Rw5G004630

Reverse transcriptase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000204
Physical Location & Seq
Forward (+)
4805486 .. 4806112
627 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G004630.1

Sequence Viewer

Length: 627 bp
ATGTTAGCCTTTACAAATCTTTGGAGGTGTCAAATCCTAGCTGGTAGTACTACAAAACCCAGTTCGTTTTTAGTGCTCAGAAATTATCGAAAAGAACCGATTCCGGTGACATGGGAAAAGCCGAGAATAGGGTGGAAAAAACTGAATTTTGATGGATCTTCGAAGGGAAAATCAGGAAAAGCCACCATTGGAGGTGTGATTAGGAACCACAAGGCTGAATTCTTGCTCGGATTTGCGGAGTCAATTGGAGAAGCCAACAGCACCATCGCCGAGGTCACAGCCCTTCGAAGAGGCCTCGAGTTTGTGTTAGAAAATGAGTGGAGTCACGTATGGCTTGAAGGTGATGCCAAGGCCATTCTTGACGTCATTAGGAAAAGAAAACAGATGAATAAGATCAGATGTAAAGAAGTTCAAAGGCATGTAAGTCATATAAACTCGATTATACCAAAACTAGACAATTGTATTATTAGTCACGTATATAGGGAAGGTAACCGAGCTGCTGATAAACTTGCTCAGTTAGGGCATCAACAAGACGAGCCTCGGATTTGGCGGTACATTCCCCCCGATGAAGTTGTTGCCATTGTTCACGAAGATGCAGAGGGAAAGATTGTTATACGTAGAAGATGA
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

208

Amino Acids

23.78

Weight (kDa)

9.76

Isoelectric Point (pI)

