FvH4_3g42071

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000276
Physical Location & Seq
Reverse (-)
35179138 .. 35179800
663 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g42071.t1

Sequence Viewer

Length: 420 bp
ATGAACACAAAGCGATCTCTATCTGATTGTTGTTTTTCTGCAAATGTGCAGCAAAGGACAGTTGTGAAGTTGCCCATTCACTCCGAGAAATGCAGAACCAAGGCTTTGAAGATTGCAGCAACCACACCAGGTGTGATTAGAGTGTCGATTGAAGGTGATTATCTGGAGGTGATTGGGAATGGAGTTGACTCGGTTTGCTTGACTAGGGCTTTAAGGAAGAAGCTTGGCTTCGCCGATATCGTCAAAGTCGAACAAGTCGGAGAGTCCACATGTAGTTATTCCGTGGAAGAAAGGCCGACTCCGATTCAATATTGTGCTTCAACATCATCAAGCTATAGTCATTCTCAACATCCTCCTCAGATAGGTTATCCAATGTACTATCATCATGAACCAACTCATGATAGCTGCTCTATTATGTAA
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
HMA

Protein Analysis

140

Amino Acids

15.4

Weight (kDa)

8.16

Isoelectric Point (pI)

39.04

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AdeI CACNNNGTG 1 cut(s) 131
AfaI GTAC 1 cut(s) 377
AfiI CCNNNNNNNGG 1 cut(s) 362
AflIII ACRYGT 1 cut(s) 269
AgsI TTSAA 4 cut(s) 109, 152, 308, 321
AjnI CCWGG 1 cut(s) 127
AluBI AGCT 3 cut(s) 223, 333, 405
AluI AGCT 3 cut(s) 223, 333, 405
AoxI GGCC 1 cut(s) 293
ApeKI GCWGC 3 cut(s) 49, 116, 405
AsuHPI GGTGA 2 cut(s) 167, 181
BbvI GCAGC 3 cut(s) 61, 128, 392
BciT130I CCWGG 1 cut(s) 129
BfaI CTAG 1 cut(s) 204
BfmI CTRYAG 1 cut(s) 334
BisI GCNGC 3 cut(s) 50, 117, 406
BlsI GCNGC 3 cut(s) 51, 118, 407
Bme1390I CCNGG 1 cut(s) 129
BmrFI CCNGG 1 cut(s) 129
BpmI CTGGAG 1 cut(s) 185
BsaBI GATNNNNATC 1 cut(s) 19
BsaJI CCNNGG 2 cut(s) 99, 282
Bsc4I CCNNNNNNNGG 1 cut(s) 362
Bse8I GATNNNNATC 1 cut(s) 19
BseBI CCWGG 1 cut(s) 129
BseDI CCNNGG 2 cut(s) 99, 282
BseGI GGATG 1 cut(s) 349
BseJI GATNNNNATC 1 cut(s) 19
BseLI CCNNNNNNNGG 1 cut(s) 362
BseMII CTCAG 1 cut(s) 371
BseRI GAGGAG 1 cut(s) 345
BseXI GCAGC 3 cut(s) 61, 128, 392
BsgI GTGCAG 1 cut(s) 68
BshFI GGCC 1 cut(s) 295
BslI CCNNNNNNNGG 1 cut(s) 362
BsnI GGCC 1 cut(s) 295
Bsp143I GATC 1 cut(s) 14
BspANI GGCC 1 cut(s) 295
BspCNI CTCAG 1 cut(s) 370
BspHI TCATGA 2 cut(s) 385, 397
BssECI CCNNGG 2 cut(s) 99, 282
BssMI GATC 1 cut(s) 14
BssT1I CCWWGG 1 cut(s) 99
Bst2UI CCWGG 1 cut(s) 129
Bst4CI ACNGT 1 cut(s) 61
BstDEI CTNAG 1 cut(s) 357
BstDSI CCRYGG 1 cut(s) 282
BstENI CCTNNNNNAGG 1 cut(s) 360
BstF5I GGATG 1 cut(s) 349
BstKTI GATC 1 cut(s) 17
BstMBI GATC 1 cut(s) 14
BstNI CCWGG 1 cut(s) 129
BstNSI RCATGY 1 cut(s) 273
BstSCI CCNGG 1 cut(s) 127
BstSFI CTRYAG 1 cut(s) 334
BstV1I GCAGC 3 cut(s) 61, 128, 392
BsuRI GGCC 1 cut(s) 295
BtgI CCRYGG 1 cut(s) 282
BtsCI GGATG 1 cut(s) 349
CciI TCATGA 2 cut(s) 385, 397
CsiI ACCWGGT 1 cut(s) 127
Csp6I GTAC 1 cut(s) 376
CviAII CATG 3 cut(s) 270, 386, 398
CviJI RGCY 7 cut(s) 104, 209, 223, 228, 295, 333, 405
CviKI_1 RGCY 7 cut(s) 104, 209, 223, 228, 295, 333, 405
