Rh6AG048500

DNA-directed 5'-3' RNA polymerase activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0030411
Physical Location & Seq
Forward (+)
7040475 .. 7042442
1968 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG048500.1

Sequence Viewer

Length: 1968 bp
ATGGTATACCCACCTAGGGCGTGGAAATCAAAGATCAAGAGGAAACCTAAATCTATGGGTGATCTGTGTGGTGGTTATTTAAGCGCACCTACTAATGATTTCTACGTTCATCGCTTTAACCTGTTAACTACTCGCGATATAGATCATTTTACCATTGTGTTTGAAAATGAAGGTCAAAGATTGATAGATACCATTAATGGTTTACAGTGTCAGGCTTTTGAAATAAACAGAGATGTATTAAGATTTATTAATAAAAATTACGATGACTTAGTTAAATCTGGGCTCCTAATGCCTAAGTTTCTAGCTTCATTGAATGTCTCCAAAACCATCGCACTATTAAGGGATGCTTACATAGCTGATCCATCTATGAGTGGTGTTTGTAAATACCAAGAAATATTAAGGGAGTTCATGTCTCGGGTCCAACATTCTCGTTATGAAAGTTTCGTTATCAATTTAGCATCAGCCTACGAGGGCTATAAATTTTATTTGCCCGCATTCCTTGACTTTCGCGGAAGGATCTACCGCGCCGGAGTCTTACATTTCCATGAACGTGACTTAGCTAGAAGTCTAATAGTTTTTTCAAATAAAAGTACAAAATTTGTATCAATGTCTAGGGAAGACCATACTTTTTTGACTGCGATGATTACCTCTGCAGCTGCTTTTCATTTTAAGAAGTTTACTTCTAATATAGCAGCATTTGAATGGATGTCAAAACAGGGTATAATATTTATGAATGATGAGAGTATCACCACCAATGATGATGAGAGTATCATCAAGTTTGCTGTTGATGCTAGTAATCCCTTTCAGTTCATGAGTAAGGTTATATCTTTCAGAGATGATTGTGTTATAGGTGTTGAACAACTTCCTATTTTCCAAGACGCCTCAGCAAGTGCTTATCAGATTATGAGCATCTTTTTGCTAGATAAAAAAATAGCTGAACACACGAACCTCATACCTACAGATCAGATCCAAGATATATACACCTATTTTCTAGAAGAGTTAAAGAATTATCTGGTGATTTATTCTTCATTTGACACCTCTTTTGTTAACATAATTTGTGAGCGTTTCACACGAAAATTAGTAAAATGTCTATTTATGCCATTGATTTATGGTAAAAGTGTATTGAGCATGGCGAATGATATTCATTGTCATTATAATACCATATTAAGTAAAAAGGAATGTATGGGTTTAGCATCTGACATCAATAAGTTCTTTCAAAAAAGATTTCCAGGTATTGTGAATTTAATGGAATTGATTCGCTTGATTGGATGGGTCTCTTCAAACAAGGATAAACCAGTCTTCTATAGTACGCCTTTTTTGACTACTGTACAAGACTATATGATATCTAAACCTGTGAATATATGGGTATATGATCGTATCCATAAGAAAAGACGTCAAGTAACTCTACGAATTCCCTCGACGCTTCGAGATCGAAAGAAAACCACAACAGCAACCTTTGCCAACTTTATTAATCAGCAGGATGCAAATATAGCCATGAGTATGGTTTCTAAGATGTTAGGTATGGGTATACCAATCTATACAGTTCACGACAATTTCATTACAGCTGGGATAAATGTGAAAAGAATTTCTTCTCTATATATTAATACTATAATAGAAATTATGGTTAATCCTTTACCTTTGATCAACTTTTTTATTACTCGTAATCTGCTGGATGGGTGTACAGTTCCTCGTTGTTTTGATAGACCACTTCCAATTGATTATCTTCAACAAATCTTGGATGATAGAATACCAAAGAAAAACATAAGTAGTTCTAAGAAGAAACAGTGGGAAATGAGGAATCAATGTATAATTACAGCTTATAAGGAATATGTTTATCCATTATGTACGCATGATGATATAATAATATATGATAATATTAGCGCCTCGTACAATTATAAATGCGAAGACTTCAAATCTTGTATGCGAGATTTTAAAGAGGGTGATACCTATTTTGCATTACACTTATAA
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
RNA_pol RPOL_N

Protein Analysis

655

Amino Acids

76.04

Weight (kDa)

8.95

Isoelectric Point (pI)

