Rh5AG046000

Reverse transcriptase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000204
Physical Location & Seq
Forward (+)
3848759 .. 3849370
612 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG046000.1

Sequence Viewer

Length: 612 bp
ATGTTGGCCTTCGCTAAGATTTCAAGGTTCAAAAAACTAATACAACATCCTGCAGTTTGTCAATTGATCCAGAGTTTGCACAAGGAGTCAATTCCGGTAGCATGGGAGAAACCAAAAATTGGTTGGACTAAGCTGAACTTTGATGGATCATCCAAGGGCAAAGCAGAAAAGGCAAGCATTGGAGGGCTATTTAGAAATCACAAGGCAGAGTTCTTACTTGGATATGCTGAATCCATAGGAAGAGCAAACAGCGTCATTGCAGAACTTGCTGCACTAAGAAGAGGCCTTGAGTTGGTTTTGGAAAATGGTTGGAGTGATGTCTGGCTCGAAGGTGATGCCAAGACATTGCTTCACATCATTGCAAAAAGAAAACAGGTTAGATGTGCAGAAGCACAGAGGCATGTTTGTGAGATAAACTCAATTATTCCAGAACTTAACAACTGTGTTTTGACTCACATTTATAGAGAAGGTAACCGAGCTGCTGATAAATTTGCTAAAATGGGGCATTGGTATCAGAAGCCTCAAATTTGGGAGCACATTCCTCCTCATCAAGTGTTGTCCATCATGCATGAAGATGCTGAGGGCAAGGTTCTTTTCCGTAAAATAAGATGA
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_3

Protein Analysis

203

Amino Acids

23.12

Weight (kDa)

9.56

Isoelectric Point (pI)

