RchiOBHm_Chr3g0451301

Reverse transcriptase (RNA-dependent DNA polymerase)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000154
Physical Location & Seq
Reverse (-)
2428429 .. 2429485
1057 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ41856

Sequence Viewer

Length: 999 bp
ATGTTTGCTGTCTTTAAAAAATCCATGATGTCTGAGTTTGACATGACGGATCTTGGGTTGATGCATTTTTTTCTCGGGATTGAAGTCAAGCAATCATCTGGTGGAATCTTTGTTACACAAAGAAAGTATGCTCAAGAAGTGTTGGAGAGGTTTCAGATGAAAGACTGCAACTCAGTTACTACCCCAACAGATCCAACTATAAAGCTCAAGAAGGATTCAGAAGGAAAGAAGATTGATGCTACTCTGTTTAAACAAATTGTCGGGAGTTTGATGTACTTAACGACGACCAGACCGGACATTATGTATGCAGTGAGTCTCATAAGCAGGTACATGGAAAGTCCAACTGAACTGCATCTTTTTGCTGCTAAAAGGATTTTTCGGTACTTGAAGGGTACCATTGATTTTGGTATGTGGTACAAAAGAGAGACTGAGGCAGGAATGTCTGTTGGTTTATATGGATTCACTGACAGCGATTATGCTGGTGACGTTGATGATAGGAAGAGCACTTCTGGGAATGTTTTCTTGTTGGGGTCAGGAGTTGTCTCATGGGGTAGTAAGAAACAACCAATTGTGACCTTGTCTACAACAGAAGCAGAATTTGTAGCAGCAACTTCTGGTGCGTGCCAAGCCATATGGCTGAGAAAATTACTTGGGGTGTTAGGTAACAATCAGCAAGGTCCAACTGATATCTATTGTGATAATGTTTCTGCCATCAAACTTTCAAAAAATCCAGTTTTGCATGGGAGGAGCAAACACATAGATGTGAGGTATCATTTCCTACGTGATCTCTGCAAGGATGGTGTTATTAATGTTATCTATTGCAAGAGTGAGGATCAGATTGCAGATATAATGACAAAACCTCTCAAGACAGCTGTGTTTGAGAAGCTTCGAAGTCTGCTCGGAGTTTGTTCAAGAAAGGAGGCTGGTTGGGATGATGAAAATCTGGGTTGTTGGAGTTTCCTCTGCTGTAAACTGATGTTTGTAGGACATTCAGTTTAA
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 gag_pre-integrs rve

Protein Analysis

332

Amino Acids

37.26

Weight (kDa)

8.6

Isoelectric Point (pI)

