RchiOBHm_Chr1g0375591

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0001006
Physical Location & Seq
Forward (+)
62972636 .. 62976123
3488 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 2367 bp
ATGATGTGTACTTCAGGTTTGCCAAAGATGTTTTGGGGAGAAGCCTTAAGAACTGCAAATTACCTTTGCAATAGATCCCCAAGCAAAGCTGTAGATAAAACACCATTTGAATTATGGTGTGGTAGGCAACCAAGTTTACACCATTGTCATGTCTGGGGATGTAAAGCTGAAGCAAGGATTTATAATCCAAATTTAGGAAAGCTTGATCCAAAGTCTGTAACTTGTCACTTTATTGGTTACTGTGAAAAGTCTAAAGGCTATAAGCTTTATTCGCCTCATCATTCACCCAGAGTTTTTGAAACTCATCAAGTTAAATTTTTAGGTGAAAGTGTCTGCAATACAAACTTTGAAGACTTGTCCTCAGATTTTGAAGAAATTGTAGAAAGTGTGGATAATATAGCAGTAATGCCAAGCATTCAAAATAATTTGTTTAACTCAGGATTGGCTCAAAGTCAAAATCTAGTCGAAAGTCAAAATGCTGTAGATGAAAATTTAGAGGCAAATGATCTTAATTCTGAAATGGCTGAGTTTGACTTAGGGCAGGGGCAAGAGCAACTGACTGAACCTGAACCTCAAAATGAACCACAACCTCAACCTCAACCTCAAACTAAGCCACAACAAAACCAAGTTGTGGTACCAAGAAGGTCACAGAGAGTAAGGAAACCAAGGTTTGGAGGGGAGGATGATATTTATGAGGTTTATTTAAGTGAAGTAGAATCTACATTATCTGATGACAATGATCCCACTAGTTTTAAGCAAGCAACTGGGAGTAATGATTCTGATGCTTGGACTCAAGCTATGATTGCAGAGCTTGATTCAATGTATAAAAATGGAGTATGGGAGCTTGTGAAGCCAAAAGAAAATCACAAGCCTATTGGCTGCAAGTGGGTTTTTAAAACCAAGAGAGATGTCAGTGGAAACATAGAGAGACATAAAGCTAGACTAGTTGCTAAAGGTTTCACACAGAAGGAAGGAATATATTTTACAGAAACCTTCTCACCTGTTTCAACTAAAGATTCATTTAGAATCATAATGGCTTTAGTAGCTCATTATGACATGGAATTACATCAAATGGATGTAAAAACAGCCTTCTTGAATGGGGAGCTGGAGGAAGAAATCTTCATGGTACAACCTGAAGGTTTTATTGAGGCAGGGAAAGAGAATATGGTTTGTAGGCTTAAGAAATCCATTTATGGACTCAAACAAGCTAGTAGACAGTGGTATAAGAAATTTGACTCAGTGGTTTCATCTTTTGGTTTTACTGAAAATCTTGTCGATGAGTGTGTATATCTTAAAGTTGTTGGAAACAATTTTATCTTTCTTATCCTATATGTAGATGATATTCTTCTTGCTAGCAGTAATGTAAAATTGCTGAAAGATACTAAGGCTTTCTTGTCAAGTAACTTTGACATGAAGGAATTGGGAGAAGCATCATATGTGTTAGGAATTGAGATTAAGAGAGATAGAAAGCAGGGATTGTTGGGATTATCTCAACAAAATTATATTTCAAAAATTCTGAAAAGATTTGGAATGGAAACCTGTGCTAATGGTGAAGTTCCAATGTCTAAGGGAGATAAACTAACTAAAAATCAGTGTCCTAAAACTGAAAATGAGAAAACTGAGATGGAGTCGATACCATATGCTAGGCTAGTAGGGAGTTTAATGTATGCACAAGTCTGCACAAGACCAGACTTGTCTTTTGCAGTAGGTATGCTATCAAGATTTCAGTCAAATCCTGGACATGAGCATTGGACAGCTGGTAAGAAGGTTCTAAGATACCTGCAAAGGACCAAAGACTATATGCTTGTGTATAAACATGTGAAAAAGCTTGAATTGGTTGGTTTTACTGATTCTGACTTTGCTGGGAATTATCCTGCATCTATGAAGTCGACATGTGGTTATGTTTATATGCTAGCAGGTGGTGCAGTAGCTTGGAAAACAATGAAACAATCATTGATAGCTACTTCCACCATGCAGGCTGAGTTGATAGCTATATATGAAGGAGTGTGTGAGGGATTGTGGATCAGAAATTTTATTTTGGAGACTAAAGTGTTGAGTGATCATGTAACTGGAAGTTTGAAGGTGTTTTGTGATAATGAGGCTGCAGTGTTTTTCAGTAAGAATAGTAAGAGATCAAATAACTCTAAGCACATAGATTTAAAATTCTATAGTATCAGAAAGAGAGTTAAAGATGGTGAAGTTGAGATTTCTGGAGTCAAGACAAGTGATCAATTGGCAGATCCATTTACTAAAGCATTGTCAGTAGCAGCCTTTAAGGAGCATTCCAGGAACATCAGAATTCTGTCGAAAACTGTTGCTTTGTGGTCTGGAACGAGTTTGCAGGTTGAGATGAAAACAAAGCTGTGA
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
RVT_2

