Rh5BG044800

Reverse transcriptase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000204
Physical Location & Seq
Forward (+)
3549969 .. 3550951
983 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG044800.1

Sequence Viewer

Length: 642 bp
ATGCATAGTACAATGATGTTAGCCTTTACAAATCTTTGGAGGTGTCAAATTCTAGCTGGTAGTACTACAAAACCCAGTTCGTTTTTAGTGCTCAGAAATTATCGCAAAGAACCGATTCCGGTGACATGGGAAAAGCCGAGAATAGGGTGGAAAAAACTGAATTTTGATGGATCTTCTAAGGGAAAATCAGGAAAAGCCACCATTGGAGGTGTGATTAGGAACCACAAGGCTGAATTCTTGCTCGGATTTGCGGAGTCAATTGGAGAAGCCAACAGCACCATCGCCGAGGTCACAGCCCTTCGAAGAGGCCTCGAGTTTGTGTTAGAAAATGAGTGGAGTCACGTATGGCTTGAAGGTGATGCCAAGGCCATTCTTGACGTCATTAGGAAAAGAAAACAGATGAATAAGATCAGATGTAAAGAAGTTCAAAGGCATGTAAGTCATATAAACTCGATTATACCAAAACTAGACGATTGTATTATTAGTCACATATATAGGGAAGGTAACCGAGCTGCTGATAAACTTGCTCAGTTAGGGCATCAACAAGACGAGCCTTGGATTTGGCGGTACATTCCCCCCGATGAAGTTGTTGCCATTGTTCACGAAGATGCAGAGGGAAAGATTGTTATACGTAGAAGATGA
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

213

Amino Acids

24.41

Weight (kDa)

9.59

Isoelectric Point (pI)

