Rorug06G0229000

rRNA processing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0012951
Physical Location & Seq
Forward (+)
36802750 .. 36806213
3464 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0229000.1

Sequence Viewer

Length: 1878 bp
ATGAACAATATCATCATGTCAAATCTCATACCGAGGCTTAGACCCCTTGTGGGTTTGAAAGGATGGGATTTTTGTGTTGTCTGGAAACTTAGTGAAGACCAAAGGTTTGTTGAGTGGATGGATTGTTGCTGTTCGGGGACTGAAATTACTCAAGATGTTGGATATGAAGACCATCTTCTTTTTCCAGTAGTTTCTGCAGTCCTTCCTTGTAGGGATACCTTGTTACAGCATCCAAGAACCAGATCTTGTGATTTTCTTTCCAAAATGTCTTCTTCAGTTCCCCTAGATTCCGGGATTTATGCAGAGACTTTAATATCAAACCAACCCAGTTGGTTAAACTTCTCTGACAGTAGCACATATTCGAGTACTAATGTAGAAGAAACTGTTGGGACCAGGGTTTTGATGCCAATACCAGGAGGACTAATTGAGCTTCTTGTTGCCAAACAAGTACTTGAAGACCAGCATGTTATCGATTTCATCACAGAGCAATACAACATCTCAATAGAACAGGATCATATTGGTACAAGCTTTGGGGTAAACTTGGACACAATGACTCATGATGAAATCCAATCAAAGCAAGTACTTTTAGACCACGAACAAATGGATCCCAGCAATCATGTTTTCTGCTCTAGCGATAATTCTGCCATGAACTTCTTGCAGCAGTTTAGTCACAACTTGGGAAACAGGATGAAGAACATTAGTTATAATGTCAATTCTTTTGAAGATTCATCACATGCACCATTTCTTTCTGATAAGCAAATGGAGCACCCATTTAATAATTGTTCGAAAAAAACTGGGTTTGATCAAGCAACGGAGGCAATGCAAAGGTCCATGATGATGAGTGAGACACAAGCCACACACCATATGCATATGCAATATATGGATCAGTCATTAGAACCAGGCATGGATCTTGAGCTGGAGCAGGATGCCGGCAATACTGATAAGGACTCAAATATTATAAATGATGATGGGGGACATGCTACAGATTTGAACTCAGATTGCAGTGATCATGATCAGCTTGATGCAAAATATCGGAGGAGGAACGGAAAAGGGCAGGCCAAAAACCTTGTTGCAGAGAGAAAGAGAAGGAAGAAGCTTAATGACAGGCTCTATGAACTTAGGTCTTTAGTTCCCAATATTTCCAAGTTGGATAGAGCTTCTATTCTTGGGGATGCAATAGAGTATGTGATGGAGTTGCAGAACCAAGCTAAAAAACTCCAAGATGAGCTTGATGATGATCATGATCACGAAGAAGTTCGCCATGTTCATGAAATTGCTGCTAATAAGAACTGTGGCATCACTTTCCAACATAACAGTTTACAATCAGAGATTGATCAGAGTCAAAGTGGGGTTGACCTTAAAACTGAGCAAAATGATCATAAAGCTCCAAATGGGTTTCATTTGGGAACATCAGGAGACGGTAGTGTCTCAAAACAAAGCCCCGATTCAGAAGTTATCCACGATCACAAGACACAGCAGATGGAGCCTCAAGTGGAAGTAGCTCAAATAGATGGGAATCAGTTCTTTGTGAAAGTATTCTGTGAGCACAAGCCTGGTGGATTTGTGAGATTGATGGAGGCATTGAGCTCTCTGAGCCTGGAAGTTATTAATGCCAATGTAACTAGCTTCAGATGCCTCGTCTCTAATGTCTTCATCGTAGAGAAGAAGGATAGTGAACTAGTTGAAGCTGATGAAGTGAGAGACTCGTTGCTAGAGCTAACAAGGAACCCATTGAAATGGCGTAGTGAGGAAATGGCGAAAGCATCAGAGATTGGGATTGGCTTGGATAACAACCACCACCATCATCCCCATCACCAAAACCTCCACAACCACCATTTCAGTCCCTTCCACTTACACCATCTTCCTACTGAAGCATAA
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
rRNA_processing