34.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 46 - 167 8.7e-29 Reverse transcriptase-like
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: OG0000204)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04625 AT1G27220 AT1G27250 AT1G27870 AT1G47497 AT1G47497 AT1G50160 AT1G52990 AT1G52990 AT1G77815 AT2G02650 AT2G04420 AT2G11205 AT2G13980 AT2G33160 AT2G46460 AT3G09510 AT3G23320 AT3G25270 AT3G32130 AT4G03292 AT4G09775 AT5G26617 AT5G44470 AT5G52115 AT5G65005
fragaria_vesca FvH4_1g25222 FvH4_1g28481 FvH4_3g03751 FvH4_3g24081 FvH4_3g35341 FvH4_5g31961 FvH4_6g20891 FvH4_6g23253 FvH4_6g31361 FvH4_6g53051
malus_domestica MD14G1209300.v1.1
prunus_persica Prupe.1G168800_v2.0.a1 Prupe.1G509200_v2.0.a1 Prupe.2G042000_v2.0.a1 Prupe.2G133200_v2.0.a1 Prupe.2G140300_v2.0.a1 Prupe.3G103800_v2.0.a1 Prupe.4G217300_v2.0.a1 Prupe.4G245300_v2.0.a1 Prupe.5G002600_v2.0.a1 Prupe.5G134600_v2.0.a1 Prupe.6G185900_v2.0.a1 Prupe.6G308300_v2.0.a1 Prupe.7G010700_v2.0.a1 Prupe.8G078100_v2.0.a1 Prupe.8G128400_v2.0.a1
pyrus_communis pycom01g14230 pycom03g12410 pycom08g15160 pycom08g21670 pycom10g25730 pycom10g25740 pycom11g15380 pycom14g10440 pycom14g11510 pycom15g31840 pycom16g02370
rosa_chinensis RchiOBHm_Chr4g0440421 RchiOBHm_Chr5g0005841 RchiOBHm_Chr6g0289481 RchiOBHm_Chr7g0218671
rosa_laevigata RLG00000011653 RLG00000031330 RLG00000031331 RLG00000032722
rosa_multiflora Rmu_co8243061.1_g000001 Rmu_sc0000470.1_g000036 Rmu_sc0000581.1_g000008 Rmu_sc0000666.1_g000017 Rmu_sc0000905.1_g000019 Rmu_sc0000976.1_g000013 Rmu_sc0001066.1_g000001 Rmu_sc0001103.1_g000007 Rmu_sc0001180.1_g000001 Rmu_sc0001643.1_g000034 Rmu_sc0001759.1_g000007 Rmu_sc0001850.1_g000051 Rmu_sc0001910.1_g000008 Rmu_sc0001981.1_g000015 Rmu_sc0001981.1_g000029 Rmu_sc0002209.1_g000015 Rmu_sc0002406.1_g000010 Rmu_sc0003743.1_g000002 Rmu_sc0006416.1_g000026 Rmu_sc0006513.1_g000006 Rmu_sc0006577.1_g000010 Rmu_sc0014652.1_g000001 Rmu_sc0016202.1_g000003
rosa_roxburghii Rroxscaffold_1G00001530 Rroxscaffold_1G00047250 Rroxscaffold_5G00340720 Rroxscaffold_7G00171110 Rroxscaffold_7G00177650
rosa_rugosa Rorug01G0044800 Rorug01G0204500 Rorug01G0224700 Rorug01G0267800 Rorug02G0038400 Rorug02G0107100 Rorug02G0180700 Rorug02G0363800 Rorug02G0374300 Rorug02G0491400 Rorug02G0491400 Rorug03G0104200 Rorug03G0109800 Rorug03G0334200 Rorug04G0007100 Rorug04G0061400.1 Rorug04G0080000 Rorug05G0152200 Rorug05G0188800 Rorug05G0234800 Rorug05G0239900 Rorug05G0284800 Rorug06G0044700 Rorug06G0205700 Rorug06G0266900 Rorug06G0440700 Rorug07G0037400 Rorug07G0192100 Rorug07G0196900 Rorug07G0237500 Rorug07G0336400.1 RorugPtG0002500.1
rosa_samantha Rh1BG014800 Rh1CG017500 Rh2CG332500 Rh3BG371800 Rh5AG046000 Rh5AG046100 Rh5BG044700 Rh5BG044800 Rh5BG248000 Rh5CG053600 Rh5CG053700 Rh5DG044500 Rh5DG044600 Rh6AG052800 Rh6AG315400 Rh6DG021400 Rh7AG409500
