Rw2G023280

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000106
Physical Location & Seq
Forward (+)
33847989 .. 33848372
384 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G023280.1

Sequence Viewer

Length: 384 bp
ATGCCAGGGGACGAAGAACGCCAAGTCATTGAACAAGGCAAAACTTCGACTACGCTGAAGATGCCAGAACCATGGGAAAATTCCAATCACCCTTTGTTCATTCATCACTCAGATCCACTGGGAGCCGTTCTCGTGGCACAGCCCTTAGTGGAAGACAATTACACCACCTGGGCTCAGTCTATGAGCATGGCTCTTATGATTAAAAACAAAAAGGGTTTCATCAATGGAACCATTCAAAGATCAACCCAGAGAGTTGAAGAACAACTACAACGGGACCGTTGCAACACATTGGTTAAAACTTGGCTGCTGGGTTCTATGTCGAAAGAAATATCCCGCAGCGTCATCCACTGCAAGACTGCAAGAGGTATGTGGCAAGAGTTATAG
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

127

Amino Acids

14.55

Weight (kDa)

7.83

Isoelectric Point (pI)

55.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 35 - 79 8.6e-16 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0000106)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G20980 AT3G21000
fragaria_vesca FvH4_1g15931 FvH4_1g15931 FvH4_1g18381 FvH4_1g18382 FvH4_1g22571 FvH4_1g24950 FvH4_1g29372 FvH4_2g03582 FvH4_2g09851 FvH4_2g13112 FvH4_2g20843 FvH4_2g22701 FvH4_2g22702 FvH4_2g23403 FvH4_2g40201 FvH4_3g03542 FvH4_3g03543 FvH4_3g04761 FvH4_3g10464 FvH4_3g12741 FvH4_3g15781 FvH4_3g30981 FvH4_4g00985 FvH4_4g07035 FvH4_4g08192 FvH4_4g08211 FvH4_4g08553 FvH4_4g14242 FvH4_4g14243 FvH4_4g14641 FvH4_4g14843 FvH4_4g14844 FvH4_4g15061 FvH4_4g16281 FvH4_4g19152 FvH4_4g26451 FvH4_5g06442 FvH4_5g22521 FvH4_5g24301 FvH4_5g38641 FvH4_6g02393 FvH4_6g12782 FvH4_6g13871 FvH4_6g19391 FvH4_6g20105 FvH4_6g21292 FvH4_6g23581 FvH4_6g29153 FvH4_6g29691 FvH4_6g30871 FvH4_6g33351 FvH4_6g37042 FvH4_6g38781 FvH4_6g40340 FvH4_7g11221 FvH4_7g23352 FvH4_7g23352 FvH4_7g31212 FvH4_7g32172 FvH4_7g32173 FvH4_7g33701
malus_domestica MD03G1006900.v1.1 MD04G1039100.v1.1 MD04G1239100.v1.1 MD05G1048700.v1.1 MD08G1001800.v1.1 MD09G1165800.v1.1 MD11G1065200.v1.1 MD11G1138200.v1.1 MD14G1033300.v1.1 MD14G1173900.v1.1 MD15G1218200.v1.1 MD16G1034000.v1.1
prunus_persica Prupe.1G219500_v2.0.a1 Prupe.2G169400_v2.0.a1 Prupe.4G109700_v2.0.a1 Prupe.7G022000_v2.0.a1
pyrus_communis pycom01g02000 pycom02g13350 pycom03g01010 pycom04g05000 pycom04g06100 pycom05g05580 pycom05g09950 pycom05g13280 pycom05g26610 pycom06g05940 pycom06g07760 pycom07g06120 pycom07g24780 pycom08g08820 pycom09g03600 pycom09g07200 pycom10g01280 pycom10g06730 pycom10g08410 pycom10g25520 pycom11g00470 pycom11g05250 pycom11g25180 pycom12g08050 pycom13g14760 pycom13g28170 pycom15g14310 pycom15g19880 pycom15g24230 pycom15g33640 pycom16g02150 pycom16g16240 pycom16g20050 pycom16g21090 pycom17g06100