41.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol PF00940 264 - 540 1e-18 DNA-dependent RNA polymerase
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: OG0030411)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr6g0256711
rosa_samantha Rh6AG048500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 4 cut(s) 1155, 1821, 1896, 1966
AatII GACGTC 1 cut(s) 1396
AccI GTMKAC 2 cut(s) 6, 1528
AccII CGCG 3 cut(s) 135, 510, 525
AciI CCGC 3 cut(s) 492, 510, 523
AclWI GGATC 3 cut(s) 353, 524, 961
AcsI RAATTY 5 cut(s) 479, 596, 1240, 1410, 1584
AcyI GRCGYC 2 cut(s) 879, 1393
AfaI GTAC 6 cut(s) 592, 1309, 1329, 1681, 1846, 1889
AfiI CCNNNNNNNGG 1 cut(s) 16
AjnI CCWGG 1 cut(s) 1228
AluBI AGCT 7 cut(s) 305, 356, 560, 656, 935, 1565, 1817
AluI AGCT 7 cut(s) 305, 356, 560, 656, 935, 1565, 1817
Alw26I GTCTC 3 cut(s) 322, 417, 1279
AlwI GGATC 3 cut(s) 353, 524, 961
Ama87I CYCGRG 1 cut(s) 414
ApeKI GCWGC 3 cut(s) 653, 656, 692
ApoI RAATTY 5 cut(s) 479, 596, 1240, 1410, 1584
ArsI GACNNNNNNTTYG 2 cut(s) 1025, 1057
AseI ATTAAT 4 cut(s) 195, 249, 1470, 1602
Asp700I GAANNNNTTC 3 cut(s) 861, 1254, 1588
AspA2I CCTAGG 1 cut(s) 14
AspLEI GCGC 3 cut(s) 86, 527, 1883
AspS9I GGNCC 1 cut(s) 418
AsuHPI GGTGA 4 cut(s) 71, 739, 1027, 1952
AvaI CYCGRG 1 cut(s) 414
AvaII GGWCC 1 cut(s) 418
AvrII CCTAGG 1 cut(s) 14
BanII GRGCYC 1 cut(s) 285
BbsI GAAGAC 3 cut(s) 624, 1291, 1911
BbvCI CCTCAGC 1 cut(s) 883
BbvI GCAGC 3 cut(s) 643, 665, 704
BccI CCATC 4 cut(s) 335, 370, 1263, 1667
BciT130I CCWGG 1 cut(s) 1230
BciVI GTATCC 1 cut(s) 1388
BclI TGATCA 1 cut(s) 1641
BcoDI GTCTC 3 cut(s) 322, 417, 1279
BfaI CTAG 7 cut(s) 15, 302, 561, 612, 792, 920, 992
BfmI CTRYAG 3 cut(s) 651, 957, 1303
BfoI RGCGCY 1 cut(s) 1884
BfuI GTATCC 1 cut(s) 1388
BisI GCNGC 3 cut(s) 654, 657, 693
BlnI CCTAGG 1 cut(s) 14
BlsI GCNGC 3 cut(s) 655, 658, 694
Bme1390I CCNGG 1 cut(s) 1230
Bme18I GGWCC 1 cut(s) 418
BmeT110I CYCGRG 1 cut(s) 414
BmgT120I GGNCC 1 cut(s) 418
BmiI GGNNCC 2 cut(s) 284, 419
BmrFI CCNGG 1 cut(s) 1230
BmsI GCATC 6 cut(s) 334, 467, 778, 918, 1202, 1471
BpiI GAAGAC 3 cut(s) 624, 1291, 1911
Bpu10I CCTNAGC 1 cut(s) 883
BsaBI GATNNNNATC 1 cut(s) 141
BsaHI GRCGYC 2 cut(s) 879, 1393
BsaI GGTCTC 1 cut(s) 1279
BsaJI CCNNGG 1 cut(s) 14
BsaXI ACNNNNNCTCC 2 cut(s) 395, 425
Bsc4I CCNNNNNNNGG 1 cut(s) 16
Bse1I ACTGG 1 cut(s) 1295
Bse8I GATNNNNATC 1 cut(s) 141
BseBI CCWGG 1 cut(s) 1230
BseDI CCNNGG 1 cut(s) 14
BseGI GGATG 6 cut(s) 349, 711, 1274, 1486, 1678, 1744