Protein Analysis

625

Amino Acids

70.9

Weight (kDa)

5.2

Isoelectric Point (pI)

55.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
bHLH-MYC_N PF14215 12 - 161 1.7e-18 bHLH-MYC and R2R3-MYB transcription factors N-terminal
HLH PF00010 357 - 400 1.9e-11 Helix-loop-helix DNA-binding domain
bHLH-TF_ACT-like_plant PF22754 497 - 571 3.1e-12 Plant bHLH transcription factor, ACT-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Orthologous Genes (Group: OG0012951)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G03180 AT4G03180
fragaria_vesca FvH4_2g24850
malus_domestica MD03G1276600.v1.1 MD11G1299100.v1.1
prunus_persica Prupe.8G253400_v2.0.a1
pyrus_communis pycom03g22030 pycom11g26280
rosa_chinensis RchiOBHm_Chr6g0292701
rosa_laevigata RLG00000011998
rosa_multiflora Rmu_sc0000515.1_g000023
rosa_roxburghii Rroxscaffold_7G00174760
rosa_rugosa Rorug06G0229000
rosa_samantha Rh6AG342300 Rh6BG349600 Rh6CG356500 Rh6DG342600
rosa_wichuraiana Rw6G029840

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 705, 959
AasI GACNNNNNNGTC 1 cut(s) 1424
AclWI GGATC 5 cut(s) 519, 599, 612, 891, 915
AcuI CTGAAG 2 cut(s) 258, 1612
AfaI GTAC 4 cut(s) 367, 450, 523, 582
AfiI CCNNNNNNNGG 2 cut(s) 50, 413
AgsI TTSAA 6 cut(s) 58, 455, 722, 991, 1685, 1735
AhlI ACTAGT 1 cut(s) 1678
AjnI CCWGG 5 cut(s) 392, 412, 898, 1552, 1596
AjuI GAANNNNNNNTTGG 2 cut(s) 369, 401
Alw21I GWGCWC 3 cut(s) 768, 1548, 1589
Alw26I GTCTC 6 cut(s) 299, 839, 1410, 1432, 1645, 1695
AlwI GGATC 5 cut(s) 519, 599, 612, 891, 915
AoxI GGCC 1 cut(s) 1056
ApeKI GCWGC 2 cut(s) 658, 1277
ArsI GACNNNNNNTTYG 4 cut(s) 89, 121, 382, 414
AseI ATTAAT 1 cut(s) 1608
Asp700I GAANNNNTTC 3 cut(s) 1254, 1520, 1535
AspS9I GGNCC 2 cut(s) 390, 828
AsuC2I CCSGG 1 cut(s) 292
AsuHPI GGTGA 1 cut(s) 1805
AsuII TTCGAA 1 cut(s) 785
AvaII GGWCC 2 cut(s) 390, 828
BamHI GGATCC 1 cut(s) 604
BanII GRGCYC 1 cut(s) 1589
BbsI GAAGAC 5 cut(s) 102, 174, 261, 462, 1642
Bbv12I GWGCWC 3 cut(s) 768, 1548, 1589
BbvI GCAGC 2 cut(s) 670, 1264
BcgI CGANNNNNNTGC 2 cut(s) 623, 657
BciT130I CCWGG 5 cut(s) 394, 414, 900, 1554, 1598
BciVI GTATCC 1 cut(s) 208
BclI TGATCA 7 cut(s) 802, 1006, 1012, 1237, 1243, 1333, 1375
