RchiOBHm_Chr5g0047711

zinc-binding in reverse transcriptase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0010536
Physical Location & Seq
Reverse (-)
44252732 .. 44253464
733 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ32559

Sequence Viewer

Length: 570 bp
ATGGCATGGTTTGAGGAGTATTCCCAGGTCAATCAGGCTACTGCATCTCCTGATCGGCGAGGACCTACGAGTCAAACACTATGGTTTCCTCCAGCGACTGGTACCTTAAAACTAAATGTTGATGGTGAGTTCCTATCGTCGATTCAGTATGGAGGTACAGGGGGAGTTCTCAGGAATGATCAAGGGGATTTTATTGCTGCCTTTTCCTACAGAGCTGAGTCTGTGCTCTCTCCATTACACGCTGAACTCCTAGCCTTGAAGTATGGGTTAGACTTCCTCCACGCTATGAATGTCACGAAGGTGGTCATGGAAACTGATTGTTTAGTGGCAGTTCAGGCCATTAATTCTTCGACTGAGGATTTGTCTGAGCTAGGTGCTTTGATTCATGACATCAAAGGCCTTGTAGGTGTAGTGGGAGATGTTACAGTTGGTTTTACTCCCAGGCAGGCTAACAGAGTTGCTCATCGCCTAGCTAGTTATAGTTTTGATTCAAACATCCATCTTGATTGGTTTGGTCATGCTCTAGAGTTTGTACTGGATGCCCTCATGTACGATCATTATCGTATTTAG
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 zf-RVT

Protein Analysis

189

Amino Acids

20.81

Weight (kDa)

4.96

Isoelectric Point (pI)