29.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 49 - 172 1.3e-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) 366
AciI CCGC 2 cut(s) 236, 550
AclWI GGATC 1 cut(s) 163
AcsI RAATTY 2 cut(s) 145, 218
AcyI GRCGYC 1 cut(s) 363
AfaI GTAC 2 cut(s) 49, 554
AfiI CCNNNNNNNGG 1 cut(s) 128
AgsI TTSAA 2 cut(s) 338, 413
AluBI AGCT 2 cut(s) 41, 497
AluI AGCT 2 cut(s) 41, 497
Alw21I GWGCWC 1 cut(s) 78
AlwI GGATC 1 cut(s) 163
Ama87I CYCGRG 1 cut(s) 296
AoxI GGCC 2 cut(s) 292, 351
ApeKI GCWGC 1 cut(s) 497
ApoI RAATTY 2 cut(s) 145, 218
Asp700I GAANNNNTTC 1 cut(s) 99
AsuHPI GGTGA 2 cut(s) 118, 353
AsuII TTCGAA 2 cut(s) 161, 286
AvaI CYCGRG 1 cut(s) 296
Bbv12I GWGCWC 1 cut(s) 78
BbvI GCAGC 1 cut(s) 484
BccI CCATC 2 cut(s) 146, 272
BfaI CTAG 2 cut(s) 38, 452
BisI GCNGC 1 cut(s) 498
BlsI GCNGC 1 cut(s) 499
BmcAI AGTACT 1 cut(s) 49
BmeT110I CYCGRG 1 cut(s) 296
BmiI GGNNCC 1 cut(s) 206
BmrI ACTGGG 1 cut(s) 54
BmsI GCATC 3 cut(s) 334, 532, 583
BmuI ACTGGG 1 cut(s) 54
Bpu14I TTCGAA 2 cut(s) 161, 286
BsaAI YACGTR 3 cut(s) 328, 475, 617
BsaHI GRCGYC 1 cut(s) 363
BsaJI CCNNGG 3 cut(s) 270, 348, 539
BsaWI WCCGGW 1 cut(s) 103
Bsc4I CCNNNNNNNGG 1 cut(s) 128
Bse1I ACTGG 1 cut(s) 60
BseDI CCNNGG 3 cut(s) 270, 348, 539
BseLI CCNNNNNNNGG 1 cut(s) 128
BseMII CTCAG 2 cut(s) 91, 527
BseNI ACTGG 1 cut(s) 60
BseXI GCAGC 1 cut(s) 484
BshFI GGCC 2 cut(s) 294, 353
BsiHKAI GWGCWC 1 cut(s) 78
BsiHKCI CYCGRG 1 cut(s) 296
BsiSI CCGG 1 cut(s) 104
BslI CCNNNNNNNGG 1 cut(s) 128
BsnI GGCC 2 cut(s) 294, 353
BsoBI CYCGRG 1 cut(s) 296
Bsp119I TTCGAA 2 cut(s) 161, 286
Bsp1286I GDGCHC 1 cut(s) 78
Bsp143I GATC 2 cut(s) 155, 393
BspACI CCGC 2 cut(s) 236, 550
BspANI GGCC 2 cut(s) 294, 353
BspCNI CTCAG 2 cut(s) 90, 526
BspLI GGNNCC 1 cut(s) 206
BspPI GGATC 1 cut(s) 163
BspT104I TTCGAA 2 cut(s) 161, 286
BsrI ACTGG 1 cut(s) 60
BssECI CCNNGG 3 cut(s) 270, 348, 539
BssMI GATC 2 cut(s) 155, 393
BssNI GRCGYC 1 cut(s) 363
BssT1I CCWWGG 1 cut(s) 348
Bst6I CTCTTC 1 cut(s) 283
BstACI GRCGYC 1 cut(s) 363
BstBAI YACGTR 3 cut(s) 328, 475, 617
BstBI TTCGAA 2 cut(s) 161, 286
BstDEI CTNAG 2 cut(s) 77, 513
BstEII GGTNACC 1 cut(s) 488
BstKTI GATC 2 cut(s) 158, 396
BstMBI GATC 2 cut(s) 155, 393
BstNSI RCATGY 1 cut(s) 422
BstPI GGTNACC 1 cut(s) 488
BstSNI TACGTA 1 cut(s) 617
BstV1I GCAGC 1 cut(s) 484
BstX2I RGATCY 1 cut(s) 155
BstYI RGATCY 1 cut(s) 155
BsuRI GGCC 2 cut(s) 294, 353
BtgZI GCGATG 1 cut(s) 250
Csp6I GTAC 2 cut(s) 48, 553
CviAII CATG 2 cut(s) 111, 419
CviQI GTAC 2 cut(s) 48, 553
DdeI CTNAG 2 cut(s) 77, 513
DpnI GATC 2 cut(s) 157, 395
DpnII GATC 2 cut(s) 155, 393
Eam1104I CTCTTC 1 cut(s) 283
EarI CTCTTC 1 cut(s) 283
Eco105I TACGTA 1 cut(s) 617
Eco130I CCWWGG 1 cut(s) 348
Eco147I AGGCCT 1 cut(s) 294
Eco88I CYCGRG 1 cut(s) 296
Eco91I GGTNACC 1 cut(s) 488
EcoO65I GGTNACC 1 cut(s) 488
EcoRI GAATTC 1 cut(s) 218
EcoT14I CCWWGG 1 cut(s) 348
ErhI CCWWGG 1 cut(s) 348
FaeI CATG 2 cut(s) 114, 422
FaiI YATR 9 cut(s) 112, 331, 420, 429, 431, 443, 478, 480, 614
FatI CATG 2 cut(s) 110, 418
Fnu4HI GCNGC 1 cut(s) 498
