FvH4_6g22262

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0000756
Physical Location & Seq
Reverse (-)
15922508 .. 15932142
9635 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g22262.t1

Sequence Viewer

Length: 933 bp
ATGGATGAGAGAGACATAGCCAAAACTACATTTAGGACACATTCTGGTCACTATGAGTTTCTAGTGATGCCATTTGGGCTCACTAATGCACCCTCAACATTTCAATCACATGTTTATGTGCTGCGAGAGTACTTGAGGAAGTGTACTTTGGTGTTTTTTGATGACATCTTAGTGTACAGTCCTTCCATGGAAACTCATGACAAACACTTGGAGTTGGTGTTGTCCAAGTTGCAGCAGCACTCCTTGAAAGTGAAAAAAAGTAAATGTGATTTTGGGGCAAGCCAAGTGGAGTACCTAGGACATGTAATAAGTGATGAAGGGGTGGCTATGGATCCTACAAAAATTGAGTGCATCAAATCGTGGCAGAAACCTAAAACTCTTAAGCAGTTGAGAGGTTTTTTGGGACTAGCTGGTTACTACAGGAAGTACGTGAAAGGGTTTGGGATTATAGCCAAGCCTCTGACTGATATGCTTAAAAAAGAAGGGTTCACATGGAGTCTAGCTTCTGAAATGGCTTTTGAAAGATTGAAAGTAGCTTTGACCACTACACCGGTTTTAGCTATTCCTGATTTTTCCAAGGAGTTTGTGATGGAGTGTGATGCTTCAGATTTAGGCATTGGGGCAATATTGTCACAAGATGGCCACCCTATTGCATTTATGAGTAAGGCTTTCGCTCAAAGGCATTTGGCCATGTCAGTATATGATAAGGAAATGCTAGCAGTGGTATCAACAATGCAACATTGGAGACCCTATCTTTTGGGGCATCGTTTCAAGATTCTATCAGACCACAGGACCATTGAGTACTTCTTAAATCAAAGAATAACCACACCAGCTCAACAGAAGTGGCTTATCAAGTTGATGGGGTACTTCGTGGAGCAAGATAATGCAAATATTTGCTCAAGTGATGCAAGCAAGGCTTCCAATACGAAGTAG
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

311

Amino Acids

35.4

Weight (kDa)

8.89

Isoelectric Point (pI)