BseJI GATNNNNATC 1 cut(s) 141
BseLI CCNNNNNNNGG 1 cut(s) 16
BseMII CTCAG 1 cut(s) 897
BseNI ACTGG 1 cut(s) 1295
BseXI GCAGC 3 cut(s) 643, 665, 704
BseYI CCCAGC 1 cut(s) 1565
Bsh1236I CGCG 3 cut(s) 135, 510, 525
BsiHKCI CYCGRG 1 cut(s) 414
BsiSI CCGG 1 cut(s) 528
BslI CCNNNNNNNGG 1 cut(s) 16
BsmAI GTCTC 3 cut(s) 322, 417, 1279
BsmI GAATGC 1 cut(s) 494
Bso31I GGTCTC 1 cut(s) 1279
BsoBI CYCGRG 1 cut(s) 414
Bsp1286I GDGCHC 1 cut(s) 285
Bsp1407I TGTACA 2 cut(s) 1327, 1679
Bsp68I TCGCGA 1 cut(s) 135
BspACI CCGC 3 cut(s) 492, 510, 523
BspCNI CTCAG 1 cut(s) 896
BspFNI CGCG 3 cut(s) 135, 510, 525
BspHI TCATGA 1 cut(s) 810
BspLI GGNNCC 2 cut(s) 284, 419
BspMAI CTGCAG 1 cut(s) 655
BspPI GGATC 3 cut(s) 353, 524, 961
BspTNI GGTCTC 1 cut(s) 1279
BsrGI TGTACA 2 cut(s) 1327, 1679
BsrI ACTGG 1 cut(s) 1295
BssECI CCNNGG 1 cut(s) 14
BssNAI GTATAC 2 cut(s) 7, 1529
BssNI GRCGYC 2 cut(s) 879, 1393
BssT1I CCWWGG 1 cut(s) 14
Bst1107I GTATAC 2 cut(s) 7, 1529
Bst2UI CCWGG 1 cut(s) 1230
Bst4CI ACNGT 5 cut(s) 207, 1327, 1543, 1684, 1785
Bst6I CTCTTC 2 cut(s) 990, 1282
BstACI GRCGYC 2 cut(s) 879, 1393
BstAPI GCANNNNNTGC 1 cut(s) 1457
BstAUI TGTACA 2 cut(s) 1327, 1679
BstC8I GCNNGC 1 cut(s) 492
BstDEI CTNAG 6 cut(s) 268, 294, 556, 883, 1509, 1773
BstF5I GGATG 6 cut(s) 349, 711, 1274, 1486, 1678, 1744
BstFNI CGCG 3 cut(s) 135, 510, 525
BstH2I RGCGCY 1 cut(s) 1884
BstHHI GCGC 3 cut(s) 86, 527, 1883
BstMAI GTCTC 3 cut(s) 322, 417, 1279
BstMWI GCNNNNNNNGC 5 cut(s) 289, 353, 788, 1457, 1490
BstNI CCWGG 1 cut(s) 1230
BstSCI CCNGG 1 cut(s) 1228
BstSFI CTRYAG 3 cut(s) 651, 957, 1303
BstUI CGCG 3 cut(s) 135, 510, 525
BstV1I GCAGC 3 cut(s) 643, 665, 704
BstV2I GAAGAC 3 cut(s) 624, 1291, 1911
BstX2I RGATCY 2 cut(s) 516, 966
BstXI CCANNNNNNTGG 1 cut(s) 1501
BstYI RGATCY 2 cut(s) 516, 966
BstZ17I GTATAC 2 cut(s) 7, 1529
BsuI GTATCC 1 cut(s) 1388
BtgZI GCGATG 3 cut(s) 95, 313, 653
BtsCI GGATG 6 cut(s) 349, 711, 1274, 1486, 1678, 1744
BtsIMutI CAGTG 2 cut(s) 212, 1790
BtuMI TCGCGA 1 cut(s) 135
Cac8I GCNNGC 1 cut(s) 492
CciI TCATGA 1 cut(s) 810
CfoI GCGC 3 cut(s) 86, 527, 1883
Cfr13I GGNCC 1 cut(s) 418
CseI GACGC 2 cut(s) 887, 1429
Csp6I GTAC 6 cut(s) 591, 1308, 1328, 1680, 1845, 1888
CviAII CATG 6 cut(s) 409, 545, 811, 1129, 1495, 1850
CviQI GTAC 6 cut(s) 591, 1308, 1328, 1680, 1845, 1888
DdeI CTNAG 6 cut(s) 268, 294, 556, 883, 1509, 1773
DraI TTTAAA 1 cut(s) 1933
Eam1104I CTCTTC 2 cut(s) 990, 1282
EarI CTCTTC 2 cut(s) 990, 1282
