FvH4_4g09283

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000094
Physical Location & Seq
Forward (+)
10824597 .. 10825022
426 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g09283.t1

Sequence Viewer

Length: 426 bp
ATGCCTCCTAGGCGCCCACGGCAACCCCGTGTGGCTACTTCGACCAATGCCGATGAGGGCAATGAGGTCAGGGGACTGGTTGATGATATTGGAAATATGCTGAGGGATGTCATGGATCGAGCTCCACAACCTCATACAGTGAAGAGGAGAGAAGTTTATGAGGCTGGAGCAAGAGAGTTCAAGGGTGCCAAGGGACCCCTTGATGCTTATACTTGGGTGGACAAAATGGAAAAGGCTTTTGCAAGCACAGATTTGCCAGAAGAGAGGAAGGTGAAGATGGCAGTGACTTTTTTGGATGATTCAGCACATCACTGGTGGTCGCTTGCCAGCAGGAATGTTGAGGATACGCTGAATATGTCGTGGGAGCAGTTTAAGACTCTCTTCTTGGGGCAATATTTCAGTCCTGCCCACCGCAGCAAAATTTAG
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 zf-CCHC

Protein Analysis

142

Amino Acids

16.23

Weight (kDa)

8.02

Isoelectric Point (pI)

40.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 92 - 139 1.7e-07 Retrotransposon gag 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000094)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42190
fragaria_vesca FvH4_1g22371 FvH4_1g23261 FvH4_1g27933 FvH4_1g27934 FvH4_1g29231 FvH4_2g02781 FvH4_2g08031 FvH4_2g08581 FvH4_3g06961 FvH4_3g06962 FvH4_3g13531 FvH4_3g14391 FvH4_3g14392 FvH4_3g18622 FvH4_3g18964 FvH4_3g26314 FvH4_3g28781 FvH4_3g30771 FvH4_3g30772 FvH4_3g31752 FvH4_3g32803 FvH4_3g35751 FvH4_3g35752 FvH4_4g02151 FvH4_4g02642 FvH4_4g05523 FvH4_4g05524 FvH4_4g06574 FvH4_4g06722 FvH4_4g08644 FvH4_4g08645 FvH4_4g08646 FvH4_4g08851 FvH4_4g08971 FvH4_4g09081 FvH4_4g09243 FvH4_4g09244 FvH4_4g09283 FvH4_4g10021 FvH4_4g10032 FvH4_4g10033 FvH4_4g10182 FvH4_4g10361 FvH4_4g12502 FvH4_4g12503 FvH4_4g13341 FvH4_4g13942 FvH4_4g13943 FvH4_4g13944 FvH4_4g14432 FvH4_4g14822 FvH4_4g14823 FvH4_4g15291 FvH4_4g15292 FvH4_4g15293 FvH4_4g15471 FvH4_4g15583 FvH4_4g15584 FvH4_4g15585 FvH4_4g15586 FvH4_4g15587 FvH4_4g15591 FvH4_4g15592 FvH4_4g15593 FvH4_4g16179 FvH4_4g18131 FvH4_4g21031 FvH4_4g22021 FvH4_4g22021 FvH4_4g22042 FvH4_5g03402 FvH4_5g07411 FvH4_5g13881 FvH4_5g15792 FvH4_5g24682 FvH4_5g24911 FvH4_5g25322 FvH4_5g25641 FvH4_5g36692 FvH4_5g38072 FvH4_5g38171 FvH4_6g05202 FvH4_6g08531 FvH4_6g16342 FvH4_6g21771 FvH4_6g23303 FvH4_6g23961 FvH4_6g25381 FvH4_6g27021 FvH4_6g27022 FvH4_6g30091 FvH4_6g30092 FvH4_7g02051 FvH4_7g06031 FvH4_7g07031 FvH4_7g07581 FvH4_7g08381 FvH4_7g11551 FvH4_7g19711 FvH4_7g25621 FvH4_7g29722
malus_domestica MD06G1134500.v1.1 MD09G1067600.v1.1 MD13G1145500.v1.1 MD15G1166500.v1.1 MD16G1270000.v1.1
prunus_persica Prupe.7G030900_v2.0.a1