Fsp4HI GCNGC 1 cut(s) 498
FspBI CTAG 2 cut(s) 38, 452
GluI GCNGC 1 cut(s) 498
HaeIII GGCC 2 cut(s) 294, 353
HapII CCGG 1 cut(s) 104
Hin1I GRCGYC 1 cut(s) 363
Hin1II CATG 2 cut(s) 114, 422
HinfI GANTC 3 cut(s) 100, 239, 322
HpaII CCGG 1 cut(s) 104
HphI GGTGA 2 cut(s) 118, 353
Hpy166II GTNNAC 1 cut(s) 586
Hpy188I TCNGA 4 cut(s) 80, 230, 398, 543
Hpy188III TCNNGA 3 cut(s) 174, 359, 587
Hpy8I GTNNAC 1 cut(s) 586
HpyAV CCTTC 4 cut(s) 157, 293, 332, 479
HpyCH4IV ACGT 4 cut(s) 327, 363, 474, 616
HpyCH4V TGCA 1 cut(s) 596
HpyF3I CTNAG 2 cut(s) 77, 513
HpySE526I ACGT 4 cut(s) 327, 363, 474, 616
Hsp92I GRCGYC 1 cut(s) 363
Hsp92II CATG 2 cut(s) 114, 422
Kzo9I GATC 2 cut(s) 155, 393
LpnPI CCDG 4 cut(s) 27, 73, 117, 159
Lsp1109I GCAGC 1 cut(s) 484
LweI GCATC 3 cut(s) 334, 532, 583
MaeI CTAG 2 cut(s) 38, 452
MaeII ACGT 4 cut(s) 327, 363, 474, 616
MaeIII GTNAC 5 cut(s) 106, 274, 323, 470, 488
MalI GATC 2 cut(s) 157, 395
MboI GATC 2 cut(s) 155, 393
MboII GAAGA 3 cut(s) 150, 300, 602
MfeI CAATTG 2 cut(s) 243, 457
MflI RGATCY 1 cut(s) 155
MhlI GDGCHC 1 cut(s) 78
MluCI AATT 5 cut(s) 82, 145, 218, 243, 457
MlyI GAGTC 2 cut(s) 248, 331
MnlI CCTC 7 cut(s) 18, 185, 265, 284, 305, 549, 592
MroXI GAANNNNTTC 1 cut(s) 99
MslI CAYNNNNRTG 1 cut(s) 591
MspI CCGG 1 cut(s) 104
MunI CAATTG 2 cut(s) 243, 457
NdeII GATC 2 cut(s) 155, 393
NlaIII CATG 2 cut(s) 114, 422
NlaIV GGNNCC 1 cut(s) 206
NmeAIII GCCGAG 2 cut(s) 147, 295
NmuCI GTSAC 4 cut(s) 106, 274, 323, 470
NspI RCATGY 1 cut(s) 422
NspV TTCGAA 2 cut(s) 161, 286
PaeR7I CTCGAG 1 cut(s) 296
PceI AGGCCT 1 cut(s) 294
PdmI GAANNNNTTC 1 cut(s) 99
PfeI GAWTC 1 cut(s) 100
PkrI GCNGC 1 cut(s) 499
PleI GAGTC 2 cut(s) 247, 330
PpsI GAGTC 2 cut(s) 247, 330
Ppu21I YACGTR 3 cut(s) 328, 475, 617
PspEI GGTNACC 1 cut(s) 488
PspN4I GGNNCC 1 cut(s) 206
PspXI VCTCGAGB 1 cut(s) 296
PsuI RGATCY 1 cut(s) 155
RsaI GTAC 2 cut(s) 49, 554
RsaNI GTAC 2 cut(s) 48, 553
RseI CAYNNNNRTG 1 cut(s) 591
SatI GCNGC 1 cut(s) 498
Sau3AI GATC 2 cut(s) 155, 393
ScaI AGTACT 1 cut(s) 49
SchI GAGTC 2 cut(s) 248, 331
SduI GDGCHC 1 cut(s) 78
SfaNI GCATC 3 cut(s) 334, 532, 583
Sfr274I CTCGAG 1 cut(s) 296
SfuI TTCGAA 2 cut(s) 161, 286
SlaI CTCGAG 1 cut(s) 296
SmiMI CAYNNNNRTG 1 cut(s) 591
SmlI CTYRAG 1 cut(s) 296
SmoI CTYRAG 1 cut(s) 296
SnaBI TACGTA 1 cut(s) 617
Sse9I AATT 5 cut(s) 82, 145, 218, 243, 457
SseBI AGGCCT 1 cut(s) 294
SsiI CCGC 2 cut(s) 236, 550
SspMI CTAG 2 cut(s) 38, 452
StuI AGGCCT 1 cut(s) 294
StyI CCWWGG 1 cut(s) 348
TaiI ACGT 4 cut(s) 330, 366, 477, 619
TaqI TCGA 5 cut(s) 88, 161, 286, 297, 437
TasI AATT 5 cut(s) 82, 145, 218, 243, 457
TatI WGTACW 1 cut(s) 47
TfiI GAWTC 1 cut(s) 100
TseFI GTSAC 4 cut(s) 106, 274, 323, 470
TseI GCWGC 1 cut(s) 497
Tsp45I GTSAC 4 cut(s) 106, 274, 323, 470
TspDTI ATGAA 2 cut(s) 401, 582
XapI RAATTY 2 cut(s) 145, 218
XceI RCATGY 1 cut(s) 422
XhoI CTCGAG 1 cut(s) 296
XmnI GAANNNNTTC 1 cut(s) 99
XspI CTAG 2 cut(s) 38, 452
ZraI GACGTC 1 cut(s) 364
ZrmI AGTACT 1 cut(s) 49
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.