32.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 39 - 160 4.3e-24 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 69
Acc65I GGTACC 1 cut(s) 101
AccB1I GGYRCC 1 cut(s) 101
AccB7I CCANNNNNTGG 1 cut(s) 98
AfaI GTAC 4 cut(s) 103, 157, 534, 551
AfiI CCNNNNNNNGG 1 cut(s) 98
AgsI TTSAA 2 cut(s) 259, 492
AjnI CCWGG 2 cut(s) 24, 440
AleI CACNNNNGTG 1 cut(s) 299
AluBI AGCT 3 cut(s) 215, 370, 473
AluI AGCT 3 cut(s) 215, 370, 473
Alw21I GWGCWC 1 cut(s) 228
AlwNI CAGNNNCTG 1 cut(s) 98
AoxI GGCC 2 cut(s) 336, 397
ApeKI GCWGC 1 cut(s) 197
ArsI GACNNNNNNTTYG 2 cut(s) 343, 375
AseI ATTAAT 1 cut(s) 342
Asp718I GGTACC 1 cut(s) 101
AspS9I GGNCC 1 cut(s) 62
AsuHPI GGTGA 1 cut(s) 137
AvaII GGWCC 1 cut(s) 62
BanI GGYRCC 1 cut(s) 101
Bbv12I GWGCWC 1 cut(s) 228
BbvI GCAGC 1 cut(s) 184
BccI CCATC 2 cut(s) 116, 507
BciT130I CCWGG 2 cut(s) 26, 442
BclI TGATCA 1 cut(s) 178
BfaI CTAG 5 cut(s) 251, 371, 470, 474, 524
BfmI CTRYAG 1 cut(s) 208
BisI GCNGC 1 cut(s) 198
BlsI GCNGC 1 cut(s) 199
Bme1390I CCNGG 2 cut(s) 26, 442
Bme18I GGWCC 1 cut(s) 62
BmgT120I GGNCC 1 cut(s) 62
BmiI GGNNCC 1 cut(s) 103
BmrFI CCNGG 2 cut(s) 26, 442
BmsI GCATC 2 cut(s) 53, 529
BpmI CTGGAG 1 cut(s) 75
BsaBI GATNNNNATC 1 cut(s) 558
BsaJI CCNNGG 2 cut(s) 24, 440
BsaXI ACNNNNNCTCC 2 cut(s) 31, 61
Bsc4I CCNNNNNNNGG 1 cut(s) 98
Bse1I ACTGG 2 cut(s) 103, 540
Bse8I GATNNNNATC 1 cut(s) 558
BseBI CCWGG 2 cut(s) 26, 442
BseDI CCNNGG 2 cut(s) 24, 440
BseGI GGATG 2 cut(s) 495, 544
BseJI GATNNNNATC 1 cut(s) 558
BseLI CCNNNNNNNGG 1 cut(s) 98
BseMII CTCAG 4 cut(s) 184, 207, 345, 357
BseNI ACTGG 2 cut(s) 103, 540
BseRI GAGGAG 1 cut(s) 29
BseXI GCAGC 1 cut(s) 184
BshFI GGCC 2 cut(s) 338, 399
BshNI GGYRCC 1 cut(s) 101
BsiHKAI GWGCWC 1 cut(s) 228
BslI CCNNNNNNNGG 1 cut(s) 98
BsnI GGCC 2 cut(s) 338, 399
Bsp1286I GDGCHC 1 cut(s) 228
Bsp143I GATC 3 cut(s) 52, 178, 553
BspANI GGCC 2 cut(s) 338, 399
BspCNI CTCAG 4 cut(s) 183, 208, 346, 358
BspHI TCATGA 1 cut(s) 385
BspLI GGNNCC 1 cut(s) 103
BspT107I GGYRCC 1 cut(s) 101
BsrI ACTGG 2 cut(s) 103, 540
BssECI CCNNGG 2 cut(s) 24, 440
BssMI GATC 3 cut(s) 52, 178, 553
Bst2UI CCWGG 2 cut(s) 26, 442
Bst4CI ACNGT 1 cut(s) 427
BstC8I GCNNGC 1 cut(s) 447
BstDEI CTNAG 4 cut(s) 170, 216, 354, 366
BstF5I GGATG 2 cut(s) 495, 544
BstKTI GATC 3 cut(s) 55, 181, 556
BstMBI GATC 3 cut(s) 52, 178, 553
BstMWI GCNNNNNNNGC 1 cut(s) 335
BstNI CCWGG 2 cut(s) 26, 442
BstSCI CCNGG 2 cut(s) 24, 440
BstSFI CTRYAG 1 cut(s) 208
BstV1I GCAGC 1 cut(s) 184
BsuRI GGCC 2 cut(s) 338, 399
BtgZI GCGATG 1 cut(s) 449
BtsCI GGATG 2 cut(s) 495, 544
Cac8I GCNNGC 1 cut(s) 447
CaiI CAGNNNCTG 1 cut(s) 98
CciI TCATGA 1 cut(s) 385
Cfr13I GGNCC 1 cut(s) 62
Csp6I GTAC 4 cut(s) 102, 156, 533, 550
CviAII CATG 5 cut(s) 6, 307, 386, 518, 547
CviJI RGCY 8 cut(s) 38, 215, 254, 338, 370, 399, 449, 473
CviKI_1 RGCY 8 cut(s) 38, 215, 254, 338, 370, 399, 449, 473
CviQI GTAC 4 cut(s) 102, 156, 533, 550
DdeI CTNAG 4 cut(s) 170, 216, 354, 366
DpnI GATC 3 cut(s) 54, 180, 555
DpnII GATC 3 cut(s) 52, 178, 553
DrdI GACNNNNNNGTC 1 cut(s) 69
DseDI GACNNNNNNGTC 1 cut(s) 69