rosa_chinensis RchiOBHm_Chr1g0322161 RchiOBHm_Chr1g0326341 RchiOBHm_Chr1g0357701 RchiOBHm_Chr1g0379861 RchiOBHm_Chr1g0383421 RchiOBHm_Chr2g0093981 RchiOBHm_Chr2g0139051 RchiOBHm_Chr2g0145501 RchiOBHm_Chr3g0450971 RchiOBHm_Chr3g0451441 RchiOBHm_Chr3g0457411 RchiOBHm_Chr4g0436261 RchiOBHm_Chr5g0051431 RchiOBHm_Chr5g0064031 RchiOBHm_Chr5g0073141 RchiOBHm_Chr5g0080061 RchiOBHm_Chr7g0200561 RchiOBHm_Chr7g0235911
rosa_laevigata RLG00000000145 RLG00000000429 RLG00000020339 RLG00000035212
rosa_multiflora Rmu_co7977988.1_g000001 Rmu_co8037866.1_g000001 Rmu_co8243895.1_g000001 Rmu_co8363787.1_g000001 Rmu_co8381003.1_g000001 Rmu_sc0000263.1_g000006 Rmu_sc0000349.1_g000002 Rmu_sc0000455.1_g000031 Rmu_sc0000936.1_g000022 Rmu_sc0001035.1_g000023 Rmu_sc0001169.1_g000019 Rmu_sc0001250.1_g000026 Rmu_sc0002200.1_g000051 Rmu_sc0002230.1_g000027 Rmu_sc0002591.1_g000039 Rmu_sc0003182.1_g000003 Rmu_sc0003441.1_g000068 Rmu_sc0003722.1_g000018 Rmu_sc0003764.1_g000007 Rmu_sc0006014.1_g000016 Rmu_sc0012582.1_g000002 Rmu_sc0013519.1_g000002 Rmu_sc0014550.1_g000005 Rmu_sc0014857.1_g000007 Rmu_sc0019855.1_g000001 Rmu_sc0030839.1_g000001 Rmu_sc0031308.1_g000001
rosa_roxburghii Rroxscaffold_1G00011290 Rroxscaffold_1G00041340 Rroxscaffold_1G00053780 Rroxscaffold_1G00059130 Rroxscaffold_1G00061580 Rroxscaffold_2G00080940 Rroxscaffold_2G00109540 Rroxscaffold_3G00228400 Rroxscaffold_3G00237710 Rroxscaffold_4G00285210 Rroxscaffold_4G00299600 Rroxscaffold_4G00324940 Rroxscaffold_4G00330580 Rroxscaffold_5G00333000 Rroxscaffold_5G00347920 Rroxscaffold_5G00375310 Rroxscaffold_6G00394760 Rroxscaffold_6G00406260 Rroxscaffold_7G00165690 Rroxscaffold_7G00187680
rosa_rugosa Rorug01G0050200 Rorug02G0273800 Rorug06G0490600 Rorug06G0490600 Rorug06G0490700
rosa_samantha Rh1AG348400 Rh5AG222600 Rh6DG000500 Rh6DG194500 Rh7BG452700
rosa_wichuraiana Rw0G003060 Rw0G010530 Rw0G012970 Rw0G022560 Rw0G023390 Rw1G001270 Rw1G001530 Rw1G006070 Rw1G008210 Rw1G022090 Rw1G023320 Rw2G003790 Rw2G004140 Rw2G005280 Rw2G006460 Rw2G019620 Rw2G019840 Rw2G022530 Rw2G023280 Rw2G024990 Rw2G042380 Rw2G051390 Rw3G001640 Rw3G016720 Rw3G017100 Rw3G020890 Rw3G020900 Rw3G021100 Rw4G004820 Rw4G014950 Rw4G030920 Rw4G031400 Rw5G008500 Rw5G017950 Rw5G020170 Rw5G030160 Rw5G033050 Rw5G034640 Rw5G043920 Rw6G005060 Rw6G005540 Rw6G006720 Rw6G008460 Rw6G008670 Rw6G014780 Rw6G019100 Rw6G019350 Rw6G026310 Rw7G016810 Rw7G019180 Rw7G022890 Rw7G025880 Rw7G026390 Rw7G028340 Rw7G034850 Rw7G035170 Rw7G035420 Rw7G037990 Rw7G041560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 334
