Rh5CG053700

Reverse transcriptase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000204
Physical Location & Seq
Forward (+)
3853654 .. 3854652
999 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG053700.1

Sequence Viewer

Length: 654 bp
ATGCATAGTACATTATTAGTCTTAATGATGTTAGCCTTTACAAATCTTTGGAGGTGTCAAATCCTAGCTGGTAGTACTACAAAACCCAGTTCGTTTTTAGTGCTCAGAAATTATCGAAAAGAACCGATTCCGGTGACATGGGAAAAGCCGAGAATAGGGTGGAAAAAACTGAATTTTGATGGATCTTCGAAGGGAAAATCAGGAAAAGCCACCATTGGAGGTGTGATTAGGAACCACAAGGCTGAATTCTTGCTCGGATTTGCGGAGTCAATTGGAGAAGCCAACAGCACCATCGCCGAGGTCACAGCCCTTCGAAGAGGCCTCGAGTTTGTGTTAGAAAATGAGTGGAGTCACGTATGGCTTGAAGGTGATGCCAAGGCCATTCTTGACGTCATTAGGAAAAGAAAACAGATGAATAAGATCAGATGTAAAGAAGTTCAAAGGCATGTAAGTCATATAAACTCGATTATACCAAAACTAGACAATTGTATTATTAGTCACGTATATAGGGAAGGTAACCGAGCTGCTGATAAACTTGCTCAGTTAGGGCATCAACAAGACGAGCCTCGGATTTGGCGGTACATTCCCCCCGATGAAGTTGTTGCCATTGTTCACGAAGATGCAGAGGGAAAGATTGTTATACGTAGAAGATGA
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

217

Amino Acids

24.81

Weight (kDa)

9.76

Isoelectric Point (pI)

