Rroxscaffold_1G00015490

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000175
Physical Location & Seq
Reverse (-)
19263053 .. 19264976
1924 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00015490.1

Sequence Viewer

Length: 1020 bp
ATGCCAAGGTGTTCAGTTGTTAGAGTTTTGTTGTTGGAAGGATTGATAAAACAGGACAAGTTGAGTTCGGCTACTGTGTTTAACAAATCAGAGAAATACTTCTTGGATAGGTATGTGACCAGATATGTCAATCAACTACTAGTTGGATTTGCAGGATACGTTATAGCTTCTTTTATGGATGCCCTTCTTAAAAGATTTTATGGCTCAGCTTCAGTCTCTTCTAATCAAAATCTTGCAAATAGATTCCAAGTAAACCATGAATCCACAAATCCACTTTTCCCAACCAACTTTAACCATCCGTATCGTCCATGTACATCTTCGGAGGAAGATACTTGTGACAATAATGACTGCAATAACCCCATGCTCAAGTACATAAGTGATACTCTTCTTGAAGAAGACCTAGAGGGTAAACCTTGCATGGTGCAAAACTGTTTGGCACTCCAAGCTGCTGAAAAATCTTTCTATGATCTCCTCAATCCAAAGTATCGCCCTTCATTTGACCAACCTCCCCTTTCTGTGTACCAAAGCTTTGAGAACTCAGATGATGATTCCACACAGAGTTGTCATAGTAGTATTGGCTCTATTACCCCTGTTACTCCTAAGACAAATCCATTTCATGTCGAATCTTCCTTTGCCGAGACTATGTCAGATACCACTTTGGTTTCACATTCACTTTCTCAGATGGAAAGACTTGGGTTTCTAGGAGTAAGGGAAGCAATCAAAAATGTGGTTTATGAGCCAGAGAATGACAGCTACAGCTCAACAAATGGACCAAAGGGAAAGAAACATCATCAAAGGGAGGATGGTAATAATCCATACAATGGGAGAAGCAACAAGCTGTCAGCAGCTTCTGCTCAGGACTTTGAGCCGCAAGAAATGTTTGAAAAGGTGTTTCTCTGTCAGGAGAGAATCATGAATCCGAGTGTTGTTCTCCTCGTGAATTTATTAAATCTGAGGAAAGTGGGAGGTTGCGGCTTAAGAGACAACAAAGAGGATCAAAGAAACACAACAACAAAGTAG
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
GRAS RVT_2

Protein Analysis

339

Amino Acids

38.23

Weight (kDa)

5.72

Isoelectric Point (pI)