Protein Analysis

788

Amino Acids

89.2

Weight (kDa)

7.5

Isoelectric Point (pI)

41.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_retrovirus PF25597 54 - 109 1.7e-13 Retroviral polymerase SH3-like domain
RVT_2 PF07727 277 - 522 1.2e-76 Reverse transcriptase (RNA-dependent DNA polymerase)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 183
AarI CACCTGC 1 cut(s) 1907
Acc36I ACCTGC 3 cut(s) 1788, 1907, 2332
Acc65I GGTACC 1 cut(s) 634
AccB1I GGYRCC 1 cut(s) 634
AccB7I CCANNNNNTGG 2 cut(s) 631, 671
AccI GTMKAC 2 cut(s) 1213, 1889
AclWI GGATC 5 cut(s) 69, 200, 734, 2030, 2234
AcsI RAATTY 8 cut(s) 190, 314, 490, 1229, 1512, 2029, 2162, 2298
AcuI CTGAAG 2 cut(s) 189, 1155
AfaI GTAC 3 cut(s) 10, 636, 1128
AfiI CCNNNNNNNGG 3 cut(s) 194, 631, 671
AflII CTTAAG 2 cut(s) 46, 1178
AflIII ACRYGT 2 cut(s) 1816, 1892
AhlI ACTAGT 2 cut(s) 746, 943
AjnI CCWGG 2 cut(s) 1735, 2285
Alw26I GTCTC 2 cut(s) 922, 2036
AlwI GGATC 5 cut(s) 69, 200, 734, 2030, 2234
ApeKI GCWGC 3 cut(s) 879, 2102, 2267
ApoI RAATTY 8 cut(s) 190, 314, 490, 1229, 1512, 2029, 2162, 2298
ArsI GACNNNNNNTTYG 2 cut(s) 1682, 1714
Asp718I GGTACC 1 cut(s) 634
AspS9I GGNCC 1 cut(s) 1788
AsuHPI GGTGA 5 cut(s) 276, 335, 990, 1562, 2207
AsuNHI GCTAGC 2 cut(s) 1352, 1912
AvaII GGWCC 1 cut(s) 1788
BanI GGYRCC 1 cut(s) 634
BbsI GAAGAC 1 cut(s) 357
BbvI GCAGC 3 cut(s) 866, 2089, 2279
BccI CCATC 2 cut(s) 1618, 2186
BciT130I CCWGG 2 cut(s) 1737, 2287
BclI TGATCA 2 cut(s) 2059, 2227
BcoDI GTCTC 2 cut(s) 922, 2036
BcuI ACTAGT 2 cut(s) 746, 943
BfaI CTAG 9 cut(s) 461, 747, 939, 944, 1209, 1353, 1644, 1649, 1913
BfmI CTRYAG 4 cut(s) 90, 480, 2103, 2167
BfrI CTTAAG 2 cut(s) 46, 1178
BfuAI ACCTGC 3 cut(s) 1788, 1907, 2332
BisI GCNGC 3 cut(s) 880, 2103, 2268
BlsI GCNGC 3 cut(s) 881, 2104, 2269
Bme1390I CCNGG 2 cut(s) 1737, 2287
Bme18I GGWCC 1 cut(s) 1788
BmgT120I GGNCC 1 cut(s) 1788
BmiI GGNNCC 1 cut(s) 636
BmrFI CCNGG 2 cut(s) 1737, 2287
BmrI ACTGGG 1 cut(s) 774
BmsI GCATC 3 cut(s) 772, 1439, 1886
BmtI GCTAGC 2 cut(s) 1356, 1916
BmuI ACTGGG 1 cut(s) 774
BpiI GAAGAC 1 cut(s) 357
BpmI CTGGAG 2 cut(s) 1127, 2232
BpuEI CTTGAG 1 cut(s) 777
BsaJI CCNNGG 1 cut(s) 665
Bsc4I CCNNNNNNNGG 3 cut(s) 194, 631, 671
Bse1I ACTGG 2 cut(s) 769, 2074
BseBI CCWGG 2 cut(s) 1737, 2287