34.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 54 - 177 2.7e-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) 381
AciI CCGC 2 cut(s) 251, 565
AclWI GGATC 1 cut(s) 178
AcsI RAATTY 3 cut(s) 48, 160, 233
AcyI GRCGYC 1 cut(s) 378
AfaI GTAC 3 cut(s) 10, 64, 569
AfiI CCNNNNNNNGG 1 cut(s) 143
AgsI TTSAA 2 cut(s) 353, 428
AluBI AGCT 2 cut(s) 56, 512
AluI AGCT 2 cut(s) 56, 512
Alw21I GWGCWC 1 cut(s) 93
AlwI GGATC 1 cut(s) 178
Ama87I CYCGRG 1 cut(s) 311
AoxI GGCC 2 cut(s) 307, 366
ApeKI GCWGC 1 cut(s) 512
ApoI RAATTY 3 cut(s) 48, 160, 233
Asp700I GAANNNNTTC 1 cut(s) 114
AsuHPI GGTGA 2 cut(s) 133, 368
AsuII TTCGAA 1 cut(s) 301
AvaI CYCGRG 1 cut(s) 311
Bbv12I GWGCWC 1 cut(s) 93
BbvI GCAGC 1 cut(s) 499
BccI CCATC 2 cut(s) 161, 287
BfaI CTAG 2 cut(s) 53, 467
BisI GCNGC 1 cut(s) 513
BlsI GCNGC 1 cut(s) 514
BmcAI AGTACT 1 cut(s) 64
BmeT110I CYCGRG 1 cut(s) 311
BmiI GGNNCC 1 cut(s) 221
BmrI ACTGGG 1 cut(s) 69
BmsI GCATC 3 cut(s) 349, 547, 598
BmuI ACTGGG 1 cut(s) 69
Bpu14I TTCGAA 1 cut(s) 301
BsaAI YACGTR 2 cut(s) 343, 632
BsaHI GRCGYC 1 cut(s) 378
BsaJI CCNNGG 3 cut(s) 285, 363, 554
BsaWI WCCGGW 1 cut(s) 118
Bsc4I CCNNNNNNNGG 1 cut(s) 143
Bse1I ACTGG 1 cut(s) 75
BseDI CCNNGG 3 cut(s) 285, 363, 554
BseLI CCNNNNNNNGG 1 cut(s) 143
BseMII CTCAG 2 cut(s) 106, 542
BseNI ACTGG 1 cut(s) 75
BseXI GCAGC 1 cut(s) 499
BshFI GGCC 2 cut(s) 309, 368
BsiHKAI GWGCWC 1 cut(s) 93
BsiHKCI CYCGRG 1 cut(s) 311
BsiSI CCGG 1 cut(s) 119
BslI CCNNNNNNNGG 1 cut(s) 143
BsnI GGCC 2 cut(s) 309, 368
BsoBI CYCGRG 1 cut(s) 311
Bsp119I TTCGAA 1 cut(s) 301
Bsp1286I GDGCHC 1 cut(s) 93
Bsp143I GATC 2 cut(s) 170, 408
BspACI CCGC 2 cut(s) 251, 565
BspANI GGCC 2 cut(s) 309, 368
BspCNI CTCAG 2 cut(s) 105, 541
BspLI GGNNCC 1 cut(s) 221
BspPI GGATC 1 cut(s) 178
BspT104I TTCGAA 1 cut(s) 301
BsrI ACTGG 1 cut(s) 75
BssECI CCNNGG 3 cut(s) 285, 363, 554
BssMI GATC 2 cut(s) 170, 408
BssNI GRCGYC 1 cut(s) 378
BssT1I CCWWGG 2 cut(s) 363, 554
Bst6I CTCTTC 1 cut(s) 298
BstACI GRCGYC 1 cut(s) 378
BstBAI YACGTR 2 cut(s) 343, 632
BstBI TTCGAA 1 cut(s) 301
BstDEI CTNAG 3 cut(s) 92, 177, 528
BstEII GGTNACC 1 cut(s) 503
BstKTI GATC 2 cut(s) 173, 411
BstMBI GATC 2 cut(s) 170, 408
BstNSI RCATGY 1 cut(s) 437
BstPI GGTNACC 1 cut(s) 503
BstSNI TACGTA 1 cut(s) 632
BstV1I GCAGC 1 cut(s) 499
BstX2I RGATCY 1 cut(s) 170
BstYI RGATCY 1 cut(s) 170
BsuRI GGCC 2 cut(s) 309, 368
BtgZI GCGATG 1 cut(s) 265
Csp6I GTAC 3 cut(s) 9, 63, 568
CviAII CATG 2 cut(s) 126, 434
CviQI GTAC 3 cut(s) 9, 63, 568
DdeI CTNAG 3 cut(s) 92, 177, 528
DpnI GATC 2 cut(s) 172, 410
DpnII GATC 2 cut(s) 170, 408
Eam1104I CTCTTC 1 cut(s) 298
EarI CTCTTC 1 cut(s) 298
Eco105I TACGTA 1 cut(s) 632
Eco130I CCWWGG 2 cut(s) 363, 554
Eco147I AGGCCT 1 cut(s) 309
Eco88I CYCGRG 1 cut(s) 311
Eco91I GGTNACC 1 cut(s) 503
EcoO65I GGTNACC 1 cut(s) 503
EcoRI GAATTC 1 cut(s) 233
EcoT14I CCWWGG 2 cut(s) 363, 554
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 2 cut(s) 363, 554
FaeI CATG 2 cut(s) 129, 437
FatI CATG 2 cut(s) 125, 433
Fnu4HI GCNGC 1 cut(s) 513