35.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 6 - 103 4.2e-22 Reverse transcriptase (RNA-dependent DNA polymerase)
RT_RNaseH_2 PF17919 165 - 259 2.3e-29 RNase H-like domain found in reverse transcriptase
RT_RNaseH PF17917 190 - 289 8.7e-30 RNase H-like domain found in reverse transcriptase
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 326, 339
AcoI YGGCCR 2 cut(s) 640, 687
AcuI CTGAAG 1 cut(s) 588
AfaI GTAC 7 cut(s) 131, 145, 176, 293, 428, 803, 866
AflII CTTAAG 1 cut(s) 380
AflIII ACRYGT 2 cut(s) 109, 301
AgeI ACCGGT 1 cut(s) 550
AgsI TTSAA 5 cut(s) 104, 247, 521, 529, 772
AjuI GAANNNNNNNTTGG 2 cut(s) 131, 163
AluBI AGCT 5 cut(s) 410, 503, 536, 560, 833
AluI AGCT 5 cut(s) 410, 503, 536, 560, 833
Alw26I GTCTC 2 cut(s) 6, 739
AlwI GGATC 2 cut(s) 326, 339
AoxI GGCC 2 cut(s) 640, 687
ApeKI GCWGC 3 cut(s) 121, 232, 235
AsiGI ACCGGT 1 cut(s) 550
AspA2I CCTAGG 1 cut(s) 295
AspS9I GGNCC 1 cut(s) 792
AsuNHI GCTAGC 1 cut(s) 715
AvaII GGWCC 1 cut(s) 792
AvrII CCTAGG 1 cut(s) 295
BalI TGGCCA 2 cut(s) 642, 689
BamHI GGATCC 1 cut(s) 331
BanII GRGCYC 1 cut(s) 81
BbvI GCAGC 3 cut(s) 108, 244, 247
BccI CCATC 3 cut(s) 583, 632, 853
BcoDI GTCTC 2 cut(s) 6, 739
BfaI CTAG 5 cut(s) 62, 296, 407, 500, 716
BfmI CTRYAG 1 cut(s) 418
BfrI CTTAAG 1 cut(s) 380
BglI GCCNNNNNGGC 1 cut(s) 76
BisI GCNGC 3 cut(s) 122, 233, 236
BlnI CCTAGG 1 cut(s) 295
BlsI GCNGC 3 cut(s) 123, 234, 237
BmcAI AGTACT 2 cut(s) 131, 803
Bme18I GGWCC 1 cut(s) 792
BmgT120I GGNCC 1 cut(s) 792
BmiI GGNNCC 1 cut(s) 333
BmsI GCATC 5 cut(s) 57, 360, 589, 772, 895
BmtI GCTAGC 1 cut(s) 719
BpuEI CTTGAG 2 cut(s) 154, 883
BsaAI YACGTR 1 cut(s) 430
BsaI GGTCTC 1 cut(s) 739
BsaJI CCNNGG 3 cut(s) 186, 295, 576
BsaWI WCCGGW 1 cut(s) 550
BsaXI ACNNNNNCTCC 2 cut(s) 203, 233
Bse118I RCCGGY 1 cut(s) 550
BseDI CCNNGG 3 cut(s) 186, 295, 576
BseGI GGATG 1 cut(s) 10
BseXI GCAGC 3 cut(s) 108, 244, 247
BshFI GGCC 2 cut(s) 642, 689
BshTI ACCGGT 1 cut(s) 550
BsiSI CCGG 1 cut(s) 551
BslFI GGGAC 1 cut(s) 417
BsmAI GTCTC 2 cut(s) 6, 739
BsmFI GGGAC 1 cut(s) 417
BsnI GGCC 2 cut(s) 642, 689
Bso31I GGTCTC 1 cut(s) 739
Bsp1286I GDGCHC 1 cut(s) 81
Bsp1407I TGTACA 1 cut(s) 174
Bsp143I GATC 1 cut(s) 331
Bsp19I CCATGG 1 cut(s) 186
BspANI GGCC 2 cut(s) 642, 689
BspHI TCATGA 1 cut(s) 196
BspLI GGNNCC 1 cut(s) 333
BspOI GCTAGC 1 cut(s) 719
BspPI GGATC 2 cut(s) 326, 339
BspTI CTTAAG 1 cut(s) 380
BspTNI GGTCTC 1 cut(s) 739
BsrFI RCCGGY 1 cut(s) 550
BsrGI TGTACA 1 cut(s) 174
BssAI RCCGGY 1 cut(s) 550
BssECI CCNNGG 3 cut(s) 186, 295, 576