35.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 4 - 63 1.2e-14 Reverse transcriptase (RNA-dependent DNA polymerase)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000154)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata RLG00000026946
rosa_roxburghii Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 315
Acc65I GGTACC 1 cut(s) 392
AccB1I GGYRCC 1 cut(s) 392
AccI GTMKAC 1 cut(s) 581
AclWI GGATC 3 cut(s) 57, 185, 840
AcsI RAATTY 1 cut(s) 596
AfaI GTAC 5 cut(s) 275, 329, 383, 394, 416
AgsI TTSAA 4 cut(s) 83, 388, 723, 912
AluBI AGCT 3 cut(s) 205, 872, 886
AluI AGCT 3 cut(s) 205, 872, 886
Alw21I GWGCWC 1 cut(s) 506
Alw26I GTCTC 3 cut(s) 320, 419, 547
AlwI GGATC 3 cut(s) 57, 185, 840
Ama87I CYCGRG 1 cut(s) 74
ApeKI GCWGC 2 cut(s) 362, 605
ApoI RAATTY 1 cut(s) 596
AseI ATTAAT 1 cut(s) 807
Asp700I GAANNNNTTC 1 cut(s) 518
Asp718I GGTACC 1 cut(s) 392
AspS9I GGNCC 1 cut(s) 677
AsuHPI GGTGA 1 cut(s) 494
AsuII TTCGAA 1 cut(s) 889
AvaI CYCGRG 1 cut(s) 74
AvaII GGWCC 1 cut(s) 677
BanI GGYRCC 1 cut(s) 392
Bbv12I GWGCWC 1 cut(s) 506
BbvI GCAGC 2 cut(s) 349, 617
BccI CCATC 2 cut(s) 719, 791
BcoDI GTCTC 3 cut(s) 320, 419, 547
BfuAI ACCTGC 1 cut(s) 315
BisI GCNGC 2 cut(s) 363, 606
BlsI GCNGC 2 cut(s) 364, 607
Bme18I GGWCC 1 cut(s) 677
BmeT110I CYCGRG 1 cut(s) 74
BmgT120I GGNCC 1 cut(s) 677
BmiI GGNNCC 1 cut(s) 394
BmsI GCATC 3 cut(s) 51, 226, 361
Bpu14I TTCGAA 1 cut(s) 889
BpuEI CTTGAG 3 cut(s) 117, 191, 848
BsaAI YACGTR 1 cut(s) 782
BsaBI GATNNNNATC 1 cut(s) 939
BsaWI WCCGGW 1 cut(s) 292
Bse1I ACTGG 1 cut(s) 731
Bse8I GATNNNNATC 1 cut(s) 939
BseGI GGATG 2 cut(s) 802, 937
BseJI GATNNNNATC 1 cut(s) 939
BseMII CTCAG 4 cut(s) 24, 186, 420, 629
BseNI ACTGG 1 cut(s) 731
BseRI GAGGAG 1 cut(s) 760
BseXI GCAGC 2 cut(s) 349, 617
BshNI GGYRCC 1 cut(s) 392
BsiHKAI GWGCWC 1 cut(s) 506
BsiHKCI CYCGRG 1 cut(s) 74
BsiSI CCGG 1 cut(s) 293
BsmAI GTCTC 3 cut(s) 320, 419, 547
BsoBI CYCGRG 1 cut(s) 74
Bsp119I TTCGAA 1 cut(s) 889
Bsp1286I GDGCHC 1 cut(s) 506
Bsp143I GATC 4 cut(s) 49, 190, 784, 832
BspCNI CTCAG 4 cut(s) 25, 185, 421, 630
BspLI GGNNCC 1 cut(s) 394
BspMI ACCTGC 1 cut(s) 315
BspPI GGATC 3 cut(s) 57, 185, 840
BspQI GCTCTTC 1 cut(s) 494
BspT104I TTCGAA 1 cut(s) 889
BspT107I GGYRCC 1 cut(s) 392
BsrI ACTGG 1 cut(s) 731
BssMI GATC 4 cut(s) 49, 190, 784, 832
Bst6I CTCTTC 1 cut(s) 494
BstBAI YACGTR 1 cut(s) 782
BstBI TTCGAA 1 cut(s) 889
