)	224
AvaII	GGWCC	1 cut(s)	109
BanII	GRGCYC	1 cut(s)	764
BarI	GAAGNNNNNNTAC	4 cut(s)	120, 152, 1878, 1910
BbvI	GCAGC	3 cut(s)	1283, 1609, 1655
BccI	CCATC	4 cut(s)	470, 865, 1286, 1738
BceAI	ACGGC	1 cut(s)	669
BciT130I	CCWGG	3 cut(s)	70, 1103, 1551
BcoDI	GTCTC	2 cut(s)	986, 1371
BfaI	CTAG	1 cut(s)	1370
BfmI	CTRYAG	1 cut(s)	1623
BisI	GCNGC	3 cut(s)	1272, 1623, 1644
BlpI	GCTNAGC	1 cut(s)	601
BlsI	GCNGC	3 cut(s)	1273, 1624, 1645
Bme1390I	CCNGG	3 cut(s)	70, 1103, 1551
Bme18I	GGWCC	1 cut(s)	109
BmeT110I	CYCGRG	1 cut(s)	224
BmgT120I	GGNCC	2 cut(s)	109, 667
BmiI	GGNNCC	2 cut(s)	738, 1297
BmrFI	CCNGG	3 cut(s)	70, 1103, 1551
BmsI	GCATC	5 cut(s)	498, 708, 895, 1314, 1834
BpmI	CTGGAG	1 cut(s)	1223
Bpu1102I	GCTNAGC	1 cut(s)	601
Bpu14I	TTCGAA	1 cut(s)	219
Bsa29I	ATCGAT	1 cut(s)	433
BsaHI	GRCGYC	1 cut(s)	805
BsaJI	CCNNGG	4 cut(s)	69, 99, 1102, 1454
BsaWI	WCCGGW	1 cut(s)	1897
Bsc4I	CCNNNNNNNGG	3 cut(s)	36, 37, 1054
Bse3DI	GCAATG	2 cut(s)	241, 1571
BseBI	CCWGG	3 cut(s)	70, 1103, 1551
BseCI	ATCGAT	1 cut(s)	433
BseDI	CCNNGG	4 cut(s)	69, 99, 1102, 1454
BseGI	GGATG	4 cut(s)	1452, 1740, 1825, 1906
BseLI	CCNNNNNNNGG	3 cut(s)	36, 37, 1054
BseMI	GCAATG	2 cut(s)	241, 1571
BseMII	CTCAG	3 cut(s)	615, 1503, 1533
BseXI	GCAGC	3 cut(s)	1283, 1609, 1655
BshFI	GGCC	3 cut(s)	669, 1101, 1459
BshVI	ATCGAT	1 cut(s)	433
BsiHKCI	CYCGRG	1 cut(s)	224
BsiSI	CCGG	1 cut(s)	1898
BslFI	GGGAC	1 cut(s)	1641
BslI	CCNNNNNNNGG	3 cut(s)	36, 37, 1054
BsmAI	GTCTC	2 cut(s)	986, 1371
BsmFI	GGGAC	1 cut(s)	1641
BsmI	GAATGC	6 cut(s)	301, 417, 565, 748, 1236, 1590
BsnI	GGCC	3 cut(s)	669, 1101, 1459
BsoBI	CYCGRG	1 cut(s)	224
Bsp119I	TTCGAA	1 cut(s)	219
Bsp1286I	GDGCHC	1 cut(s)	764
Bsp143I	GATC	4 cut(s)	1398, 1627, 1839, 1927
Bsp1720I	GCTNAGC	1 cut(s)	601
BspACI	CCGC	7 cut(s)	415, 467, 713, 721, 800, 1649, 1659
BspANI	GGCC	3 cut(s)	669, 1101, 1459
BspCNI	CTCAG	3 cut(s)	614, 1504, 1534
BspDI	ATCGAT	1 cut(s)	433
BspLI	GGNNCC	2 cut(s)	738, 1297
BspMAI	CTGCAG	1 cut(s)	1627
BspT104I	TTCGAA	1 cut(s)	219
BsrDI	GCAATG	2 cut(s)	241, 1571