37.28

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000175)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G46600 AT3G46600 AT3G46600 AT5G59450
fragaria_vesca FvH4_3g36690 FvH4_3g36690 FvH4_3g36690 FvH4_3g36690 FvH4_3g36690 FvH4_3g36690 FvH4_3g36691 FvH4_3g36700 FvH4_3g36711 FvH4_3g36711 FvH4_3g36720 FvH4_3g36730 FvH4_3g36760
malus_domestica MD03G1088900.v1.1 MD03G1089100.v1.1 MD03G1089200.v1.1 MD03G1089300.v1.1 MD11G1097900.v1.1 MD11G1098000.v1.1 MD11G1098100.v1.1 MD11G1098400.v1.1 MD11G1098900.v1.1
prunus_persica Prupe.6G073300_v2.0.a1 Prupe.6G073400_v2.0.a1 Prupe.6G073400_v2.0.a1 Prupe.6G073500_v2.0.a1 Prupe.6G073600_v2.0.a1 Prupe.6G073700_v2.0.a1 Prupe.6G073800_v2.0.a1 Prupe.I004400_v2.0.a1 Prupe.I004500_v2.0.a1
pyrus_communis pycom03g07050 pycom03g07060 pycom03g07070 pycom03g07110 pycom04g11870 pycom11g08270 pycom11g08280
rosa_chinensis RchiOBHm_Chr5g0065591 RchiOBHm_Chr5g0065601 RchiOBHm_Chr5g0065621 RchiOBHm_Chr5g0065631 RchiOBHm_Chr5g0065641 RchiOBHm_Chr5g0065651 RchiOBHm_Chr5g0065671 RchiOBHm_Chr5g0065721 RchiOBHm_Chr5g0065731 RchiOBHm_Chr5g0065751 RchiOBHm_Chr5g0065791 RchiOBHm_Chr5g0065811
rosa_laevigata RLG00000035800 RLG00000035801 RLG00000035803 RLG00000035804 RLG00000035805 RLG00000035806 RLG00000035807 RLG00000035808 RLG00000035809 RLG00000035810 RLG00000035813 RLG00000035814 RLG00000035816
rosa_multiflora Rmu_co8233911.1_g000001 Rmu_co8258053.1_g000001 Rmu_co8279117.1_g000001 Rmu_sc0000235.1_g000004 Rmu_sc0000235.1_g000024 Rmu_sc0000235.1_g000060 Rmu_sc0000235.1_g000074 Rmu_sc0001010.1_g000001 Rmu_sc0001010.1_g000015 Rmu_sc0001010.1_g000030 Rmu_sc0001010.1_g000037 Rmu_sc0001010.1_g000043 Rmu_sc0001010.1_g000063 Rmu_sc0001010.1_g000066 Rmu_sc0003636.1_g000008 Rmu_sc0003636.1_g000011 Rmu_sc0003636.1_g000012 Rmu_sc0003636.1_g000015 Rmu_sc0005971.1_g000017 Rmu_sc0008231.1_g000001 Rmu_sc0032155.1_g000001
rosa_roxburghii Rroxscaffold_1G00015360 Rroxscaffold_1G00015390 Rroxscaffold_1G00015410 Rroxscaffold_1G00015430 Rroxscaffold_1G00015490 Rroxscaffold_1G00015520 Rroxscaffold_1G00015530 Rroxscaffold_1G00015550 Rroxscaffold_1G00015560 Rroxscaffold_1G00015580 Rroxscaffold_1G00015600 Rroxscaffold_1G00015610 Rroxscaffold_1G00015620 Rroxscaffold_1G00015630