31.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 58 - 181 1.5e-30 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)
AatII GACGTC 1 cut(s) 393
AciI CCGC 2 cut(s) 263, 577
AclWI GGATC 1 cut(s) 190
AcsI RAATTY 2 cut(s) 172, 245
AcyI GRCGYC 1 cut(s) 390
AfaI GTAC 3 cut(s) 10, 76, 581
AfiI CCNNNNNNNGG 1 cut(s) 155
AgsI TTSAA 2 cut(s) 365, 440
AluBI AGCT 2 cut(s) 68, 524
AluI AGCT 2 cut(s) 68, 524
Alw21I GWGCWC 1 cut(s) 105
AlwI GGATC 1 cut(s) 190
Ama87I CYCGRG 1 cut(s) 323
AoxI GGCC 2 cut(s) 319, 378
ApeKI GCWGC 1 cut(s) 524
ApoI RAATTY 2 cut(s) 172, 245
Asp700I GAANNNNTTC 1 cut(s) 126
AsuHPI GGTGA 2 cut(s) 145, 380
AsuII TTCGAA 2 cut(s) 188, 313
AvaI CYCGRG 1 cut(s) 323
Bbv12I GWGCWC 1 cut(s) 105
BbvI GCAGC 1 cut(s) 511
BccI CCATC 2 cut(s) 173, 299
BfaI CTAG 2 cut(s) 65, 479
BisI GCNGC 1 cut(s) 525
BlsI GCNGC 1 cut(s) 526
BmcAI AGTACT 1 cut(s) 76
BmeT110I CYCGRG 1 cut(s) 323
BmiI GGNNCC 1 cut(s) 233
BmrI ACTGGG 1 cut(s) 81
BmsI GCATC 3 cut(s) 361, 559, 610
BmuI ACTGGG 1 cut(s) 81
Bpu14I TTCGAA 2 cut(s) 188, 313
BsaAI YACGTR 3 cut(s) 355, 502, 644
BsaHI GRCGYC 1 cut(s) 390
BsaJI CCNNGG 3 cut(s) 297, 375, 566
BsaWI WCCGGW 1 cut(s) 130
Bsc4I CCNNNNNNNGG 1 cut(s) 155
Bse1I ACTGG 1 cut(s) 87
BseDI CCNNGG 3 cut(s) 297, 375, 566
BseLI CCNNNNNNNGG 1 cut(s) 155
BseMII CTCAG 2 cut(s) 118, 554
BseNI ACTGG 1 cut(s) 87
BseXI GCAGC 1 cut(s) 511
BshFI GGCC 2 cut(s) 321, 380
BsiHKAI GWGCWC 1 cut(s) 105
BsiHKCI CYCGRG 1 cut(s) 323
BsiSI CCGG 1 cut(s) 131
BslI CCNNNNNNNGG 1 cut(s) 155
BsnI GGCC 2 cut(s) 321, 380
BsoBI CYCGRG 1 cut(s) 323
Bsp119I TTCGAA 2 cut(s) 188, 313
Bsp1286I GDGCHC 1 cut(s) 105
Bsp143I GATC 2 cut(s) 182, 420
BspACI CCGC 2 cut(s) 263, 577
BspANI GGCC 2 cut(s) 321, 380
BspCNI CTCAG 2 cut(s) 117, 553
BspLI GGNNCC 1 cut(s) 233
BspPI GGATC 1 cut(s) 190
BspT104I TTCGAA 2 cut(s) 188, 313
BsrI ACTGG 1 cut(s) 87
BssECI CCNNGG 3 cut(s) 297, 375, 566
BssMI GATC 2 cut(s) 182, 420
BssNI GRCGYC 1 cut(s) 390
BssT1I CCWWGG 1 cut(s) 375
Bst6I CTCTTC 1 cut(s) 310
BstACI GRCGYC 1 cut(s) 390
BstBAI YACGTR 3 cut(s) 355, 502, 644
BstBI TTCGAA 2 cut(s) 188, 313
BstDEI CTNAG 2 cut(s) 104, 540
BstEII GGTNACC 1 cut(s) 515
BstKTI GATC 2 cut(s) 185, 423
BstMBI GATC 2 cut(s) 182, 420
BstNSI RCATGY 1 cut(s) 449
BstPI GGTNACC 1 cut(s) 515
BstSNI TACGTA 1 cut(s) 644
BstV1I GCAGC 1 cut(s) 511
BstX2I RGATCY 1 cut(s) 182
BstYI RGATCY 1 cut(s) 182
BsuRI GGCC 2 cut(s) 321, 380
BtgZI GCGATG 1 cut(s) 277
Csp6I GTAC 3 cut(s) 9, 75, 580
CviAII CATG 2 cut(s) 138, 446
CviQI GTAC 3 cut(s) 9, 75, 580
DdeI CTNAG 2 cut(s) 104, 540
DpnI GATC 2 cut(s) 184, 422
DpnII GATC 2 cut(s) 182, 420
Eam1104I CTCTTC 1 cut(s) 310
EarI CTCTTC 1 cut(s) 310
Eco105I TACGTA 1 cut(s) 644
Eco130I CCWWGG 1 cut(s) 375
Eco147I AGGCCT 1 cut(s) 321
Eco88I CYCGRG 1 cut(s) 323
Eco91I GGTNACC 1 cut(s) 515
EcoO65I GGTNACC 1 cut(s) 515
EcoRI GAATTC 1 cut(s) 245
EcoT14I CCWWGG 1 cut(s) 375
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 375
FaeI CATG 2 cut(s) 141, 449
FatI CATG 2 cut(s) 137, 445
Fnu4HI GCNGC 1 cut(s) 525
Fsp4HI GCNGC 1 cut(s) 525
FspBI CTAG 2 cut(s) 65, 479
GluI GCNGC 1 cut(s) 525