CviQI GTAC 1 cut(s) 376
DdeI CTNAG 1 cut(s) 357
DpnI GATC 1 cut(s) 16
DpnII GATC 1 cut(s) 14
DraIII CACNNNGTG 1 cut(s) 131
Eco130I CCWWGG 1 cut(s) 99
Eco32I GATATC 1 cut(s) 238
EcoNI CCTNNNNNAGG 1 cut(s) 360
EcoRII CCWGG 1 cut(s) 127
EcoRV GATATC 1 cut(s) 238
EcoT14I CCWWGG 1 cut(s) 99
ErhI CCWWGG 1 cut(s) 99
FaeI CATG 3 cut(s) 273, 389, 401
FaiI YATR 5 cut(s) 271, 336, 387, 399, 416
FalI AAGNNNNNCTT 2 cut(s) 212, 244
FatI CATG 3 cut(s) 269, 385, 397
Fnu4HI GCNGC 3 cut(s) 50, 117, 406
FokI GGATG 1 cut(s) 336
Fsp4HI GCNGC 3 cut(s) 50, 117, 406
FspBI CTAG 1 cut(s) 204
GluI GCNGC 3 cut(s) 50, 117, 406
GsuI CTGGAG 1 cut(s) 185
HaeIII GGCC 1 cut(s) 295
Hin1II CATG 3 cut(s) 273, 389, 401
HincII GTYRAC 1 cut(s) 187
HindII GTYRAC 1 cut(s) 187
HindIII AAGCTT 1 cut(s) 221
HinfI GANTC 4 cut(s) 188, 263, 298, 304
HphI GGTGA 2 cut(s) 167, 181
Hpy166II GTNNAC 2 cut(s) 187, 267
Hpy188I TCNGA 5 cut(s) 25, 85, 260, 303, 360
Hpy188III TCNNGA 3 cut(s) 164, 386, 398
Hpy8I GTNNAC 2 cut(s) 187, 267
HpyAV CCTTC 1 cut(s) 146
HpyCH4III ACNGT 1 cut(s) 61
HpyCH4V TGCA 4 cut(s) 41, 49, 93, 116
HpyF3I CTNAG 1 cut(s) 357
Hsp92II CATG 3 cut(s) 273, 389, 401
Kzo9I GATC 1 cut(s) 14
LpnPI CCDG 3 cut(s) 114, 141, 149
Lsp1109I GCAGC 3 cut(s) 61, 128, 392
MabI ACCWGGT 1 cut(s) 127
MaeI CTAG 1 cut(s) 204
MalI GATC 1 cut(s) 16
MboI GATC 1 cut(s) 14
MboII GAAGA 3 cut(s) 121, 229, 299
MlyI GAGTC 3 cut(s) 182, 272, 292
MmeI TCCRAC 1 cut(s) 238
MnlI CCTC 3 cut(s) 160, 363, 366
MseI TTAA 1 cut(s) 212
MspR9I CCNGG 1 cut(s) 129
MvaI CCWGG 1 cut(s) 129
NdeII GATC 1 cut(s) 14
NlaIII CATG 3 cut(s) 273, 389, 401
NspI RCATGY 1 cut(s) 273
PagI TCATGA 2 cut(s) 385, 397
PciI ACATGT 1 cut(s) 269
PcsI WCGNNNNNNNCGW 2 cut(s) 237, 246
PfeI GAWTC 1 cut(s) 304
PkrI GCNGC 3 cut(s) 51, 118, 407
PleI GAGTC 3 cut(s) 182, 271, 292
PpsI GAGTC 3 cut(s) 182, 271, 292
PscI ACATGT 1 cut(s) 269
Psp6I CCWGG 1 cut(s) 127
PspGI CCWGG 1 cut(s) 127
RsaI GTAC 1 cut(s) 377
RsaNI GTAC 1 cut(s) 376
SaqAI TTAA 1 cut(s) 212
SatI GCNGC 3 cut(s) 50, 117, 406
Sau3AI GATC 1 cut(s) 14
SchI GAGTC 3 cut(s) 182, 272, 292
ScrFI CCNGG 1 cut(s) 129
SetI ASST 7 cut(s) 133, 157, 171, 225, 335, 367, 407
SexAI ACCWGGT 1 cut(s) 127
SfcI CTRYAG 1 cut(s) 334
SspI AATATT 1 cut(s) 311
SspMI CTAG 1 cut(s) 204
StyD4I CCNGG 1 cut(s) 127
StyI CCWWGG 1 cut(s) 99
TaaI ACNGT 1 cut(s) 61
TaqI TCGA 2 cut(s) 146, 249
TatI WGTACW 1 cut(s) 375
TfiI GAWTC 1 cut(s) 304
Tru1I TTAA 1 cut(s) 212
Tru9I TTAA 1 cut(s) 212
TseI GCWGC 3 cut(s) 49, 116, 405
TspDTI ATGAA 2 cut(s) 17, 402
TspGWI ACGGA 1 cut(s) 271
XagI CCTNNNNNAGG 1 cut(s) 360
XceI RCATGY 1 cut(s) 273
XspI CTAG 1 cut(s) 204
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.