BseDI CCNNGG 1 cut(s) 665
BseGI GGATG 3 cut(s) 164, 688, 1081
BseLI CCNNNNNNNGG 3 cut(s) 194, 631, 671
BseMII CTCAG 6 cut(s) 375, 450, 516, 1251, 1611, 1971
BseNI ACTGG 2 cut(s) 769, 2074
BseXI GCAGC 3 cut(s) 866, 2089, 2279
BseYI CCCAGC 1 cut(s) 1862
BsgI GTGCAG 2 cut(s) 1663, 1944
BshNI GGYRCC 1 cut(s) 634
BslI CCNNNNNNNGG 3 cut(s) 194, 631, 671
BsmAI GTCTC 2 cut(s) 922, 2036
BsmI GAATGC 2 cut(s) 414, 2281
Bsp143I GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
BspCNI CTCAG 6 cut(s) 374, 449, 517, 1250, 1612, 1972
BspLI GGNNCC 1 cut(s) 636
BspMAI CTGCAG 1 cut(s) 2107
BspMI ACCTGC 3 cut(s) 1788, 1907, 2332
BspOI GCTAGC 2 cut(s) 1356, 1916
BspPI GGATC 5 cut(s) 69, 200, 734, 2030, 2234
BspT107I GGYRCC 1 cut(s) 634
BspTI CTTAAG 2 cut(s) 46, 1178
BsrI ACTGG 2 cut(s) 769, 2074
BssECI CCNNGG 1 cut(s) 665
BssMI GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
BssT1I CCWWGG 1 cut(s) 665
Bst2UI CCWGG 2 cut(s) 1737, 2287
Bst4CI ACNGT 3 cut(s) 242, 1218, 2314
BstAFI CTTAAG 2 cut(s) 46, 1178
BstAPI GCANNNNNTGC 1 cut(s) 1922
BstC8I GCNNGC 4 cut(s) 759, 1354, 1914, 1977
BstF5I GGATG 3 cut(s) 164, 688, 1081
BstKTI GATC 9 cut(s) 77, 208, 508, 742, 2025, 2062, 2135, 2230, 2242
BstMAI GTCTC 2 cut(s) 922, 2036
BstMBI GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
BstMWI GCNNNNNNNGC 5 cut(s) 271, 803, 850, 1043, 1922
BstNI CCWGG 2 cut(s) 1737, 2287
BstNSI RCATGY 2 cut(s) 1820, 1896
BstSCI CCNGG 2 cut(s) 1735, 2285
BstSFI CTRYAG 4 cut(s) 90, 480, 2103, 2167
BstV1I GCAGC 3 cut(s) 866, 2089, 2279
BstV2I GAAGAC 1 cut(s) 357
BstX2I RGATCY 2 cut(s) 74, 2239
BstYI RGATCY 2 cut(s) 74, 2239
BtsCI GGATG 3 cut(s) 164, 688, 1081
BtsI GCAGTG 1 cut(s) 2112
BtsIMutI CAGTG 5 cut(s) 919, 1223, 1245, 1598, 2112
BveI ACCTGC 3 cut(s) 1788, 1907, 2332
Cac8I GCNNGC 4 cut(s) 759, 1354, 1914, 1977
Cfr13I GGNCC 1 cut(s) 1788
Csp6I GTAC 3 cut(s) 9, 635, 1127
CviAII CATG 9 cut(s) 149, 1057, 1123, 1411, 1742, 1817, 1893, 1972, 2063
CviQI GTAC 3 cut(s) 9, 635, 1127
DpnI GATC 9 cut(s) 76, 207, 507, 741, 2024, 2061, 2134, 2229, 2241
DpnII GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
DraI TTTAAA 2 cut(s) 895, 2160
Eco130I CCWWGG 1 cut(s) 665
Eco47I GGWCC 1 cut(s) 1788
Eco57I CTGAAG 2 cut(s) 189, 1155
EcoRI GAATTC 1 cut(s) 2298