rosa_wichuraiana Rw3G007750 Rw3G018750 Rw4G008820 Rw5G004630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 119
AclWI GGATC 2 cut(s) 61, 154
AcsI RAATTY 2 cut(s) 488, 525
AfiI CCNNNNNNNGG 2 cut(s) 119, 292
AgsI TTSAA 2 cut(s) 24, 31
AluBI AGCT 2 cut(s) 133, 479
AluI AGCT 2 cut(s) 133, 479
Alw21I GWGCWC 1 cut(s) 537
AlwI GGATC 2 cut(s) 61, 154
AoxI GGCC 2 cut(s) 6, 283
ApeKI GCWGC 2 cut(s) 269, 479
ApoI RAATTY 2 cut(s) 488, 525
AsuHPI GGTGA 1 cut(s) 344
Bbv12I GWGCWC 1 cut(s) 537
BbvCI CCTCAGC 1 cut(s) 579
BbvI GCAGC 2 cut(s) 256, 466
BccI CCATC 2 cut(s) 137, 569
BcgI CGANNNNNNTGC 2 cut(s) 317, 351
BfmI CTRYAG 1 cut(s) 51
BisI GCNGC 2 cut(s) 270, 480
BlsI GCNGC 2 cut(s) 271, 481
BmsI GCATC 2 cut(s) 325, 565
BplI GAGNNNNNCTC 2 cut(s) 401, 433
Bpu10I CCTNAGC 1 cut(s) 579
BpuEI CTTGAG 1 cut(s) 308
BsaJI CCNNGG 1 cut(s) 153
BsaWI WCCGGW 1 cut(s) 94
Bsc4I CCNNNNNNNGG 2 cut(s) 119, 292
Bse3DI GCAATG 3 cut(s) 255, 344, 357
BseDI CCNNGG 1 cut(s) 153
BseGI GGATG 2 cut(s) 46, 149
BseLI CCNNNNNNNGG 2 cut(s) 119, 292
BseMI GCAATG 3 cut(s) 255, 344, 357
BseMII CTCAG 1 cut(s) 570
BseRI GAGGAG 1 cut(s) 534
BseXI GCAGC 2 cut(s) 256, 466
BsgI GTGCAG 2 cut(s) 255, 405
BshFI GGCC 2 cut(s) 8, 285
BsiHKAI GWGCWC 1 cut(s) 537
BsiSI CCGG 1 cut(s) 95
BslI CCNNNNNNNGG 2 cut(s) 119, 292
BsnI GGCC 2 cut(s) 8, 285
Bsp1286I GDGCHC 1 cut(s) 537
Bsp143I GATC 2 cut(s) 66, 146
BspANI GGCC 2 cut(s) 8, 285
BspCNI CTCAG 1 cut(s) 571
BspMAI CTGCAG 1 cut(s) 55
BspPI GGATC 2 cut(s) 61, 154
BspQI GCTCTTC 1 cut(s) 235
BsrDI GCAATG 3 cut(s) 255, 344, 357
BssECI CCNNGG 1 cut(s) 153
BssMI GATC 2 cut(s) 66, 146
BssT1I CCWWGG 1 cut(s) 153
Bst4CI ACNGT 1 cut(s) 443
Bst6I CTCTTC 2 cut(s) 235, 274
BstAPI GCANNNNNTGC 1 cut(s) 266
BstC8I GCNNGC 1 cut(s) 175
BstDEI CTNAG 4 cut(s) 15, 129, 275, 579
BstEII GGTNACC 1 cut(s) 470
BstF5I GGATG 2 cut(s) 46, 149
BstKTI GATC 2 cut(s) 69, 149
BstMBI GATC 2 cut(s) 66, 146
BstMWI GCNNNNNNNGC 2 cut(s) 170, 266
BstNSI RCATGY 1 cut(s) 404
BstPI GGTNACC 1 cut(s) 470
BstSFI CTRYAG 1 cut(s) 51
BstV1I GCAGC 2 cut(s) 256, 466
BsuRI GGCC 2 cut(s) 8, 285
BtsCI GGATG 2 cut(s) 46, 149
Cac8I GCNNGC 1 cut(s) 175
CseI GACGC 1 cut(s) 241
CviAII CATG 4 cut(s) 102, 401, 565, 569
CviJI RGCY 7 cut(s) 8, 133, 187, 285, 325, 479, 520
CviKI_1 RGCY 7 cut(s) 8, 133, 187, 285, 325, 479, 520
DdeI CTNAG 4 cut(s) 15, 129, 275, 579
DpnI GATC 2 cut(s) 68, 148
DpnII GATC 2 cut(s) 66, 146
Eam1104I CTCTTC 2 cut(s) 235, 274
EarI CTCTTC 2 cut(s) 235, 274
Eco130I CCWWGG 1 cut(s) 153
Eco147I AGGCCT 1 cut(s) 285
Eco91I GGTNACC 1 cut(s) 470
EcoO65I GGTNACC 1 cut(s) 470
EcoT14I CCWWGG 1 cut(s) 153
EcoT22I ATGCAT 1 cut(s) 570
ErhI CCWWGG 1 cut(s) 153
FaeI CATG 4 cut(s) 105, 404, 568, 572