BcnI CCSGG 1 cut(s) 292
BcoDI GTCTC 6 cut(s) 299, 839, 1410, 1432, 1645, 1695
BcuI ACTAGT 1 cut(s) 1678
BfaI CTAG 5 cut(s) 284, 630, 1623, 1679, 1712
BfmI CTRYAG 2 cut(s) 195, 981
BfuI GTATCC 1 cut(s) 208
BglII AGATCT 1 cut(s) 242
BisI GCNGC 2 cut(s) 659, 1278
BlsI GCNGC 2 cut(s) 660, 1279
BmcAI AGTACT 3 cut(s) 367, 450, 582
Bme1390I CCNGG 6 cut(s) 292, 394, 414, 900, 1554, 1598
Bme18I GGWCC 2 cut(s) 390, 828
BmgT120I GGNCC 2 cut(s) 390, 828
BmiI GGNNCC 4 cut(s) 391, 606, 1485, 1727
BmrFI CCNGG 6 cut(s) 292, 394, 414, 900, 1554, 1598
BmrI ACTGGG 2 cut(s) 321, 804
BmsI GCATC 8 cut(s) 238, 393, 916, 1012, 1162, 1305, 1622, 1772
BmuI ACTGGG 2 cut(s) 321, 804
BpiI GAAGAC 5 cut(s) 102, 174, 261, 462, 1642
BpmI CTGGAG 1 cut(s) 938
Bpu14I TTCGAA 1 cut(s) 785
BpuEI CTTGAG 3 cut(s) 135, 932, 1473
BpuMI CCSGG 1 cut(s) 292
Bsa29I ATCGAT 1 cut(s) 471
BsaBI GATNNNNATC 4 cut(s) 1011, 1236, 1242, 1515
BsaJI CCNNGG 2 cut(s) 32, 393
Bsc4I CCNNNNNNNGG 2 cut(s) 50, 413
Bse118I RCCGGY 1 cut(s) 929
Bse1I ACTGG 3 cut(s) 185, 327, 799
Bse3DI GCAATG 1 cut(s) 825
Bse8I GATNNNNATC 4 cut(s) 1011, 1236, 1242, 1515
BseBI CCWGG 5 cut(s) 394, 414, 900, 1554, 1598
BseCI ATCGAT 1 cut(s) 471
BseDI CCNNGG 2 cut(s) 32, 393
BseGI GGATG 7 cut(s) 68, 123, 229, 693, 931, 1177, 1804
BseJI GATNNNNATC 4 cut(s) 1011, 1236, 1242, 1515
BseLI CCNNNNNNNGG 2 cut(s) 50, 413
BseMI GCAATG 1 cut(s) 825
BseMII CTCAG 3 cut(s) 1008, 1356, 1583
BseNI ACTGG 3 cut(s) 185, 327, 799
BseRI GAGGAG 1 cut(s) 1051
BseXI GCAGC 2 cut(s) 670, 1264
BseYI CCCAGC 1 cut(s) 608
BshFI GGCC 1 cut(s) 1058
BshVI ATCGAT 1 cut(s) 471
BsiHKAI GWGCWC 3 cut(s) 768, 1548, 1589
BsiSI CCGG 2 cut(s) 291, 930
BslFI GGGAC 4 cut(s) 151, 403, 987, 1827
BslI CCNNNNNNNGG 2 cut(s) 50, 413
BsmAI GTCTC 6 cut(s) 299, 839, 1410, 1432, 1645, 1695
BsmBI CGTCTC 2 cut(s) 1410, 1645
BsmFI GGGAC 4 cut(s) 151, 403, 987, 1827
BsnI GGCC 1 cut(s) 1058
Bsp119I TTCGAA 1 cut(s) 785
Bsp1286I GDGCHC 3 cut(s) 768, 1548, 1589
BspANI GGCC 1 cut(s) 1058
BspCNI CTCAG 3 cut(s) 1007, 1357, 1584
BspDI ATCGAT 1 cut(s) 471
BspHI TCATGA 4 cut(s) 556, 1009, 1240, 1267
BspLI GGNNCC 4 cut(s) 391, 606, 1485, 1727