BssMI GATC 1 cut(s) 331
BssT1I CCWWGG 3 cut(s) 186, 295, 576
Bst4CI ACNGT 1 cut(s) 179
BstAFI CTTAAG 1 cut(s) 380
BstAUI TGTACA 1 cut(s) 174
BstBAI YACGTR 1 cut(s) 430
BstC8I GCNNGC 3 cut(s) 280, 717, 910
BstDEI CTNAG 1 cut(s) 169
BstDSI CCRYGG 1 cut(s) 186
BstF5I GGATG 1 cut(s) 10
BstKTI GATC 1 cut(s) 334
BstMAI GTCTC 2 cut(s) 6, 739
BstMBI GATC 1 cut(s) 331
BstMWI GCNNNNNNNGC 2 cut(s) 76, 914
BstNSI RCATGY 2 cut(s) 113, 305
BstSFI CTRYAG 1 cut(s) 418
BstV1I GCAGC 3 cut(s) 108, 244, 247
BstX2I RGATCY 1 cut(s) 331
BstYI RGATCY 1 cut(s) 331
BsuRI GGCC 2 cut(s) 642, 689
BtgI CCRYGG 1 cut(s) 186
BtsCI GGATG 1 cut(s) 10
BtsI GCAGTG 1 cut(s) 726
BtsIMutI CAGTG 1 cut(s) 726
Cac8I GCNNGC 3 cut(s) 280, 717, 910
CciI TCATGA 1 cut(s) 196
Cfr10I RCCGGY 1 cut(s) 550
Cfr13I GGNCC 1 cut(s) 792
Csp6I GTAC 7 cut(s) 130, 144, 175, 292, 427, 802, 865
CspAI ACCGGT 1 cut(s) 550
CspCI CAANNNNNGTGG 4 cut(s) 267, 302, 824, 859
CviAII CATG 6 cut(s) 110, 187, 197, 302, 492, 691
CviQI GTAC 7 cut(s) 130, 144, 175, 292, 427, 802, 865
DdeI CTNAG 1 cut(s) 169
DpnI GATC 1 cut(s) 333
DpnII GATC 1 cut(s) 331
EaeI YGGCCR 2 cut(s) 640, 687
Eco130I CCWWGG 3 cut(s) 186, 295, 576
Eco24I GRGCYC 1 cut(s) 81
Eco31I GGTCTC 1 cut(s) 739
Eco47I GGWCC 1 cut(s) 792
Eco57I CTGAAG 1 cut(s) 588
EcoT14I CCWWGG 3 cut(s) 186, 295, 576
EcoT38I GRGCYC 1 cut(s) 81
ErhI CCWWGG 3 cut(s) 186, 295, 576
FaeI CATG 6 cut(s) 113, 190, 200, 305, 495, 694
FalI AAGNNNNNCTT 2 cut(s) 901, 933
FaqI GGGAC 1 cut(s) 417
FatI CATG 6 cut(s) 109, 186, 196, 301, 491, 690
Fnu4HI GCNGC 3 cut(s) 122, 233, 236
FokI GGATG 1 cut(s) 17
FriOI GRGCYC 1 cut(s) 81
Fsp4HI GCNGC 3 cut(s) 122, 233, 236
FspBI CTAG 5 cut(s) 62, 296, 407, 500, 716
GluI GCNGC 3 cut(s) 122, 233, 236
HaeIII GGCC 2 cut(s) 642, 689
HapII CCGG 1 cut(s) 551
Hin1II CATG 6 cut(s) 113, 190, 200, 305, 495, 694
HinfI GANTC 2 cut(s) 496, 775
HpaII CCGG 1 cut(s) 551
Hpy166II GTNNAC 3 cut(s) 144, 175, 489
Hpy188I TCNGA 4 cut(s) 462, 508, 607, 784
Hpy188III TCNNGA 3 cut(s) 197, 566, 772
Hpy8I GTNNAC 3 cut(s) 144, 175, 489
HpyAV CCTTC 3 cut(s) 192, 311, 476
HpyCH4III ACNGT 1 cut(s) 179
HpyCH4IV ACGT 1 cut(s) 429
HpyCH4V TGCA 7 cut(s) 89, 232, 351, 653, 736, 887, 908
HpyF10VI GCNNNNNNNGC 2 cut(s) 76, 914
HpyF3I CTNAG 1 cut(s) 169
HpySE526I ACGT 1 cut(s) 429
Hsp92II CATG 6 cut(s) 113, 190, 200, 305, 495, 694
Kzo9I GATC 1 cut(s) 331
LmnI GCTCC 1 cut(s) 874
LpnPI CCDG 7 cut(s) 30, 396, 406, 564, 579, 775, 843
Lsp1109I GCAGC 3 cut(s) 108, 244, 247