AclWI GGATC 1 cut(s) 107
AcsI RAATTY 1 cut(s) 79
AcuI CTGAAG 1 cut(s) 77
AgsI TTSAA 3 cut(s) 32, 236, 257
AjnI CCWGG 2 cut(s) 4, 167
AlwI GGATC 1 cut(s) 107
ApeKI GCWGC 2 cut(s) 304, 336
ApoI RAATTY 1 cut(s) 79
AspS9I GGNCC 1 cut(s) 274
AsuHPI GGTGA 1 cut(s) 80
AvaII GGWCC 1 cut(s) 274
BanII GRGCYC 1 cut(s) 175
BarI GAAGNNNNNNTAC 2 cut(s) 249, 281
BauI CACGAG 1 cut(s) 131
BbsI GAAGAC 1 cut(s) 159
BbvI GCAGC 2 cut(s) 291, 348
BceAI ACGGC 1 cut(s) 110
BciT130I CCWGG 2 cut(s) 6, 169
BisI GCNGC 2 cut(s) 305, 337
BlsI GCNGC 2 cut(s) 306, 338
Bme1390I CCNGG 2 cut(s) 6, 169
Bme18I GGWCC 1 cut(s) 274
BmgT120I GGNCC 1 cut(s) 274
BmiI GGNNCC 3 cut(s) 124, 229, 275
BmrFI CCNGG 2 cut(s) 6, 169
BmrI ACTGGG 1 cut(s) 128
BmsI GCATC 1 cut(s) 51
BmuI ACTGGG 1 cut(s) 128
BpiI GAAGAC 1 cut(s) 159
BplI GAGNNNNNCTC 4 cut(s) 114, 146, 175, 207
BsaJI CCNNGG 3 cut(s) 5, 71, 168
Bse1I ACTGG 1 cut(s) 123
BseBI CCWGG 2 cut(s) 6, 169
BseDI CCNNGG 3 cut(s) 5, 71, 168
BseGI GGATG 1 cut(s) 342
BseMII CTCAG 2 cut(s) 123, 188
BseNI ACTGG 1 cut(s) 123
BseXI GCAGC 2 cut(s) 291, 348
BseYI CCCAGC 1 cut(s) 307
BslFI GGGAC 2 cut(s) 23, 287
BsmFI GGGAC 2 cut(s) 23, 287
Bsp1286I GDGCHC 1 cut(s) 175
Bsp143I GATC 2 cut(s) 112, 239
Bsp19I CCATGG 1 cut(s) 71
BspACI CCGC 1 cut(s) 334
BspCNI CTCAG 2 cut(s) 122, 187
BspLI GGNNCC 3 cut(s) 124, 229, 275
BspPI GGATC 1 cut(s) 107
BsrI ACTGG 1 cut(s) 123
BssECI CCNNGG 3 cut(s) 5, 71, 168
BssMI GATC 2 cut(s) 112, 239
BssSI CACGAG 1 cut(s) 131
BssT1I CCWWGG 1 cut(s) 71
Bst2BI CACGAG 1 cut(s) 131
Bst2UI CCWGG 2 cut(s) 6, 169
Bst4CI ACNGT 1 cut(s) 278
BstDEI CTNAG 3 cut(s) 109, 145, 174
BstDSI CCRYGG 1 cut(s) 71
BstF5I GGATG 1 cut(s) 342
BstKTI GATC 2 cut(s) 115, 242
BstMBI GATC 2 cut(s) 112, 239
BstMWI GCNNNNNNNGC 1 cut(s) 61
BstNI CCWGG 2 cut(s) 6, 169
BstSCI CCNGG 2 cut(s) 4, 167
BstV1I GCAGC 2 cut(s) 291, 348
BstV2I GAAGAC 1 cut(s) 159
BstX2I RGATCY 1 cut(s) 112
BstXI CCANNNNNNTGG 1 cut(s) 72
BstYI RGATCY 1 cut(s) 112
BtgI CCRYGG 1 cut(s) 71
BtsCI GGATG 1 cut(s) 342
BtsI GCAGTG 1 cut(s) 346
BtsIMutI CAGTG 2 cut(s) 116, 346
Cfr13I GGNCC 1 cut(s) 274
CseI GACGC 1 cut(s) 328
CviAII CATG 2 cut(s) 72, 187
CviJI RGCY 5 cut(s) 125, 142, 173, 191, 304