BspMAI CTGCAG 1 cut(s) 199
BspPI GGATC 5 cut(s) 519, 599, 612, 891, 915
BspT104I TTCGAA 1 cut(s) 785
BsrDI GCAATG 1 cut(s) 825
BsrFI RCCGGY 1 cut(s) 929
BsrI ACTGG 3 cut(s) 185, 327, 799
BssAI RCCGGY 1 cut(s) 929
BssECI CCNNGG 2 cut(s) 32, 393
Bst2UI CCWGG 5 cut(s) 394, 414, 900, 1554, 1598
Bst4CI ACNGT 5 cut(s) 350, 385, 1292, 1316, 1421
BstBI TTCGAA 1 cut(s) 785
BstC8I GCNNGC 2 cut(s) 931, 1056
BstDEI CTNAG 6 cut(s) 38, 89, 994, 1118, 1365, 1592
BstF5I GGATG 7 cut(s) 68, 123, 229, 693, 931, 1177, 1804
BstMAI GTCTC 6 cut(s) 299, 839, 1410, 1432, 1645, 1695
BstMWI GCNNNNNNNGC 5 cut(s) 763, 815, 1483, 1593, 1632
BstNI CCWGG 5 cut(s) 394, 414, 900, 1554, 1598
BstNSI RCATGY 3 cut(s) 467, 737, 980
BstSCI CCNGG 6 cut(s) 290, 392, 412, 898, 1552, 1596
BstSFI CTRYAG 2 cut(s) 195, 981
BstV1I GCAGC 2 cut(s) 670, 1264
BstV2I GAAGAC 5 cut(s) 102, 174, 261, 462, 1642
BstX2I RGATCY 3 cut(s) 242, 604, 907
BstXI CCANNNNNNTGG 1 cut(s) 1737
BstYI RGATCY 3 cut(s) 242, 604, 907
Bsu15I ATCGAT 1 cut(s) 471
BsuI GTATCC 1 cut(s) 208
BsuRI GGCC 1 cut(s) 1058
BsuTUI ATCGAT 1 cut(s) 471
BtsCI GGATG 7 cut(s) 68, 123, 229, 693, 931, 1177, 1804
BtsI GCAGTG 1 cut(s) 1009
BtsIMutI CAGTG 1 cut(s) 1009
Cac8I GCNNGC 2 cut(s) 931, 1056
CciI TCATGA 4 cut(s) 556, 1009, 1240, 1267
Cfr10I RCCGGY 1 cut(s) 929
Cfr13I GGNCC 2 cut(s) 390, 828
ClaI ATCGAT 1 cut(s) 471
Csp6I GTAC 4 cut(s) 366, 449, 522, 581
CspCI CAANNNNNGTGG 2 cut(s) 1537, 1572
CviQI GTAC 4 cut(s) 366, 449, 522, 581
DdeI CTNAG 6 cut(s) 38, 89, 994, 1118, 1365, 1592
DrdI GACNNNNNNGTC 1 cut(s) 1424
DseDI GACNNNNNNGTC 1 cut(s) 1424
Ecl136II GAGCTC 1 cut(s) 1587
Eco24I GRGCYC 1 cut(s) 1589
Eco47I GGWCC 2 cut(s) 390, 828
Eco53kI GAGCTC 1 cut(s) 1587
Eco57I CTGAAG 2 cut(s) 258, 1612
EcoICRI GAGCTC 1 cut(s) 1587
EcoRII CCWGG 5 cut(s) 392, 412, 898, 1552, 1596
EcoT22I ATGCAT 1 cut(s) 870
EcoT38I GRGCYC 1 cut(s) 1589
Esp3I CGTCTC 2 cut(s) 1410, 1645
FalI AAGNNNNNCTT 4 cut(s) 159, 191, 1212, 1244
FaqI GGGAC 4 cut(s) 151, 403, 987, 1827
FauNDI CATATG 2 cut(s) 864, 870
FbaI TGATCA 7 cut(s) 802, 1006, 1012, 1237, 1243, 1333, 1375
Fnu4HI GCNGC 2 cut(s) 659, 1278
FokI GGATG 7 cut(s) 75, 130, 216, 700, 938, 1184, 1791