Eco130I CCWWGG 1 cut(s) 14
Eco24I GRGCYC 1 cut(s) 285
Eco31I GGTCTC 1 cut(s) 1279
Eco32I GATATC 1 cut(s) 1344
Eco47I GGWCC 1 cut(s) 418
Eco88I CYCGRG 1 cut(s) 414
EcoRI GAATTC 1 cut(s) 1410
EcoRII CCWGG 1 cut(s) 1228
EcoRV GATATC 1 cut(s) 1344
EcoT14I CCWWGG 1 cut(s) 14
EcoT38I GRGCYC 1 cut(s) 285
ErhI CCWWGG 1 cut(s) 14
FaeI CATG 6 cut(s) 412, 548, 814, 1132, 1498, 1853
FalI AAGNNNNNCTT 4 cut(s) 331, 363, 1573, 1605
FatI CATG 6 cut(s) 408, 544, 810, 1128, 1494, 1849
FauI CCCGC 1 cut(s) 499
FbaI TGATCA 1 cut(s) 1641
FblI GTMKAC 2 cut(s) 6, 1528
Fnu4HI GCNGC 3 cut(s) 654, 657, 693
FokI GGATG 6 cut(s) 356, 718, 1281, 1493, 1685, 1751
FriOI GRGCYC 1 cut(s) 285
Fsp4HI GCNGC 3 cut(s) 654, 657, 693
FspBI CTAG 7 cut(s) 15, 302, 561, 612, 792, 920, 992
GlaI GCGC 3 cut(s) 85, 526, 1882
GluI GCNGC 3 cut(s) 654, 657, 693
GsaI CCCAGC 1 cut(s) 1569
HaeII RGCGCY 1 cut(s) 1884
HapII CCGG 1 cut(s) 528
HgaI GACGC 2 cut(s) 887, 1429
HhaI GCGC 3 cut(s) 86, 527, 1883
Hin1I GRCGYC 2 cut(s) 879, 1393
Hin1II CATG 6 cut(s) 412, 548, 814, 1132, 1498, 1853
Hin6I GCGC 3 cut(s) 84, 525, 1881
HinP1I GCGC 3 cut(s) 84, 525, 1881
HincII GTYRAC 2 cut(s) 126, 1048
HindII GTYRAC 2 cut(s) 126, 1048
HinfI GANTC 3 cut(s) 531, 1255, 1798
HpaI GTTAAC 2 cut(s) 126, 1048
HpaII CCGG 1 cut(s) 528
HphI GGTGA 4 cut(s) 71, 739, 1027, 1952
Hpy166II GTNNAC 8 cut(s) 7, 126, 203, 678, 1048, 1529, 1546, 1680
Hpy188I TCNGA 4 cut(s) 833, 900, 966, 1198
Hpy188III TCNNGA 6 cut(s) 37, 134, 811, 992, 1427, 1547
Hpy8I GTNNAC 8 cut(s) 7, 126, 203, 678, 1048, 1529, 1546, 1680
Hpy99I CGWCG 1 cut(s) 1423
HpyAV CCTTC 2 cut(s) 164, 507
HpyCH4III ACNGT 5 cut(s) 207, 1327, 1543, 1684, 1785
HpyCH4IV ACGT 3 cut(s) 105, 550, 1393
HpyCH4V TGCA 3 cut(s) 653, 1484, 1955
HpyF10VI GCNNNNNNNGC 5 cut(s) 289, 353, 788, 1457, 1490
HpyF3I CTNAG 6 cut(s) 268, 294, 556, 883, 1509, 1773
HpySE526I ACGT 3 cut(s) 105, 550, 1393
Hsp92I GRCGYC 2 cut(s) 879, 1393
Hsp92II CATG 6 cut(s) 412, 548, 814, 1132, 1498, 1853
HspAI GCGC 3 cut(s) 84, 525, 1881
Ksp22I TGATCA 1 cut(s) 1641
KspAI GTTAAC 2 cut(s) 126, 1048
LmnI GCTCC 1 cut(s) 288
Lsp1109I GCAGC 3 cut(s) 643, 665, 704
LweI GCATC 6 cut(s) 334, 467, 778, 918, 1202, 1471
MaeI CTAG 7 cut(s) 15, 302, 561, 612, 792, 920, 992
MaeII ACGT 3 cut(s) 105, 550, 1393
MaeIII GTNAC 2 cut(s) 551, 1399
MboII GAAGA 9 cut(s) 629, 1007, 1017, 1269, 1291, 1581, 1715, 1789, 1916
MfeI CAATTG 1 cut(s) 1713
MflI RGATCY 2 cut(s) 516, 966