BssECI	CCNNGG	4 cut(s)	69, 99, 1102, 1454
BssMI	GATC	4 cut(s)	1398, 1627, 1839, 1927
BssNI	GRCGYC	1 cut(s)	805
Bst2UI	CCWGG	3 cut(s)	70, 1103, 1551
Bst4CI	ACNGT	3 cut(s)	337, 958, 1121
Bst6I	CTCTTC	1 cut(s)	63
BstACI	GRCGYC	1 cut(s)	805
BstAPI	GCANNNNNTGC	2 cut(s)	1277, 1573
BstBI	TTCGAA	1 cut(s)	219
BstC8I	GCNNGC	4 cut(s)	134, 789, 1569, 1677
BstDEI	CTNAG	5 cut(s)	601, 1512, 1542, 1868, 1924
BstF5I	GGATG	4 cut(s)	1452, 1740, 1825, 1906
BstKTI	GATC	4 cut(s)	1401, 1630, 1842, 1930
BstMAI	GTCTC	2 cut(s)	986, 1371
BstMBI	GATC	4 cut(s)	1398, 1627, 1839, 1927
BstMWI	GCNNNNNNNGC	3 cut(s)	797, 1277, 1573
BstNI	CCWGG	3 cut(s)	70, 1103, 1551
BstNSI	RCATGY	2 cut(s)	880, 1489
BstSCI	CCNGG	3 cut(s)	68, 1101, 1549
BstSFI	CTRYAG	1 cut(s)	1623
BstV1I	GCAGC	3 cut(s)	1283, 1609, 1655
Bsu15I	ATCGAT	1 cut(s)	433
BsuRI	GGCC	3 cut(s)	669, 1101, 1459
BsuTUI	ATCGAT	1 cut(s)	433
BtgZI	GCGATG	1 cut(s)	671
BtsCI	GGATG	4 cut(s)	1452, 1740, 1825, 1906
BtsIMutI	CAGTG	1 cut(s)	1117
Cac8I	GCNNGC	4 cut(s)	134, 789, 1569, 1677
Cfr13I	GGNCC	2 cut(s)	109, 667
ClaI	ATCGAT	1 cut(s)	433
CseI	GACGC	1 cut(s)	794
Csp6I	GTAC	6 cut(s)	271, 400, 880, 1340, 1556, 1895
CviQI	GTAC	6 cut(s)	271, 400, 880, 1340, 1556, 1895
DdeI	CTNAG	5 cut(s)	601, 1512, 1542, 1868, 1924
DpnI	GATC	4 cut(s)	1400, 1629, 1841, 1929
DpnII	GATC	4 cut(s)	1398, 1627, 1839, 1927
Eam1104I	CTCTTC	1 cut(s)	63
EarI	CTCTTC	1 cut(s)	63
Eco147I	AGGCCT	1 cut(s)	1101
Eco24I	GRGCYC	1 cut(s)	764
Eco47I	GGWCC	1 cut(s)	109
Eco57I	CTGAAG	3 cut(s)	570, 1017, 1716
Eco88I	CYCGRG	1 cut(s)	224
EcoRI	GAATTC	1 cut(s)	1258
EcoRII	CCWGG	3 cut(s)	68, 1101, 1549
EcoT22I	ATGCAT	3 cut(s)	513, 910, 1827
EcoT38I	GRGCYC	1 cut(s)	764
FalI	AAGNNNNNCTT	2 cut(s)	1560, 1592
FaqI	GGGAC	1 cut(s)	1641
FauI	CCCGC	4 cut(s)	408, 460, 793, 1666
FauNDI	CATATG	1 cut(s)	1666
Fnu4HI	GCNGC	3 cut(s)	1272, 1623, 1644
FokI	GGATG	4 cut(s)	1459, 1747, 1812, 1913
FriOI	GRGCYC	1 cut(s)	764
Fsp4HI	GCNGC	3 cut(s)	1272, 1623, 1644
FspBI	CTAG	1 cut(s)	1370
GluI	GCNGC	3 cut(s)	1272, 1623, 1644