CviKI_1 RGCY 5 cut(s) 125, 142, 173, 191, 304
DdeI CTNAG 3 cut(s) 109, 145, 174
DpnI GATC 2 cut(s) 114, 241
DpnII GATC 2 cut(s) 112, 239
Eco130I CCWWGG 1 cut(s) 71
Eco24I GRGCYC 1 cut(s) 175
Eco47I GGWCC 1 cut(s) 274
Eco57I CTGAAG 1 cut(s) 77
EcoRII CCWGG 2 cut(s) 4, 167
EcoT14I CCWWGG 1 cut(s) 71
EcoT38I GRGCYC 1 cut(s) 175
ErhI CCWWGG 1 cut(s) 71
FaeI CATG 2 cut(s) 75, 190
FaiI YATR 7 cut(s) 73, 182, 188, 197, 317, 368, 382
FaqI GGGAC 2 cut(s) 23, 287
FatI CATG 2 cut(s) 71, 186
FauI CCCGC 1 cut(s) 341
Fnu4HI GCNGC 2 cut(s) 305, 337
FokI GGATG 1 cut(s) 329
FriOI GRGCYC 1 cut(s) 175
Fsp4HI GCNGC 2 cut(s) 305, 337
GluI GCNGC 2 cut(s) 305, 337
GsaI CCCAGC 1 cut(s) 311
HgaI GACGC 1 cut(s) 328
Hin1II CATG 2 cut(s) 75, 190
HphI GGTGA 1 cut(s) 80
Hpy188I TCNGA 1 cut(s) 112
HpyCH4III ACNGT 1 cut(s) 278
HpyCH4V TGCA 3 cut(s) 282, 351, 359
HpyF10VI GCNNNNNNNGC 1 cut(s) 61
HpyF3I CTNAG 3 cut(s) 109, 145, 174
Hsp92II CATG 2 cut(s) 75, 190
Kzo9I GATC 2 cut(s) 112, 239
LmnI GCTCC 1 cut(s) 122
LpnPI CCDG 7 cut(s) 18, 78, 104, 154, 181, 260, 293
Lsp1109I GCAGC 2 cut(s) 291, 348
LweI GCATC 1 cut(s) 51
MalI GATC 2 cut(s) 114, 241
MboI GATC 2 cut(s) 112, 239
MboII GAAGA 4 cut(s) 26, 70, 164, 269
MflI RGATCY 1 cut(s) 112
MhlI GDGCHC 1 cut(s) 175
MluCI AATT 2 cut(s) 79, 157
MnlI CCTC 1 cut(s) 356
MseI TTAA 2 cut(s) 201, 294
MspR9I CCNGG 2 cut(s) 6, 169
MvaI CCWGG 2 cut(s) 6, 169
MwoI GCNNNNNNNGC 1 cut(s) 61
NcoI CCATGG 1 cut(s) 71
NdeII GATC 2 cut(s) 112, 239
NlaIII CATG 2 cut(s) 75, 190
NlaIV GGNNCC 3 cut(s) 124, 229, 275
PkrI GCNGC 2 cut(s) 306, 338
Psp6I CCWGG 2 cut(s) 4, 167
PspFI CCCAGC 1 cut(s) 307
PspGI CCWGG 2 cut(s) 4, 167
PspN4I GGNNCC 3 cut(s) 124, 229, 275
PspPI GGNCC 1 cut(s) 274
PsuI RGATCY 1 cut(s) 112
SaqAI TTAA 2 cut(s) 201, 294
SatI GCNGC 2 cut(s) 305, 337
Sau3AI GATC 2 cut(s) 112, 239
Sau96I GGNCC 1 cut(s) 274
ScrFI CCNGG 2 cut(s) 6, 169
SduI GDGCHC 1 cut(s) 175
SetI ASST 2 cut(s) 170, 367
SfaNI GCATC 1 cut(s) 51
SinI GGWCC 1 cut(s) 274
Sse9I AATT 2 cut(s) 79, 157
SsiI CCGC 1 cut(s) 334
StyD4I CCNGG 2 cut(s) 4, 167
StyI CCWWGG 1 cut(s) 71
TaaI ACNGT 1 cut(s) 278
TaqI TCGA 2 cut(s) 47, 320
TasI AATT 2 cut(s) 79, 157
Tru1I TTAA 2 cut(s) 201, 294
Tru9I TTAA 2 cut(s) 201, 294
TscAI CASTG 2 cut(s) 123, 353
TseI GCWGC 2 cut(s) 304, 336
TspDTI ATGAA 3 cut(s) 88, 92, 208
TspRI CASTG 2 cut(s) 123, 353
VpaK11BI GGWCC 1 cut(s) 274
XapI RAATTY 1 cut(s) 79
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.