rosa_rugosa Rorug05G0372800 Rorug05G0372800 Rorug05G0372800 Rorug05G0372800 Rorug05G0373100 Rorug05G0373100 Rorug05G0373200 Rorug05G0373300 Rorug05G0373400 Rorug05G0373500 Rorug05G0373600 Rorug05G0373700 Rorug05G0378700
rosa_samantha Rh5AG430900 Rh5AG431000 Rh5AG431100 Rh5AG431200 Rh5AG431700 Rh5AG431800 Rh5AG431900 Rh5AG432200 Rh5AG432500 Rh5BG445200 Rh5BG446000 Rh5BG447100 Rh5BG447200 Rh5BG447400 Rh5BG447800 Rh5BG447900 Rh5BG448000 Rh5BG448100 Rh5BG448300 Rh5BG448400 Rh5BG448500 Rh5BG448600 Rh5CG467400 Rh5CG468000 Rh5CG469000 Rh5CG469100 Rh5CG469400 Rh5CG469700 Rh5CG469900 Rh5CG470100 Rh5CG470200 Rh5CG470600 Rh5CG470700 Rh5CG470800 Rh5DG459500 Rh5DG459700 Rh5DG459800 Rh5DG460000 Rh5DG460900 Rh5DG461300 Rh5DG461500 Rh5DG461900 Rh5DG462000 Rh5DG462100
rosa_wichuraiana Rw5G040420 Rw5G040430 Rw5G040440 Rw5G040470 Rw5G040480 Rw5G040500 Rw5G040510 Rw5G040530 Rw5G040550 Rw5G040560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 821
AciI CCGC 2 cut(s) 869, 972
AclWI GGATC 1 cut(s) 1002
AcsI RAATTY 1 cut(s) 940
AcuI CTGAAG 1 cut(s) 195
AfaI GTAC 3 cut(s) 313, 371, 521
AfiI CCNNNNNNNGG 1 cut(s) 821
AflII CTTAAG 1 cut(s) 976
AgsI TTSAA 2 cut(s) 392, 884
AhlI ACTAGT 1 cut(s) 139
AjuI GAANNNNNNNTTGG 2 cut(s) 86, 118
AluBI AGCT 8 cut(s) 167, 209, 446, 528, 753, 759, 838, 848
AluI AGCT 8 cut(s) 167, 209, 446, 528, 753, 759, 838, 848
Alw26I GTCTC 3 cut(s) 220, 632, 975
AlwI GGATC 1 cut(s) 1002
AlwNI CAGNNNCTG 1 cut(s) 851
ApeKI GCWGC 2 cut(s) 446, 845
ApoI RAATTY 1 cut(s) 940
Asp700I GAANNNNTTC 1 cut(s) 98
AspS9I GGNCC 1 cut(s) 770
AvaII GGWCC 1 cut(s) 770
BauI CACGAG 1 cut(s) 935
BbsI GAAGAC 1 cut(s) 402
BbvI GCAGC 2 cut(s) 433, 857
BccI CCATC 3 cut(s) 303, 676, 797
BciVI GTATCC 1 cut(s) 149
BcoDI GTCTC 3 cut(s) 220, 632, 975
BcuI ACTAGT 1 cut(s) 139
BfaI CTAG 3 cut(s) 140, 401, 701
BfmI CTRYAG 1 cut(s) 754
BfrI CTTAAG 1 cut(s) 976
BfuI GTATCC 1 cut(s) 149
BisI GCNGC 4 cut(s) 447, 846, 869, 973
BlpI GCTNAGC 1 cut(s) 205
BlsI GCNGC 4 cut(s) 448, 847, 870, 974
Bme18I GGWCC 1 cut(s) 770
BmgT120I GGNCC 1 cut(s) 770
BmsI GCATC 1 cut(s) 169
BpiI GAAGAC 1 cut(s) 402
Bpu10I CCTNAGC 1 cut(s) 855
Bpu1102I GCTNAGC 1 cut(s) 205
BpuEI CTTGAG 1 cut(s) 350
BsaJI CCNNGG 1 cut(s) 5
Bsc4I CCNNNNNNNGG 1 cut(s) 821
BseDI CCNNGG 1 cut(s) 5
BseGI GGATG 3 cut(s) 184, 295, 808
BseLI CCNNNNNNNGG 1 cut(s) 821
BseMII CTCAG 5 cut(s) 219, 552, 692, 869, 944
BseRI GAGGAG 2 cut(s) 461, 923