EcoRII CCWGG 2 cut(s) 1735, 2285
EcoT14I CCWWGG 1 cut(s) 665
ErhI CCWWGG 1 cut(s) 665
FaeI CATG 9 cut(s) 152, 1060, 1126, 1414, 1745, 1820, 1896, 1975, 2066
FalI AAGNNNNNCTT 2 cut(s) 1376, 1408
FatI CATG 9 cut(s) 148, 1056, 1122, 1410, 1741, 1816, 1892, 1971, 2062
FauNDI CATATG 2 cut(s) 1435, 1639
FbaI TGATCA 2 cut(s) 2059, 2227
FblI GTMKAC 2 cut(s) 1213, 1889
Fnu4HI GCNGC 3 cut(s) 880, 2103, 2268
FokI GGATG 3 cut(s) 171, 695, 1088
Fsp4HI GCNGC 3 cut(s) 880, 2103, 2268
FspBI CTAG 9 cut(s) 461, 747, 939, 944, 1209, 1353, 1644, 1649, 1913
GluI GCNGC 3 cut(s) 880, 2103, 2268
GsaI CCCAGC 1 cut(s) 1866
GsuI CTGGAG 2 cut(s) 1127, 2232
Hin1II CATG 9 cut(s) 152, 1060, 1126, 1414, 1745, 1820, 1896, 1975, 2066
HincII GTYRAC 1 cut(s) 1890
HindII GTYRAC 1 cut(s) 1890
HindIII AAGCTT 3 cut(s) 200, 263, 1826
HphI GGTGA 5 cut(s) 276, 335, 990, 1562, 2207
Hpy166II GTNNAC 4 cut(s) 9, 137, 1214, 1890
Hpy188I TCNGA 9 cut(s) 364, 517, 730, 781, 1518, 1855, 2027, 2177, 2297
Hpy188III TCNNGA 6 cut(s) 438, 1093, 1719, 2211, 2218, 2328
Hpy8I GTNNAC 4 cut(s) 9, 137, 1214, 1890
HpyCH4III ACNGT 3 cut(s) 242, 1218, 2314
HpyF10VI GCNNNNNNNGC 5 cut(s) 271, 803, 850, 1043, 1922
Hsp92II CATG 9 cut(s) 152, 1060, 1126, 1414, 1745, 1820, 1896, 1975, 2066
KpnI GGTACC 1 cut(s) 638
Ksp22I TGATCA 2 cut(s) 2059, 2227
Kzo9I GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
LmnI GCTCC 3 cut(s) 841, 1102, 2278
Lsp1109I GCAGC 3 cut(s) 866, 2089, 2279
LweI GCATC 3 cut(s) 772, 1439, 1886
MaeI CTAG 9 cut(s) 461, 747, 939, 944, 1209, 1353, 1644, 1649, 1913
MaeIII GTNAC 6 cut(s) 217, 224, 236, 645, 1400, 2065
MalI GATC 9 cut(s) 76, 207, 507, 741, 2024, 2061, 2134, 2229, 2241
MboI GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
MboII GAAGA 5 cut(s) 362, 383, 1111, 1124, 1337
MfeI CAATTG 1 cut(s) 2231
MflI RGATCY 2 cut(s) 74, 2239
MlyI GAGTC 5 cut(s) 784, 1191, 1229, 1637, 2223
MmeI TCCRAC 1 cut(s) 1282
MslI CAYNNNNRTG 1 cut(s) 147
MspA1I CMGCKG 1 cut(s) 1757
MspCI CTTAAG 2 cut(s) 46, 1178
MspR9I CCNGG 2 cut(s) 1737, 2287
MunI CAATTG 1 cut(s) 2231
Mva1269I GAATGC 2 cut(s) 414, 2281
MvaI CCWGG 2 cut(s) 1737, 2287
MwoI GCNNNNNNNGC 5 cut(s) 271, 803, 850, 1043, 1922
NdeI CATATG 2 cut(s) 1435, 1639
NdeII GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