BstC8I GCNNGC 1 cut(s) 622
BstDEI CTNAG 4 cut(s) 33, 172, 429, 638
BstF5I GGATG 2 cut(s) 802, 937
BstKTI GATC 4 cut(s) 52, 193, 787, 835
BstMAI GTCTC 3 cut(s) 320, 419, 547
BstMBI GATC 4 cut(s) 49, 190, 784, 832
BstMWI GCNNNNNNNGC 1 cut(s) 626
BstV1I GCAGC 2 cut(s) 349, 617
BstX2I RGATCY 2 cut(s) 49, 190
BstYI RGATCY 2 cut(s) 49, 190
BtsCI GGATG 2 cut(s) 802, 937
BtsI GCAGTG 1 cut(s) 315
BtsIMutI CAGTG 2 cut(s) 315, 462
BveI ACCTGC 1 cut(s) 315
Cac8I GCNNGC 1 cut(s) 622
Cfr13I GGNCC 1 cut(s) 677
Csp6I GTAC 5 cut(s) 274, 328, 382, 393, 415
CviAII CATG 5 cut(s) 25, 43, 331, 546, 740
CviJI RGCY 6 cut(s) 205, 629, 637, 872, 886, 923
CviKI_1 RGCY 6 cut(s) 205, 629, 637, 872, 886, 923
CviQI GTAC 5 cut(s) 274, 328, 382, 393, 415
DdeI CTNAG 4 cut(s) 33, 172, 429, 638
DpnI GATC 4 cut(s) 51, 192, 786, 834
DpnII GATC 4 cut(s) 49, 190, 784, 832
DraI TTTAAA 2 cut(s) 16, 250
Eam1104I CTCTTC 1 cut(s) 494
EarI CTCTTC 1 cut(s) 494
Eco32I GATATC 1 cut(s) 688
Eco47I GGWCC 1 cut(s) 677
Eco88I CYCGRG 1 cut(s) 74
EcoRV GATATC 1 cut(s) 688
EcoT22I ATGCAT 1 cut(s) 66
FaeI CATG 5 cut(s) 28, 46, 334, 549, 743
FatI CATG 5 cut(s) 24, 42, 330, 545, 739
FauNDI CATATG 1 cut(s) 632
FblI GTMKAC 1 cut(s) 581
Fnu4HI GCNGC 2 cut(s) 363, 606
FokI GGATG 2 cut(s) 809, 944
Fsp4HI GCNGC 2 cut(s) 363, 606
GluI GCNGC 2 cut(s) 363, 606
HapII CCGG 1 cut(s) 293
Hin1II CATG 5 cut(s) 28, 46, 334, 549, 743
HindIII AAGCTT 1 cut(s) 884
HinfI GANTC 4 cut(s) 105, 215, 313, 459
HpaII CCGG 1 cut(s) 293
HphI GGTGA 1 cut(s) 494
Hpy166II GTNNAC 2 cut(s) 582, 971
Hpy188I TCNGA 5 cut(s) 34, 156, 220, 837, 902
Hpy188III TCNNGA 7 cut(s) 76, 134, 208, 262, 534, 865, 912
Hpy8I GTNNAC 2 cut(s) 582, 971
Hpy99I CGWCG 1 cut(s) 286
HpyAV CCTTC 3 cut(s) 205, 215, 382
HpyCH4IV ACGT 2 cut(s) 486, 781
HpyCH4V TGCA 8 cut(s) 64, 168, 308, 352, 739, 792, 822, 842
HpyF10VI GCNNNNNNNGC 1 cut(s) 626
HpyF3I CTNAG 4 cut(s) 33, 172, 429, 638
HpySE526I ACGT 2 cut(s) 486, 781
Hsp92II CATG 5 cut(s) 28, 46, 334, 549, 743
KpnI GGTACC 1 cut(s) 396
Kzo9I GATC 4 cut(s) 49, 190, 784, 832
LguI GCTCTTC 1 cut(s) 494
LmnI GCTCC 1 cut(s) 747
Lsp1109I GCAGC 2 cut(s) 349, 617
LweI GCATC 3 cut(s) 51, 226, 361
MaeII ACGT 2 cut(s) 486, 781
MaeIII GTNAC 5 cut(s) 112, 175, 482, 571, 662
MalI GATC 4 cut(s) 51, 192, 786, 834
MboI GATC 4 cut(s) 49, 190, 784, 832
MboII GAAGA 2 cut(s) 241, 511
MfeI CAATTG 1 cut(s) 567