Eco147I AGGCCT 1 cut(s) 399
Eco47I GGWCC 1 cut(s) 62
EcoO109I RGGNCCY 1 cut(s) 62
EcoRII CCWGG 2 cut(s) 24, 440
FaeI CATG 5 cut(s) 9, 310, 389, 521, 550
FatI CATG 5 cut(s) 5, 306, 385, 517, 546
FbaI TGATCA 1 cut(s) 178
Fnu4HI GCNGC 1 cut(s) 198
FokI GGATG 2 cut(s) 482, 551
Fsp4HI GCNGC 1 cut(s) 198
FspBI CTAG 5 cut(s) 251, 371, 470, 474, 524
GluI GCNGC 1 cut(s) 198
GsuI CTGGAG 1 cut(s) 75
HaeIII GGCC 2 cut(s) 338, 399
Hin1II CATG 5 cut(s) 9, 310, 389, 521, 550
HinfI GANTC 5 cut(s) 70, 142, 218, 382, 488
HphI GGTGA 1 cut(s) 137
Hpy188I TCNGA 1 cut(s) 367
Hpy188III TCNNGA 6 cut(s) 50, 172, 295, 386, 503, 524
Hpy99I CGWCG 1 cut(s) 142
HpyAV CCTTC 1 cut(s) 292
HpyCH4III ACNGT 1 cut(s) 427
HpyCH4V TGCA 1 cut(s) 44
HpyF10VI GCNNNNNNNGC 1 cut(s) 335
HpyF3I CTNAG 4 cut(s) 170, 216, 354, 366
Hsp92II CATG 5 cut(s) 9, 310, 389, 521, 550
KpnI GGTACC 1 cut(s) 105
Ksp22I TGATCA 1 cut(s) 178
Kzo9I GATC 3 cut(s) 52, 178, 553
Lsp1109I GCAGC 1 cut(s) 184
LweI GCATC 2 cut(s) 53, 529
MaeI CTAG 5 cut(s) 251, 371, 470, 474, 524
MaeIII GTNAC 2 cut(s) 292, 421
MalI GATC 3 cut(s) 54, 180, 555
MboI GATC 3 cut(s) 52, 178, 553
MboII GAAGA 1 cut(s) 339
MhlI GDGCHC 1 cut(s) 228
MluCI AATT 1 cut(s) 343
MlyI GAGTC 2 cut(s) 79, 227
MnlI CCTC 7 cut(s) 7, 53, 99, 146, 287, 349, 554
MseI TTAA 2 cut(s) 107, 342
MslI CAYNNNNRTG 1 cut(s) 299
MspR9I CCNGG 2 cut(s) 26, 442
MvaI CCWGG 2 cut(s) 26, 442
MwoI GCNNNNNNNGC 1 cut(s) 335
NdeII GATC 3 cut(s) 52, 178, 553
NlaIII CATG 5 cut(s) 9, 310, 389, 521, 550
NlaIV GGNNCC 1 cut(s) 103
NmuCI GTSAC 1 cut(s) 292
OliI CACNNNNGTG 1 cut(s) 299
PagI TCATGA 1 cut(s) 385
PceI AGGCCT 1 cut(s) 399
PfeI GAWTC 3 cut(s) 142, 382, 488
PflMI CCANNNNNTGG 1 cut(s) 98
PkrI GCNGC 1 cut(s) 199
PleI GAGTC 2 cut(s) 78, 226
PpsI GAGTC 2 cut(s) 78, 226
PpuMI RGGWCCY 1 cut(s) 62
PshBI ATTAAT 1 cut(s) 342
Psp5II RGGWCCY 1 cut(s) 62
Psp6I CCWGG 2 cut(s) 24, 440
PspGI CCWGG 2 cut(s) 24, 440
PspN4I GGNNCC 1 cut(s) 103
PspPI GGNCC 1 cut(s) 62
PspPPI RGGWCCY 1 cut(s) 62
PstNI CAGNNNCTG 1 cut(s) 98
RsaI GTAC 4 cut(s) 103, 157, 534, 551
RsaNI GTAC 4 cut(s) 102, 156, 533, 550
RseI CAYNNNNRTG 1 cut(s) 299
SaqAI TTAA 2 cut(s) 107, 342
SatI GCNGC 1 cut(s) 198
Sau3AI GATC 3 cut(s) 52, 178, 553
Sau96I GGNCC 1 cut(s) 62
SchI GAGTC 2 cut(s) 79, 227
ScrFI CCNGG 2 cut(s) 26, 442
SduI GDGCHC 1 cut(s) 228
SfaNI GCATC 2 cut(s) 53, 529
SfcI CTRYAG 1 cut(s) 208
SinI GGWCC 1 cut(s) 62
SmiMI CAYNNNNRTG 1 cut(s) 299
Sse9I AATT 1 cut(s) 343
SseBI AGGCCT 1 cut(s) 399
SspMI CTAG 5 cut(s) 251, 371, 470, 474, 524
StuI AGGCCT 1 cut(s) 399
StyD4I CCNGG 2 cut(s) 24, 440
TaaI ACNGT 1 cut(s) 427
TaqI TCGA 2 cut(s) 140, 350
TasI AATT 1 cut(s) 343
TatI WGTACW 1 cut(s) 532
TfiI GAWTC 3 cut(s) 142, 382, 488
Tru1I TTAA 2 cut(s) 107, 342
Tru9I TTAA 2 cut(s) 107, 342
TseFI GTSAC 1 cut(s) 292
TseI GCWGC 1 cut(s) 197
Tsp45I GTSAC 1 cut(s) 292
TspDTI ATGAA 2 cut(s) 302, 374
Van91I CCANNNNNTGG 1 cut(s) 98
VpaK11BI GGWCC 1 cut(s) 62
VspI ATTAAT 1 cut(s) 342
XbaI TCTAGA 1 cut(s) 523
XspI CTAG 5 cut(s) 251, 371, 470, 474, 524
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.