BseXI GCAGC 2 cut(s) 433, 857
BslI CCNNNNNNNGG 1 cut(s) 821
BsmAI GTCTC 3 cut(s) 220, 632, 975
Bsp1407I TGTACA 1 cut(s) 311
Bsp143I GATC 2 cut(s) 466, 994
Bsp1720I GCTNAGC 1 cut(s) 205
BspACI CCGC 2 cut(s) 869, 972
BspCNI CTCAG 5 cut(s) 218, 551, 691, 868, 945
BspHI TCATGA 1 cut(s) 912
BspPI GGATC 1 cut(s) 1002
BspTI CTTAAG 1 cut(s) 976
BsrGI TGTACA 1 cut(s) 311
BssECI CCNNGG 1 cut(s) 5
BssMI GATC 2 cut(s) 466, 994
BssSI CACGAG 1 cut(s) 935
BssT1I CCWWGG 1 cut(s) 5
Bst2BI CACGAG 1 cut(s) 935
Bst4CI ACNGT 2 cut(s) 76, 431
Bst6I CTCTTC 2 cut(s) 223, 390
BstAFI CTTAAG 1 cut(s) 976
BstAPI GCANNNNNTGC 1 cut(s) 851
BstAUI TGTACA 1 cut(s) 311
BstDEI CTNAG 6 cut(s) 205, 538, 600, 678, 855, 953
BstF5I GGATG 3 cut(s) 184, 295, 808
BstKTI GATC 2 cut(s) 469, 997
BstMAI GTCTC 3 cut(s) 220, 632, 975
BstMBI GATC 2 cut(s) 466, 994
BstMWI GCNNNNNNNGC 2 cut(s) 443, 851
BstSFI CTRYAG 1 cut(s) 754
BstV1I GCAGC 2 cut(s) 433, 857
BstV2I GAAGAC 1 cut(s) 402
BsuI GTATCC 1 cut(s) 149
BtsCI GGATG 3 cut(s) 184, 295, 808
CaiI CAGNNNCTG 1 cut(s) 851
CciI TCATGA 1 cut(s) 912
Cfr13I GGNCC 1 cut(s) 770
Csp6I GTAC 3 cut(s) 312, 370, 520
CviAII CATG 6 cut(s) 257, 309, 361, 418, 617, 913
CviQI GTAC 3 cut(s) 312, 370, 520
DdeI CTNAG 6 cut(s) 205, 538, 600, 678, 855, 953
DpnI GATC 2 cut(s) 468, 996
DpnII GATC 2 cut(s) 466, 994
Eam1104I CTCTTC 2 cut(s) 223, 390
EarI CTCTTC 2 cut(s) 223, 390
Eco130I CCWWGG 1 cut(s) 5
Eco47I GGWCC 1 cut(s) 770
Eco57I CTGAAG 1 cut(s) 195
EcoT14I CCWWGG 1 cut(s) 5
ErhI CCWWGG 1 cut(s) 5
FaeI CATG 6 cut(s) 260, 312, 364, 421, 620, 916
FatI CATG 6 cut(s) 256, 308, 360, 417, 616, 912
Fnu4HI GCNGC 4 cut(s) 447, 846, 869, 973
FokI GGATG 3 cut(s) 191, 282, 815
Fsp4HI GCNGC 4 cut(s) 447, 846, 869, 973
FspBI CTAG 3 cut(s) 140, 401, 701
GluI GCNGC 4 cut(s) 447, 846, 869, 973
Hin1II CATG 6 cut(s) 260, 312, 364, 421, 620, 916
HindIII AAGCTT 1 cut(s) 526
HinfI GANTC 6 cut(s) 243, 260, 548, 623, 909, 916
Hpy166II GTNNAC 3 cut(s) 253, 410, 520
Hpy188I TCNGA 7 cut(s) 91, 322, 541, 649, 681, 921, 954
Hpy188III TCNNGA 5 cut(s) 389, 857, 902, 913, 937
Hpy8I GTNNAC 3 cut(s) 253, 410, 520
HpyAV CCTTC 3 cut(s) 32, 194, 501
HpyCH4III ACNGT 2 cut(s) 76, 431
HpyCH4IV ACGT 1 cut(s) 159
HpyCH4V TGCA 5 cut(s) 152, 236, 351, 417, 424
HpyF10VI GCNNNNNNNGC 2 cut(s) 443, 851