LweI GCATC 5 cut(s) 57, 360, 589, 772, 895
MaeI CTAG 5 cut(s) 62, 296, 407, 500, 716
MaeII ACGT 1 cut(s) 429
MaeIII GTNAC 3 cut(s) 47, 413, 630
MalI GATC 1 cut(s) 333
MboI GATC 1 cut(s) 331
MflI RGATCY 1 cut(s) 331
MhlI GDGCHC 1 cut(s) 81
MlsI TGGCCA 2 cut(s) 642, 689
MluCI AATT 1 cut(s) 342
MluNI TGGCCA 2 cut(s) 642, 689
MlyI GAGTC 1 cut(s) 505
MnlI CCTC 4 cut(s) 103, 129, 386, 468
Mox20I TGGCCA 2 cut(s) 642, 689
MscI TGGCCA 2 cut(s) 642, 689
MseI TTAA 3 cut(s) 381, 474, 809
MslI CAYNNNNRTG 2 cut(s) 114, 170
Msp20I TGGCCA 2 cut(s) 642, 689
MspCI CTTAAG 1 cut(s) 380
MspI CCGG 1 cut(s) 551
MwoI GCNNNNNNNGC 2 cut(s) 76, 914
NcoI CCATGG 1 cut(s) 186
NdeII GATC 1 cut(s) 331
NheI GCTAGC 1 cut(s) 715
NlaIII CATG 6 cut(s) 113, 190, 200, 305, 495, 694
NlaIV GGNNCC 1 cut(s) 333
NmuCI GTSAC 2 cut(s) 47, 630
NspI RCATGY 2 cut(s) 113, 305
PagI TCATGA 1 cut(s) 196
PciI ACATGT 2 cut(s) 109, 301
PfeI GAWTC 1 cut(s) 775
PinAI ACCGGT 1 cut(s) 550
PkrI GCNGC 3 cut(s) 123, 234, 237
PleI GAGTC 1 cut(s) 504
PpsI GAGTC 1 cut(s) 504
Ppu21I YACGTR 1 cut(s) 430
PscI ACATGT 2 cut(s) 109, 301
PspN4I GGNNCC 1 cut(s) 333
PspPI GGNCC 1 cut(s) 792
PsuI RGATCY 1 cut(s) 331
RsaI GTAC 7 cut(s) 131, 145, 176, 293, 428, 803, 866
RsaNI GTAC 7 cut(s) 130, 144, 175, 292, 427, 802, 865
RseI CAYNNNNRTG 2 cut(s) 114, 170
SaqAI TTAA 3 cut(s) 381, 474, 809
SatI GCNGC 3 cut(s) 122, 233, 236
Sau3AI GATC 1 cut(s) 331
Sau96I GGNCC 1 cut(s) 792
ScaI AGTACT 2 cut(s) 131, 803
SchI GAGTC 1 cut(s) 505
SduI GDGCHC 1 cut(s) 81
SetI ASST 9 cut(s) 297, 373, 397, 412, 432, 505, 538, 562, 835
SfaNI GCATC 5 cut(s) 57, 360, 589, 772, 895
SfcI CTRYAG 1 cut(s) 418
SinI GGWCC 1 cut(s) 792
SmiMI CAYNNNNRTG 2 cut(s) 114, 170
SmlI CTYRAG 3 cut(s) 133, 380, 898
SmoI CTYRAG 3 cut(s) 133, 380, 898
Sse9I AATT 1 cut(s) 342
SspI AATATT 2 cut(s) 627, 892
SspMI CTAG 5 cut(s) 62, 296, 407, 500, 716
StyI CCWWGG 3 cut(s) 186, 295, 576
TaaI ACNGT 1 cut(s) 179
TaiI ACGT 1 cut(s) 432
TasI AATT 1 cut(s) 342
TatI WGTACW 4 cut(s) 129, 143, 174, 801
TfiI GAWTC 1 cut(s) 775
Tru1I TTAA 3 cut(s) 381, 474, 809
Tru9I TTAA 3 cut(s) 381, 474, 809
TscAI CASTG 1 cut(s) 726
TseFI GTSAC 2 cut(s) 47, 630
TseI GCWGC 3 cut(s) 121, 232, 235
Tsp45I GTSAC 2 cut(s) 47, 630
TspDTI ATGAA 1 cut(s) 330
TspRI CASTG 1 cut(s) 726
Vha464I CTTAAG 1 cut(s) 380
VpaK11BI GGWCC 1 cut(s) 792
XceI RCATGY 2 cut(s) 113, 305
XmaJI CCTAGG 1 cut(s) 295
XspI CTAG 5 cut(s) 62, 296, 407, 500, 716
ZrmI AGTACT 2 cut(s) 131, 803
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.