GsuI	CTGGAG	1 cut(s)	1223
HaeIII	GGCC	3 cut(s)	669, 1101, 1459
HapII	CCGG	1 cut(s)	1898
HgaI	GACGC	1 cut(s)	794
Hin1I	GRCGYC	1 cut(s)	805
HincII	GTYRAC	1 cut(s)	1483
HindII	GTYRAC	1 cut(s)	1483
HinfI	GANTC	7 cut(s)	419, 485, 923, 1208, 1450, 1546, 1654
HpaII	CCGG	1 cut(s)	1898
HphI	GGTGA	1 cut(s)	1826
Hpy166II	GTNNAC	5 cut(s)	76, 927, 1224, 1483, 1556
Hpy188I	TCNGA	7 cut(s)	94, 847, 1422, 1455, 1606, 1696, 1800
Hpy188III	TCNNGA	4 cut(s)	287, 780, 1006, 1931
Hpy8I	GTNNAC	5 cut(s)	76, 927, 1224, 1483, 1556
Hpy99I	CGWCG	1 cut(s)	317
HpyAV	CCTTC	7 cut(s)	697, 1021, 1328, 1691, 1695, 1732, 1880
HpyCH4III	ACNGT	3 cut(s)	337, 958, 1121
HpyCH4IV	ACGT	1 cut(s)	752
HpyF10VI	GCNNNNNNNGC	3 cut(s)	797, 1277, 1573
HpyF3I	CTNAG	5 cut(s)	601, 1512, 1542, 1868, 1924
HpySE526I	ACGT	1 cut(s)	752
Hsp92I	GRCGYC	1 cut(s)	805
Kzo9I	GATC	4 cut(s)	1398, 1627, 1839, 1927
LmnI	GCTCC	1 cut(s)	1301
Lsp1109I	GCAGC	3 cut(s)	1283, 1609, 1655
LweI	GCATC	5 cut(s)	498, 708, 895, 1314, 1834
MaeI	CTAG	1 cut(s)	1370
MaeII	ACGT	1 cut(s)	752
MaeIII	GTNAC	5 cut(s)	161, 491, 748, 1159, 1283
MalI	GATC	4 cut(s)	1400, 1629, 1841, 1929
MboI	GATC	4 cut(s)	1398, 1627, 1839, 1927
MboII	GAAGA	8 cut(s)	36, 50, 171, 646, 914, 944, 1448, 1683
MfeI	CAATTG	2 cut(s)	170, 1310
MhlI	GDGCHC	1 cut(s)	764
MlyI	GAGTC	5 cut(s)	428, 494, 932, 1459, 1663
MmeI	TCCRAC	1 cut(s)	1754
Mph1103I	ATGCAT	3 cut(s)	513, 910, 1827
MroXI	GAANNNNTTC	1 cut(s)	683
MseI	TTAA	5 cut(s)	201, 303, 1124, 1530, 1728
MslI	CAYNNNNRTG	3 cut(s)	123, 1229, 1290
MspI	CCGG	1 cut(s)	1898
MspR9I	CCNGG	3 cut(s)	70, 1103, 1551
MunI	CAATTG	2 cut(s)	170, 1310
Mva1269I	GAATGC	6 cut(s)	301, 417, 565, 748, 1236, 1590
MvaI	CCWGG	3 cut(s)	70, 1103, 1551
MwoI	GCNNNNNNNGC	3 cut(s)	797, 1277, 1573
NdeI	CATATG	1 cut(s)	1666
NdeII	GATC	4 cut(s)	1398, 1627, 1839, 1927
NlaIV	GGNNCC	2 cut(s)	738, 1297
NmeAIII	GCCGAG	1 cut(s)	80
NmuCI	GTSAC	3 cut(s)	161, 748, 1283
NsiI	ATGCAT	3 cut(s)	513, 910, 1827
NspI	RCATGY	2 cut(s)	880, 1489
NspV	TTCGAA	1 cut(s)	219