FriOI GRGCYC 1 cut(s) 1589
Fsp4HI GCNGC 2 cut(s) 659, 1278
FspBI CTAG 5 cut(s) 284, 630, 1623, 1679, 1712
GluI GCNGC 2 cut(s) 659, 1278
GsaI CCCAGC 1 cut(s) 612
GsuI CTGGAG 1 cut(s) 938
HaeIII GGCC 1 cut(s) 1058
HapII CCGG 2 cut(s) 291, 930
HincII GTYRAC 1 cut(s) 1354
HindII GTYRAC 1 cut(s) 1354
HindIII AAGCTT 2 cut(s) 526, 1094
HinfI GANTC 8 cut(s) 287, 553, 725, 947, 1339, 1445, 1516, 1703
HpaII CCGG 2 cut(s) 291, 930
HphI GGTGA 1 cut(s) 1805
Hpy166II GTNNAC 4 cut(s) 538, 1319, 1354, 1676
Hpy188III TCNNGA 9 cut(s) 82, 152, 557, 911, 1010, 1241, 1247, 1268, 1413
Hpy8I GTNNAC 4 cut(s) 538, 1319, 1354, 1676
HpyAV CCTTC 4 cut(s) 212, 1080, 1660, 1855
HpyCH4III ACNGT 5 cut(s) 350, 385, 1292, 1316, 1421
HpyF10VI GCNNNNNNNGC 5 cut(s) 763, 815, 1483, 1593, 1632
HpyF3I CTNAG 6 cut(s) 38, 89, 994, 1118, 1365, 1592
KroI GCCGGC 1 cut(s) 929
KroNI GCCGGC 1 cut(s) 931
Ksp22I TGATCA 7 cut(s) 802, 1006, 1012, 1237, 1243, 1333, 1375
LmnI GCTCC 4 cut(s) 763, 919, 1390, 1483
Lsp1109I GCAGC 2 cut(s) 670, 1264
LweI GCATC 8 cut(s) 238, 393, 916, 1012, 1162, 1305, 1622, 1772
MaeI CTAG 5 cut(s) 284, 630, 1623, 1679, 1712
MaeIII GTNAC 3 cut(s) 222, 668, 1618
MflI RGATCY 3 cut(s) 242, 604, 907
MhlI GDGCHC 3 cut(s) 768, 1548, 1589
MluCI AATT 6 cut(s) 144, 423, 637, 712, 778, 1272
MlyI GAGTC 4 cut(s) 547, 941, 1348, 1697
MmeI TCCRAC 3 cut(s) 139, 1128, 1330
Mph1103I ATGCAT 1 cut(s) 870
MroNI GCCGGC 1 cut(s) 929
MroXI GAANNNNTTC 3 cut(s) 1254, 1520, 1535
MseI TTAA 6 cut(s) 311, 335, 774, 1098, 1359, 1608
MslI CAYNNNNRTG 3 cut(s) 836, 1266, 1735
MspI CCGG 2 cut(s) 291, 930
MspR9I CCNGG 6 cut(s) 292, 394, 414, 900, 1554, 1598
MvaI CCWGG 5 cut(s) 394, 414, 900, 1554, 1598
MwoI GCNNNNNNNGC 5 cut(s) 763, 815, 1483, 1593, 1632
NaeI GCCGGC 1 cut(s) 931
NciI CCSGG 1 cut(s) 292
NdeI CATATG 2 cut(s) 864, 870
NgoMIV GCCGGC 1 cut(s) 929
NlaIV GGNNCC 4 cut(s) 391, 606, 1485, 1727
NmuCI GTSAC 1 cut(s) 668
NsiI ATGCAT 1 cut(s) 870
NspI RCATGY 3 cut(s) 467, 737, 980
NspV TTCGAA 1 cut(s) 785
PagI TCATGA 4 cut(s) 556, 1009, 1240, 1267
PdiI GCCGGC 1 cut(s) 931
PdmI GAANNNNTTC 3 cut(s) 1254, 1520, 1535
PfeI GAWTC 4 cut(s) 287, 725, 1445, 1516
PfoI TCCNGGA 1 cut(s) 290