Fsp4HI GCNGC 1 cut(s) 513
FspBI CTAG 2 cut(s) 53, 467
GluI GCNGC 1 cut(s) 513
HaeIII GGCC 2 cut(s) 309, 368
HapII CCGG 1 cut(s) 119
Hin1I GRCGYC 1 cut(s) 378
Hin1II CATG 2 cut(s) 129, 437
HinfI GANTC 3 cut(s) 115, 254, 337
HpaII CCGG 1 cut(s) 119
HphI GGTGA 2 cut(s) 133, 368
Hpy166II GTNNAC 1 cut(s) 601
Hpy188I TCNGA 3 cut(s) 95, 245, 413
Hpy188III TCNNGA 3 cut(s) 189, 374, 602
Hpy8I GTNNAC 1 cut(s) 601
HpyAV CCTTC 3 cut(s) 308, 347, 494
HpyCH4IV ACGT 3 cut(s) 342, 378, 631
HpyCH4V TGCA 2 cut(s) 4, 611
HpyF3I CTNAG 3 cut(s) 92, 177, 528
HpySE526I ACGT 3 cut(s) 342, 378, 631
Hsp92I GRCGYC 1 cut(s) 378
Hsp92II CATG 2 cut(s) 129, 437
Kzo9I GATC 2 cut(s) 170, 408
LpnPI CCDG 4 cut(s) 42, 88, 132, 174
Lsp1109I GCAGC 1 cut(s) 499
LweI GCATC 3 cut(s) 349, 547, 598
MaeI CTAG 2 cut(s) 53, 467
MaeII ACGT 3 cut(s) 342, 378, 631
MaeIII GTNAC 5 cut(s) 121, 289, 338, 485, 503
MalI GATC 2 cut(s) 172, 410
MboI GATC 2 cut(s) 170, 408
MboII GAAGA 3 cut(s) 165, 315, 617
MfeI CAATTG 1 cut(s) 258
MflI RGATCY 1 cut(s) 170
MhlI GDGCHC 1 cut(s) 93
MluCI AATT 5 cut(s) 48, 97, 160, 233, 258
MlyI GAGTC 2 cut(s) 263, 346
MnlI CCTC 6 cut(s) 33, 200, 280, 299, 320, 607
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 114
MslI CAYNNNNRTG 1 cut(s) 606
MspI CCGG 1 cut(s) 119
MunI CAATTG 1 cut(s) 258
NdeII GATC 2 cut(s) 170, 408
NlaIII CATG 2 cut(s) 129, 437
NlaIV GGNNCC 1 cut(s) 221
NmeAIII GCCGAG 2 cut(s) 162, 310
NmuCI GTSAC 4 cut(s) 121, 289, 338, 485
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 437
NspV TTCGAA 1 cut(s) 301
PaeR7I CTCGAG 1 cut(s) 311
PceI AGGCCT 1 cut(s) 309
PdmI GAANNNNTTC 1 cut(s) 114
PfeI GAWTC 1 cut(s) 115
PkrI GCNGC 1 cut(s) 514
PleI GAGTC 2 cut(s) 262, 345
PpsI GAGTC 2 cut(s) 262, 345
Ppu21I YACGTR 2 cut(s) 343, 632
PspEI GGTNACC 1 cut(s) 503
PspN4I GGNNCC 1 cut(s) 221
PspXI VCTCGAGB 1 cut(s) 311
PsuI RGATCY 1 cut(s) 170
RsaI GTAC 3 cut(s) 10, 64, 569
RsaNI GTAC 3 cut(s) 9, 63, 568
RseI CAYNNNNRTG 1 cut(s) 606
SatI GCNGC 1 cut(s) 513
Sau3AI GATC 2 cut(s) 170, 408
ScaI AGTACT 1 cut(s) 64
SchI GAGTC 2 cut(s) 263, 346
SduI GDGCHC 1 cut(s) 93
SfaNI GCATC 3 cut(s) 349, 547, 598
Sfr274I CTCGAG 1 cut(s) 311
SfuI TTCGAA 1 cut(s) 301
SlaI CTCGAG 1 cut(s) 311
SmiMI CAYNNNNRTG 1 cut(s) 606
SmlI CTYRAG 1 cut(s) 311
SmoI CTYRAG 1 cut(s) 311
SnaBI TACGTA 1 cut(s) 632
Sse9I AATT 5 cut(s) 48, 97, 160, 233, 258
SseBI AGGCCT 1 cut(s) 309
SsiI CCGC 2 cut(s) 251, 565
SspMI CTAG 2 cut(s) 53, 467
StuI AGGCCT 1 cut(s) 309
StyI CCWWGG 2 cut(s) 363, 554
TaiI ACGT 3 cut(s) 345, 381, 634
TaqI TCGA 3 cut(s) 301, 312, 452
TasI AATT 5 cut(s) 48, 97, 160, 233, 258
TatI WGTACW 2 cut(s) 8, 62
TfiI GAWTC 1 cut(s) 115
TseFI GTSAC 4 cut(s) 121, 289, 338, 485
TseI GCWGC 1 cut(s) 512
Tsp45I GTSAC 4 cut(s) 121, 289, 338, 485
TspDTI ATGAA 2 cut(s) 416, 597
XapI RAATTY 3 cut(s) 48, 160, 233
XceI RCATGY 1 cut(s) 437
XhoI CTCGAG 1 cut(s) 311
XmnI GAANNNNTTC 1 cut(s) 114
XspI CTAG 2 cut(s) 53, 467
ZraI GACGTC 1 cut(s) 379
ZrmI AGTACT 1 cut(s) 64
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.