PceI	AGGCCT	1 cut(s)	1101
PciI	ACATGT	2 cut(s)	876, 1485
PctI	GAATGC	6 cut(s)	301, 417, 565, 748, 1236, 1590
PdmI	GAANNNNTTC	1 cut(s)	683
PfeI	GAWTC	2 cut(s)	1208, 1546
PkrI	GCNGC	3 cut(s)	1273, 1624, 1645
PleI	GAGTC	5 cut(s)	427, 493, 931, 1458, 1662
PpsI	GAGTC	5 cut(s)	427, 493, 931, 1458, 1662
PscI	ACATGT	2 cut(s)	876, 1485
PsiI	TTATAA	2 cut(s)	1149, 1175
Psp6I	CCWGG	3 cut(s)	68, 1101, 1549
PspGI	CCWGG	3 cut(s)	68, 1101, 1549
PspN4I	GGNNCC	2 cut(s)	738, 1297
PspPI	GGNCC	2 cut(s)	109, 667
PstI	CTGCAG	1 cut(s)	1627
RsaI	GTAC	6 cut(s)	272, 401, 881, 1341, 1557, 1896
RsaNI	GTAC	6 cut(s)	271, 400, 880, 1340, 1556, 1895
RseI	CAYNNNNRTG	3 cut(s)	123, 1229, 1290
SaqAI	TTAA	5 cut(s)	201, 303, 1124, 1530, 1728
SatI	GCNGC	3 cut(s)	1272, 1623, 1644
Sau3AI	GATC	4 cut(s)	1398, 1627, 1839, 1927
Sau96I	GGNCC	2 cut(s)	109, 667
SchI	GAGTC	5 cut(s)	428, 494, 932, 1459, 1663
ScrFI	CCNGG	3 cut(s)	70, 1103, 1551
SduI	GDGCHC	1 cut(s)	764
SfaNI	GCATC	5 cut(s)	498, 708, 895, 1314, 1834
SfcI	CTRYAG	1 cut(s)	1623
SfuI	TTCGAA	1 cut(s)	219
SinI	GGWCC	1 cut(s)	109
SmiMI	CAYNNNNRTG	3 cut(s)	123, 1229, 1290
SseBI	AGGCCT	1 cut(s)	1101
SsiI	CCGC	7 cut(s)	415, 467, 713, 721, 800, 1649, 1659
SspI	AATATT	1 cut(s)	918
SspMI	CTAG	1 cut(s)	1370
StuI	AGGCCT	1 cut(s)	1101
StyD4I	CCNGG	3 cut(s)	68, 1101, 1549
TaaI	ACNGT	3 cut(s)	337, 958, 1121
TaiI	ACGT	1 cut(s)	755
TaqI	TCGA	6 cut(s)	123, 219, 312, 433, 1228, 1401
TatI	WGTACW	3 cut(s)	270, 879, 1555
TfiI	GAWTC	2 cut(s)	1208, 1546
Tru1I	TTAA	5 cut(s)	201, 303, 1124, 1530, 1728
Tru9I	TTAA	5 cut(s)	201, 303, 1124, 1530, 1728
TscAI	CASTG	1 cut(s)	1124
TseFI	GTSAC	3 cut(s)	161, 748, 1283
TseI	GCWGC	3 cut(s)	1271, 1622, 1643
Tsp45I	GTSAC	3 cut(s)	161, 748, 1283
TspGWI	ACGGA	1 cut(s)	1302
TspRI	CASTG	1 cut(s)	1124
VpaK11BI	GGWCC	1 cut(s)	109
XapI	RAATTY	5 cut(s)	212, 810, 1138, 1258, 1522
XceI	RCATGY	2 cut(s)	880, 1489
XmnI	GAANNNNTTC	1 cut(s)	683
XspI	CTAG	1 cut(s)	1370
Zsp2I	ATGCAT	3 cut(s)	513, 910, 1827

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