NheI GCTAGC 2 cut(s) 1352, 1912
NlaIII CATG 9 cut(s) 152, 1060, 1126, 1414, 1745, 1820, 1896, 1975, 2066
NlaIV GGNNCC 1 cut(s) 636
NmuCI GTSAC 2 cut(s) 224, 645
NspI RCATGY 2 cut(s) 1820, 1896
PaqCI CACCTGC 1 cut(s) 1907
PciI ACATGT 2 cut(s) 1816, 1892
PctI GAATGC 2 cut(s) 414, 2281
PfeI GAWTC 6 cut(s) 716, 776, 815, 1016, 1026, 1850
PflMI CCANNNNNTGG 2 cut(s) 631, 671
PfoI TCCNGGA 2 cut(s) 1735, 2285
PkrI GCNGC 3 cut(s) 881, 2104, 2269
PleI GAGTC 5 cut(s) 784, 1191, 1229, 1636, 2222
PpsI GAGTC 5 cut(s) 784, 1191, 1229, 1636, 2222
PscI ACATGT 2 cut(s) 1816, 1892
PsiI TTATAA 1 cut(s) 183
Psp6I CCWGG 2 cut(s) 1735, 2285
PspFI CCCAGC 1 cut(s) 1862
PspGI CCWGG 2 cut(s) 1735, 2285
PspN4I GGNNCC 1 cut(s) 636
PspPI GGNCC 1 cut(s) 1788
PstI CTGCAG 1 cut(s) 2107
PsuI RGATCY 2 cut(s) 74, 2239
PvuII CAGCTG 1 cut(s) 1757
RsaI GTAC 3 cut(s) 10, 636, 1128
RsaNI GTAC 3 cut(s) 9, 635, 1127
RseI CAYNNNNRTG 1 cut(s) 147
SalI GTCGAC 1 cut(s) 1888
SatI GCNGC 3 cut(s) 880, 2103, 2268
Sau3AI GATC 9 cut(s) 74, 205, 505, 739, 2022, 2059, 2132, 2227, 2239
Sau96I GGNCC 1 cut(s) 1788
SchI GAGTC 5 cut(s) 784, 1191, 1229, 1637, 2223
ScrFI CCNGG 2 cut(s) 1737, 2287
SfaNI GCATC 3 cut(s) 772, 1439, 1886
SfcI CTRYAG 4 cut(s) 90, 480, 2103, 2167
SinI GGWCC 1 cut(s) 1788
SmiMI CAYNNNNRTG 1 cut(s) 147
SmlI CTYRAG 3 cut(s) 46, 792, 1178
SmoI CTYRAG 3 cut(s) 46, 792, 1178
SpeI ACTAGT 2 cut(s) 746, 943
SspMI CTAG 9 cut(s) 461, 747, 939, 944, 1209, 1353, 1644, 1649, 1913
StyD4I CCNGG 2 cut(s) 1735, 2285
StyI CCWWGG 1 cut(s) 665
TaaI ACNGT 3 cut(s) 242, 1218, 2314
TaqI TCGA 5 cut(s) 465, 1275, 1631, 1889, 2306
TatI WGTACW 1 cut(s) 8
TfiI GAWTC 6 cut(s) 716, 776, 815, 1016, 1026, 1850
TscAI CASTG 5 cut(s) 919, 1223, 1245, 1598, 2112
TseFI GTSAC 2 cut(s) 224, 645
TseI GCWGC 3 cut(s) 879, 2102, 2267
Tsp45I GTSAC 2 cut(s) 224, 645
TspRI CASTG 5 cut(s) 919, 1223, 1245, 1598, 2112
Van91I CCANNNNNTGG 2 cut(s) 631, 671
Vha464I CTTAAG 2 cut(s) 46, 1178
VpaK11BI GGWCC 1 cut(s) 1788
XapI RAATTY 8 cut(s) 190, 314, 490, 1229, 1512, 2029, 2162, 2298
XceI RCATGY 2 cut(s) 1820, 1896
XcmI CCANNNNNNNNNTGG 2 cut(s) 30, 111
XmiI GTMKAC 2 cut(s) 1213, 1889
XspI CTAG 9 cut(s) 461, 747, 939, 944, 1209, 1353, 1644, 1649, 1913
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.