MhlI GDGCHC 1 cut(s) 285
MlyI GAGTC 1 cut(s) 540
MmeI TCCRAC 1 cut(s) 445
MroXI GAANNNNTTC 3 cut(s) 861, 1254, 1588
MslI CAYNNNNRTG 4 cut(s) 543, 549, 700, 1499
MspA1I CMGCKG 2 cut(s) 656, 1565
MspI CCGG 1 cut(s) 528
MspR9I CCNGG 1 cut(s) 1230
MunI CAATTG 1 cut(s) 1713
Mva1269I GAATGC 1 cut(s) 494
MvaI CCWGG 1 cut(s) 1230
MvnI CGCG 3 cut(s) 135, 510, 525
MwoI GCNNNNNNNGC 5 cut(s) 289, 353, 788, 1457, 1490
NlaIII CATG 6 cut(s) 412, 548, 814, 1132, 1498, 1853
NlaIV GGNNCC 2 cut(s) 284, 419
NmuCI GTSAC 1 cut(s) 551
NruI TCGCGA 1 cut(s) 135
PagI TCATGA 1 cut(s) 810
PctI GAATGC 1 cut(s) 494
PdmI GAANNNNTTC 3 cut(s) 861, 1254, 1588
PfeI GAWTC 2 cut(s) 1255, 1798
PkrI GCNGC 3 cut(s) 655, 658, 694
PleI GAGTC 1 cut(s) 539
PpsI GAGTC 1 cut(s) 539
PshBI ATTAAT 4 cut(s) 195, 249, 1470, 1602
PsiI TTATAA 4 cut(s) 1155, 1821, 1896, 1966
Psp6I CCWGG 1 cut(s) 1228
PspFI CCCAGC 1 cut(s) 1565
PspGI CCWGG 1 cut(s) 1228
PspN4I GGNNCC 2 cut(s) 284, 419
PspPI GGNCC 1 cut(s) 418
PstI CTGCAG 1 cut(s) 655
PsuI RGATCY 2 cut(s) 516, 966
PvuII CAGCTG 2 cut(s) 656, 1565
RruI TCGCGA 1 cut(s) 135
RsaI GTAC 6 cut(s) 592, 1309, 1329, 1681, 1846, 1889
RsaNI GTAC 6 cut(s) 591, 1308, 1328, 1680, 1845, 1888
RseI CAYNNNNRTG 4 cut(s) 543, 549, 700, 1499
SatI GCNGC 3 cut(s) 654, 657, 693
Sau96I GGNCC 1 cut(s) 418
SchI GAGTC 1 cut(s) 540
ScrFI CCNGG 1 cut(s) 1230
SduI GDGCHC 1 cut(s) 285
SfaNI GCATC 6 cut(s) 334, 467, 778, 918, 1202, 1471
SfcI CTRYAG 3 cut(s) 651, 957, 1303
SinI GGWCC 1 cut(s) 418
SmiMI CAYNNNNRTG 4 cut(s) 543, 549, 700, 1499
SsiI CCGC 3 cut(s) 492, 510, 523
SspI AATATT 3 cut(s) 396, 726, 1876
SspMI CTAG 7 cut(s) 15, 302, 561, 612, 792, 920, 992
StyD4I CCNGG 1 cut(s) 1228
StyI CCWWGG 1 cut(s) 14
TaaI ACNGT 5 cut(s) 207, 1327, 1543, 1684, 1785
TaiI ACGT 3 cut(s) 108, 553, 1396
TaqI TCGA 3 cut(s) 1418, 1426, 1432
TatI WGTACW 3 cut(s) 590, 1327, 1679
TfiI GAWTC 2 cut(s) 1255, 1798
TscAI CASTG 2 cut(s) 212, 1790
TseFI GTSAC 1 cut(s) 551
TseI GCWGC 3 cut(s) 653, 656, 692
Tsp45I GTSAC 1 cut(s) 551
TspRI CASTG 2 cut(s) 212, 1790
VpaK11BI GGWCC 1 cut(s) 418
VspI ATTAAT 4 cut(s) 195, 249, 1470, 1602
XapI RAATTY 5 cut(s) 479, 596, 1240, 1410, 1584
XbaI TCTAGA 1 cut(s) 991
XcmI CCANNNNNNNNNTGG 1 cut(s) 18
XmaJI CCTAGG 1 cut(s) 14
XmiI GTMKAC 2 cut(s) 6, 1528
XmnI GAANNNNTTC 3 cut(s) 861, 1254, 1588
XspI CTAG 7 cut(s) 15, 302, 561, 612, 792, 920, 992
ZraI GACGTC 1 cut(s) 1394
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.