HaeIII GGCC 2 cut(s) 321, 380
HapII CCGG 1 cut(s) 131
Hin1I GRCGYC 1 cut(s) 390
Hin1II CATG 2 cut(s) 141, 449
HinfI GANTC 3 cut(s) 127, 266, 349
HpaII CCGG 1 cut(s) 131
HphI GGTGA 2 cut(s) 145, 380
Hpy166II GTNNAC 1 cut(s) 613
Hpy188I TCNGA 4 cut(s) 107, 257, 425, 570
Hpy188III TCNNGA 3 cut(s) 201, 386, 614
Hpy8I GTNNAC 1 cut(s) 613
HpyAV CCTTC 4 cut(s) 184, 320, 359, 506
HpyCH4IV ACGT 4 cut(s) 354, 390, 501, 643
HpyCH4V TGCA 2 cut(s) 4, 623
HpyF3I CTNAG 2 cut(s) 104, 540
HpySE526I ACGT 4 cut(s) 354, 390, 501, 643
Hsp92I GRCGYC 1 cut(s) 390
Hsp92II CATG 2 cut(s) 141, 449
Kzo9I GATC 2 cut(s) 182, 420
LpnPI CCDG 4 cut(s) 54, 100, 144, 186
Lsp1109I GCAGC 1 cut(s) 511
LweI GCATC 3 cut(s) 361, 559, 610
MaeI CTAG 2 cut(s) 65, 479
MaeII ACGT 4 cut(s) 354, 390, 501, 643
MaeIII GTNAC 5 cut(s) 133, 301, 350, 497, 515
MalI GATC 2 cut(s) 184, 422
MboI GATC 2 cut(s) 182, 420
MboII GAAGA 3 cut(s) 177, 327, 629
MfeI CAATTG 2 cut(s) 270, 484
MflI RGATCY 1 cut(s) 182
MhlI GDGCHC 1 cut(s) 105
MluCI AATT 5 cut(s) 109, 172, 245, 270, 484
MlyI GAGTC 2 cut(s) 275, 358
MnlI CCTC 7 cut(s) 45, 212, 292, 311, 332, 576, 619
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 126
MseI TTAA 1 cut(s) 23
MslI CAYNNNNRTG 1 cut(s) 618
MspI CCGG 1 cut(s) 131
MunI CAATTG 2 cut(s) 270, 484
NdeII GATC 2 cut(s) 182, 420
NlaIII CATG 2 cut(s) 141, 449
NlaIV GGNNCC 1 cut(s) 233
NmeAIII GCCGAG 2 cut(s) 174, 322
NmuCI GTSAC 4 cut(s) 133, 301, 350, 497
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 449
NspV TTCGAA 2 cut(s) 188, 313
PaeR7I CTCGAG 1 cut(s) 323
PceI AGGCCT 1 cut(s) 321
PdmI GAANNNNTTC 1 cut(s) 126
PfeI GAWTC 1 cut(s) 127
PkrI GCNGC 1 cut(s) 526
PleI GAGTC 2 cut(s) 274, 357
PpsI GAGTC 2 cut(s) 274, 357
Ppu21I YACGTR 3 cut(s) 355, 502, 644
PspEI GGTNACC 1 cut(s) 515
PspN4I GGNNCC 1 cut(s) 233
PspXI VCTCGAGB 1 cut(s) 323
PsuI RGATCY 1 cut(s) 182
RsaI GTAC 3 cut(s) 10, 76, 581
RsaNI GTAC 3 cut(s) 9, 75, 580
RseI CAYNNNNRTG 1 cut(s) 618
SaqAI TTAA 1 cut(s) 23
SatI GCNGC 1 cut(s) 525
Sau3AI GATC 2 cut(s) 182, 420
ScaI AGTACT 1 cut(s) 76
SchI GAGTC 2 cut(s) 275, 358
SduI GDGCHC 1 cut(s) 105
SfaNI GCATC 3 cut(s) 361, 559, 610
Sfr274I CTCGAG 1 cut(s) 323
SfuI TTCGAA 2 cut(s) 188, 313
SlaI CTCGAG 1 cut(s) 323
SmiMI CAYNNNNRTG 1 cut(s) 618
SmlI CTYRAG 1 cut(s) 323
SmoI CTYRAG 1 cut(s) 323
SnaBI TACGTA 1 cut(s) 644
Sse9I AATT 5 cut(s) 109, 172, 245, 270, 484
SseBI AGGCCT 1 cut(s) 321
SsiI CCGC 2 cut(s) 263, 577
SspMI CTAG 2 cut(s) 65, 479
StuI AGGCCT 1 cut(s) 321
StyI CCWWGG 1 cut(s) 375
TaiI ACGT 4 cut(s) 357, 393, 504, 646
TaqI TCGA 5 cut(s) 115, 188, 313, 324, 464
TasI AATT 5 cut(s) 109, 172, 245, 270, 484
TatI WGTACW 2 cut(s) 8, 74
TfiI GAWTC 1 cut(s) 127
Tru1I TTAA 1 cut(s) 23
Tru9I TTAA 1 cut(s) 23
TseFI GTSAC 4 cut(s) 133, 301, 350, 497
TseI GCWGC 1 cut(s) 524
Tsp45I GTSAC 4 cut(s) 133, 301, 350, 497
TspDTI ATGAA 2 cut(s) 428, 609
XapI RAATTY 2 cut(s) 172, 245
XceI RCATGY 1 cut(s) 449
XhoI CTCGAG 1 cut(s) 323
XmnI GAANNNNTTC 1 cut(s) 126
XspI CTAG 2 cut(s) 65, 479
ZraI GACGTC 1 cut(s) 391
ZrmI AGTACT 1 cut(s) 76
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.