FaiI YATR 7 cut(s) 103, 225, 236, 402, 462, 566, 570
FalI AAGNNNNNCTT 2 cut(s) 122, 154
FatI CATG 4 cut(s) 101, 400, 564, 568
Fnu4HI GCNGC 2 cut(s) 270, 480
FokI GGATG 2 cut(s) 33, 136
Fsp4HI GCNGC 2 cut(s) 270, 480
GluI GCNGC 2 cut(s) 270, 480
HaeIII GGCC 2 cut(s) 8, 285
HapII CCGG 1 cut(s) 95
HgaI GACGC 1 cut(s) 241
Hin1II CATG 4 cut(s) 105, 404, 568, 572
HinfI GANTC 3 cut(s) 86, 230, 451
HpaII CCGG 1 cut(s) 95
HphI GGTGA 1 cut(s) 344
Hpy188I TCNGA 1 cut(s) 516
Hpy188III TCNNGA 2 cut(s) 70, 428
HpyAV CCTTC 3 cut(s) 19, 323, 461
HpyCH4III ACNGT 1 cut(s) 443
HpyCH4V TGCA 7 cut(s) 53, 79, 260, 272, 362, 386, 568
HpyF10VI GCNNNNNNNGC 2 cut(s) 170, 266
HpyF3I CTNAG 4 cut(s) 15, 129, 275, 579
Hsp92II CATG 4 cut(s) 105, 404, 568, 572
Kzo9I GATC 2 cut(s) 66, 146
LguI GCTCTTC 1 cut(s) 235
LmnI GCTCC 1 cut(s) 532
LpnPI CCDG 6 cut(s) 63, 83, 108, 307, 359, 441
Lsp1109I GCAGC 2 cut(s) 256, 466
LweI GCATC 2 cut(s) 325, 565
MaeIII GTNAC 1 cut(s) 470
MalI GATC 2 cut(s) 68, 148
MboI GATC 2 cut(s) 66, 146
MboII GAAGA 3 cut(s) 252, 291, 584
MfeI CAATTG 1 cut(s) 62
MhlI GDGCHC 1 cut(s) 537
MluCI AATT 6 cut(s) 62, 90, 117, 420, 488, 525
MlyI GAGTC 2 cut(s) 95, 445
MmeI TCCRAC 2 cut(s) 104, 290
MnlI CCTC 7 cut(s) 176, 275, 390, 531, 552, 555, 574
Mph1103I ATGCAT 1 cut(s) 570
MseI TTAA 1 cut(s) 435
MslI CAYNNNNRTG 2 cut(s) 405, 573
MspI CCGG 1 cut(s) 95
MunI CAATTG 1 cut(s) 62
MwoI GCNNNNNNNGC 2 cut(s) 170, 266
NdeII GATC 2 cut(s) 66, 146
NlaIII CATG 4 cut(s) 105, 404, 568, 572
NsiI ATGCAT 1 cut(s) 570
NspI RCATGY 1 cut(s) 404
PceI AGGCCT 1 cut(s) 285
PciSI GCTCTTC 1 cut(s) 235
PfeI GAWTC 1 cut(s) 230
PflMI CCANNNNNTGG 1 cut(s) 119
PkrI GCNGC 2 cut(s) 271, 481
PleI GAGTC 2 cut(s) 94, 445
PpsI GAGTC 2 cut(s) 94, 445
PspEI GGTNACC 1 cut(s) 470
PstI CTGCAG 1 cut(s) 55
RseI CAYNNNNRTG 2 cut(s) 405, 573
SapI GCTCTTC 1 cut(s) 235
SaqAI TTAA 1 cut(s) 435
SatI GCNGC 2 cut(s) 270, 480
Sau3AI GATC 2 cut(s) 66, 146
SchI GAGTC 2 cut(s) 95, 445
SduI GDGCHC 1 cut(s) 537
SetI ASST 7 cut(s) 29, 135, 334, 378, 472, 481, 591
SfaNI GCATC 2 cut(s) 325, 565
SfcI CTRYAG 1 cut(s) 51
SmiMI CAYNNNNRTG 2 cut(s) 405, 573
SmlI CTYRAG 1 cut(s) 287
SmoI CTYRAG 1 cut(s) 287
Sse9I AATT 6 cut(s) 62, 90, 117, 420, 488, 525
SseBI AGGCCT 1 cut(s) 285
StuI AGGCCT 1 cut(s) 285
StyI CCWWGG 1 cut(s) 153
TaaI ACNGT 1 cut(s) 443
TaqI TCGA 1 cut(s) 327
TasI AATT 6 cut(s) 62, 90, 117, 420, 488, 525
TfiI GAWTC 1 cut(s) 230
Tru1I TTAA 1 cut(s) 435
Tru9I TTAA 1 cut(s) 435
TseI GCWGC 2 cut(s) 269, 479
TspDTI ATGAA 1 cut(s) 585
TspGWI ACGGA 1 cut(s) 587
Van91I CCANNNNNTGG 1 cut(s) 119
XapI RAATTY 2 cut(s) 488, 525
XceI RCATGY 1 cut(s) 404
XcmI CCANNNNNNNNNTGG 1 cut(s) 120
Zsp2I ATGCAT 1 cut(s) 570
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.