MflI RGATCY 2 cut(s) 49, 190
MhlI GDGCHC 1 cut(s) 506
MluCI AATT 4 cut(s) 255, 567, 596, 644
MlyI GAGTC 1 cut(s) 322
MmeI TCCRAC 5 cut(s) 123, 218, 365, 704, 932
MnlI CCTC 8 cut(s) 141, 424, 738, 759, 823, 870, 913, 971
Mph1103I ATGCAT 1 cut(s) 66
MroXI GAANNNNTTC 1 cut(s) 518
MseI TTAA 5 cut(s) 15, 249, 278, 807, 997
MslI CAYNNNNRTG 2 cut(s) 759, 761
MspA1I CMGCKG 1 cut(s) 872
MspI CCGG 1 cut(s) 293
MssI GTTTAAAC 1 cut(s) 250
MunI CAATTG 1 cut(s) 567
MwoI GCNNNNNNNGC 1 cut(s) 626
NdeI CATATG 1 cut(s) 632
NdeII GATC 4 cut(s) 49, 190, 784, 832
NlaIII CATG 5 cut(s) 28, 46, 334, 549, 743
NlaIV GGNNCC 1 cut(s) 394
NmuCI GTSAC 2 cut(s) 482, 571
NsiI ATGCAT 1 cut(s) 66
NspV TTCGAA 1 cut(s) 889
PciSI GCTCTTC 1 cut(s) 494
PdmI GAANNNNTTC 1 cut(s) 518
PfeI GAWTC 3 cut(s) 105, 215, 459
PflFI GACNNNGTC 1 cut(s) 577
PkrI GCNGC 2 cut(s) 364, 607
PleI GAGTC 1 cut(s) 321
PmeI GTTTAAAC 1 cut(s) 250
PpsI GAGTC 1 cut(s) 321
Ppu21I YACGTR 1 cut(s) 782
PshBI ATTAAT 1 cut(s) 807
PspN4I GGNNCC 1 cut(s) 394
PspPI GGNCC 1 cut(s) 677
PsuI RGATCY 2 cut(s) 49, 190
PsyI GACNNNGTC 1 cut(s) 577
PvuII CAGCTG 1 cut(s) 872
RsaI GTAC 5 cut(s) 275, 329, 383, 394, 416
RsaNI GTAC 5 cut(s) 274, 328, 382, 393, 415
RseI CAYNNNNRTG 2 cut(s) 759, 761
SapI GCTCTTC 1 cut(s) 494
SaqAI TTAA 5 cut(s) 15, 249, 278, 807, 997
SatI GCNGC 2 cut(s) 363, 606
Sau3AI GATC 4 cut(s) 49, 190, 784, 832
Sau96I GGNCC 1 cut(s) 677
SchI GAGTC 1 cut(s) 322
SduI GDGCHC 1 cut(s) 506
SfaNI GCATC 3 cut(s) 51, 226, 361
SfuI TTCGAA 1 cut(s) 889
SinI GGWCC 1 cut(s) 677
SmiMI CAYNNNNRTG 2 cut(s) 759, 761
SmlI CTYRAG 3 cut(s) 132, 206, 863
SmoI CTYRAG 3 cut(s) 132, 206, 863
Sse9I AATT 4 cut(s) 255, 567, 596, 644
TaiI ACGT 2 cut(s) 489, 784
TaqI TCGA 1 cut(s) 889
TasI AATT 4 cut(s) 255, 567, 596, 644
TatI WGTACW 1 cut(s) 273
TfiI GAWTC 3 cut(s) 105, 215, 459
Tru1I TTAA 5 cut(s) 15, 249, 278, 807, 997
Tru9I TTAA 5 cut(s) 15, 249, 278, 807, 997
TscAI CASTG 2 cut(s) 315, 469
TseFI GTSAC 2 cut(s) 482, 571
TseI GCWGC 2 cut(s) 362, 605
Tsp45I GTSAC 2 cut(s) 482, 571
TspDTI ATGAA 2 cut(s) 173, 951
TspGWI ACGGA 1 cut(s) 62
TspRI CASTG 2 cut(s) 315, 469
Tth111I GACNNNGTC 1 cut(s) 577
VpaK11BI GGWCC 1 cut(s) 677
VspI ATTAAT 1 cut(s) 807
XapI RAATTY 1 cut(s) 596
XmiI GTMKAC 1 cut(s) 581
XmnI GAANNNNTTC 1 cut(s) 518
Zsp2I ATGCAT 1 cut(s) 66
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.