PkrI GCNGC 2 cut(s) 660, 1279
PleI GAGTC 4 cut(s) 547, 941, 1347, 1697
PpsI GAGTC 4 cut(s) 547, 941, 1347, 1697
PshBI ATTAAT 1 cut(s) 1608
PsiI TTATAA 2 cut(s) 705, 959
Psp124BI GAGCTC 1 cut(s) 1589
Psp6I CCWGG 5 cut(s) 392, 412, 898, 1552, 1596
PspFI CCCAGC 1 cut(s) 608
PspGI CCWGG 5 cut(s) 392, 412, 898, 1552, 1596
PspN4I GGNNCC 4 cut(s) 391, 606, 1485, 1727
PspPI GGNCC 2 cut(s) 390, 828
PstI CTGCAG 1 cut(s) 199
PsuI RGATCY 3 cut(s) 242, 604, 907
RsaI GTAC 4 cut(s) 367, 450, 523, 582
RsaNI GTAC 4 cut(s) 366, 449, 522, 581
RseI CAYNNNNRTG 3 cut(s) 836, 1266, 1735
SacI GAGCTC 1 cut(s) 1589
SaqAI TTAA 6 cut(s) 311, 335, 774, 1098, 1359, 1608
SatI GCNGC 2 cut(s) 659, 1278
Sau96I GGNCC 2 cut(s) 390, 828
ScaI AGTACT 3 cut(s) 367, 450, 582
SchI GAGTC 4 cut(s) 547, 941, 1348, 1697
ScrFI CCNGG 6 cut(s) 292, 394, 414, 900, 1554, 1598
SduI GDGCHC 3 cut(s) 768, 1548, 1589
SfaNI GCATC 8 cut(s) 238, 393, 916, 1012, 1162, 1305, 1622, 1772
SfcI CTRYAG 2 cut(s) 195, 981
SfuI TTCGAA 1 cut(s) 785
SinI GGWCC 2 cut(s) 390, 828
SmiMI CAYNNNNRTG 3 cut(s) 836, 1266, 1735
SmlI CTYRAG 3 cut(s) 150, 911, 1488
SmoI CTYRAG 3 cut(s) 150, 911, 1488
SpeI ACTAGT 1 cut(s) 1678
Sse9I AATT 6 cut(s) 144, 423, 637, 712, 778, 1272
SspI AATATT 2 cut(s) 955, 1138
SspMI CTAG 5 cut(s) 284, 630, 1623, 1679, 1712
SstI GAGCTC 1 cut(s) 1589
StyD4I CCNGG 6 cut(s) 290, 392, 412, 898, 1552, 1596
TaaI ACNGT 5 cut(s) 350, 385, 1292, 1316, 1421
TaqI TCGA 3 cut(s) 362, 471, 785
TasI AATT 6 cut(s) 144, 423, 637, 712, 778, 1272
TatI WGTACW 3 cut(s) 365, 448, 580
TfiI GAWTC 4 cut(s) 287, 725, 1445, 1516
Tru1I TTAA 6 cut(s) 311, 335, 774, 1098, 1359, 1608
Tru9I TTAA 6 cut(s) 311, 335, 774, 1098, 1359, 1608
TscAI CASTG 1 cut(s) 1009
TseFI GTSAC 1 cut(s) 668
TseI GCWGC 2 cut(s) 658, 1277
Tsp45I GTSAC 1 cut(s) 668
TspGWI ACGGA 2 cut(s) 827, 1059
TspRI CASTG 1 cut(s) 1009
VpaK11BI GGWCC 2 cut(s) 390, 828
VspI ATTAAT 1 cut(s) 1608
XceI RCATGY 3 cut(s) 467, 737, 980
XmnI GAANNNNTTC 3 cut(s) 1254, 1520, 1535
XspI CTAG 5 cut(s) 284, 630, 1623, 1679, 1712
ZrmI AGTACT 3 cut(s) 367, 450, 582
Zsp2I ATGCAT 1 cut(s) 870
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.