HpyF3I CTNAG 6 cut(s) 205, 538, 600, 678, 855, 953
HpySE526I ACGT 1 cut(s) 159
Hsp92II CATG 6 cut(s) 260, 312, 364, 421, 620, 916
Kzo9I GATC 2 cut(s) 466, 994
LpnPI CCDG 7 cut(s) 38, 133, 138, 603, 753, 842, 887
Lsp1109I GCAGC 2 cut(s) 433, 857
LweI GCATC 1 cut(s) 169
MaeI CTAG 3 cut(s) 140, 401, 701
MaeII ACGT 1 cut(s) 159
MaeIII GTNAC 3 cut(s) 115, 335, 592
MalI GATC 2 cut(s) 468, 996
MboI GATC 2 cut(s) 466, 994
MboII GAAGA 7 cut(s) 210, 309, 338, 377, 404, 407, 618
MluCI AATT 1 cut(s) 940
MmeI TCCRAC 2 cut(s) 15, 124
MnlI CCTC 9 cut(s) 316, 397, 482, 516, 793, 944, 948, 959, 985
MroXI GAANNNNTTC 1 cut(s) 98
MseI TTAA 5 cut(s) 81, 189, 291, 947, 977
MspCI CTTAAG 1 cut(s) 976
MwoI GCNNNNNNNGC 2 cut(s) 443, 851
NdeII GATC 2 cut(s) 466, 994
NlaIII CATG 6 cut(s) 260, 312, 364, 421, 620, 916
NmeAIII GCCGAG 1 cut(s) 661
NmuCI GTSAC 2 cut(s) 115, 335
PagI TCATGA 1 cut(s) 912
PdmI GAANNNNTTC 1 cut(s) 98
PfeI GAWTC 6 cut(s) 243, 260, 548, 623, 909, 916
PflFI GACNNNGTC 1 cut(s) 643
PflMI CCANNNNNTGG 1 cut(s) 821
PkrI GCNGC 4 cut(s) 448, 847, 870, 974
PspPI GGNCC 1 cut(s) 770
PstNI CAGNNNCTG 1 cut(s) 851
PsyI GACNNNGTC 1 cut(s) 643
RsaI GTAC 3 cut(s) 313, 371, 521
RsaNI GTAC 3 cut(s) 312, 370, 520
SaqAI TTAA 5 cut(s) 81, 189, 291, 947, 977
SatI GCNGC 4 cut(s) 447, 846, 869, 973
Sau3AI GATC 2 cut(s) 466, 994
Sau96I GGNCC 1 cut(s) 770
SfaNI GCATC 1 cut(s) 169
SfcI CTRYAG 1 cut(s) 754
SinI GGWCC 1 cut(s) 770
SmlI CTYRAG 2 cut(s) 365, 976
SmoI CTYRAG 2 cut(s) 365, 976
SpeI ACTAGT 1 cut(s) 139
Sse9I AATT 1 cut(s) 940
SsiI CCGC 2 cut(s) 869, 972
SspMI CTAG 3 cut(s) 140, 401, 701
StyI CCWWGG 1 cut(s) 5
TaaI ACNGT 2 cut(s) 76, 431
TaiI ACGT 1 cut(s) 162
TaqI TCGA 1 cut(s) 621
TasI AATT 1 cut(s) 940
TatI WGTACW 2 cut(s) 311, 369
TauI GCSGC 2 cut(s) 871, 975
TfiI GAWTC 6 cut(s) 243, 260, 548, 623, 909, 916
Tru1I TTAA 5 cut(s) 81, 189, 291, 947, 977
Tru9I TTAA 5 cut(s) 81, 189, 291, 947, 977
TseFI GTSAC 2 cut(s) 115, 335
TseI GCWGC 2 cut(s) 446, 845
Tsp45I GTSAC 2 cut(s) 115, 335
TspDTI ATGAA 4 cut(s) 273, 483, 605, 929
TspGWI ACGGA 1 cut(s) 288
Tth111I GACNNNGTC 1 cut(s) 643
Van91I CCANNNNNTGG 1 cut(s) 821
Vha464I CTTAAG 1 cut(s) 976
VpaK11BI GGWCC 1 cut(s) 770
XapI RAATTY 1 cut(s) 940
XmnI GAANNNNTTC 1 cut(s) 98
XspI CTAG 3 cut(s) 140, 401, 701
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.