pyrus_communis pycom01g00710 pycom01g03760 pycom03g10770 pycom04g02180 pycom05g08050 pycom06g04140 pycom06g11110 pycom07g07550 pycom07g21570 pycom08g17240 pycom09g13900 pycom09g19570 pycom10g22300 pycom11g03210 pycom11g13750 pycom11g24890 pycom12561g00270 pycom12668g00020 pycom12g11280 pycom12g20720 pycom12g20730 pycom13g21410 pycom13g21660 pycom14g06010 pycom14g06370 pycom14g12800 pycom16g21440 pycom16g22530 pycom17g02030 pycom420g00170 pycom50g00020 pycom5153684g00110 pycom520g00860 pycom581g00060
rosa_chinensis RchiOBHm_Chr0c08g0498091 RchiOBHm_Chr0c08g0498101 RchiOBHm_Chr1g0326991 RchiOBHm_Chr2g0084311 RchiOBHm_Chr2g0090701 RchiOBHm_Chr2g0098591 RchiOBHm_Chr2g0109491 RchiOBHm_Chr2g0109501 RchiOBHm_Chr2g0130801 RchiOBHm_Chr2g0145931 RchiOBHm_Chr2g0168091 RchiOBHm_Chr3g0457081 RchiOBHm_Chr3g0457091 RchiOBHm_Chr3g0467781 RchiOBHm_Chr3g0467791 RchiOBHm_Chr3g0493771 RchiOBHm_Chr3g0494051 RchiOBHm_Chr3g0496881 RchiOBHm_Chr4g0401391 RchiOBHm_Chr4g0414861 RchiOBHm_Chr4g0424081 RchiOBHm_Chr5g0009611 RchiOBHm_Chr5g0049881 RchiOBHm_Chr5g0050351 RchiOBHm_Chr5g0053791 RchiOBHm_Chr5g0078031 RchiOBHm_Chr6g0256481 RchiOBHm_Chr6g0271231 RchiOBHm_Chr6g0286381 RchiOBHm_Chr7g0197101 RchiOBHm_Chr7g0221891 RchiOBHm_Chr7g0237801 RchiOBHm_Chr7g0237821
rosa_multiflora Rmu_sc0000509.1_g000034 Rmu_sc0004751.1_g000014 Rmu_sc0008546.1_g000002 Rmu_sc0009320.1_g000003 Rmu_sc0010661.1_g000006 Rmu_sc0029652.1_g000002
rosa_roxburghii Rroxscaffold_10G00433150 Rroxscaffold_15G00447630 Rroxscaffold_26G00447790 Rroxscaffold_29G00441810 Rroxscaffold_32G00442860 Rroxscaffold_33G00439800 Rroxscaffold_34G00443230 Rroxscaffold_3G00220560 Rroxscaffold_3G00227370 Rroxscaffold_3G00239080 Rroxscaffold_3G00239090 Rroxscaffold_3G00273190 Rroxscaffold_4G00323530 Rroxscaffold_4G00326840 Rroxscaffold_57G00443110 Rroxscaffold_5G00338590 Rroxscaffold_5G00347530 Rroxscaffold_68G00446990 Rroxscaffold_76G00448570 Rroxscaffold_90G00448860
rosa_rugosa Rorug06G0233600
rosa_samantha Rh3CG302700 Rh6DG286700
rosa_wichuraiana Rw0G002280 Rw0G004080 Rw0G011830 Rw1G003690 Rw1G008800 Rw1G009130 Rw1G009140 Rw1G009150 Rw1G009160 Rw1G009410 Rw1G009580 Rw1G012770 Rw1G015850 Rw1G026860 Rw2G003780 Rw2G006480 Rw2G016520 Rw2G016960 Rw2G018170 Rw2G025180 Rw2G025510 Rw2G025610 Rw2G025750 Rw2G025920 Rw2G029950 Rw2G046360 Rw2G046370 Rw2G046380 Rw3G009070 Rw3G025820 Rw3G027340 Rw3G027900 Rw3G028150 Rw3G029060 Rw4G002440 Rw4G005960 Rw4G007520 Rw4G011970 Rw4G011980 Rw4G012190 Rw4G012530 Rw4G018490 Rw4G026380 Rw5G003970 Rw5G030920 Rw5G031780 Rw5G031900 Rw5G033030 Rw5G033040 Rw5G036330 Rw5G039730 Rw5G048110 Rw6G006670 Rw6G007910 Rw6G009720 Rw6G010990 Rw6G012930 Rw6G012940 Rw6G013420 Rw6G014690 Rw6G015290 Rw6G015790 Rw6G015920 Rw6G036510 Rw7G016650 Rw7G023140 Rw7G028650 Rw7G036450 Rw7G036460 Rw7G036910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 12, 185
AciI CCGC 1 cut(s) 412
AclWI GGATC 1 cut(s) 123
AcsI RAATTY 1 cut(s) 420
AcyI GRCGYC 1 cut(s) 13
AgsI TTSAA 1 cut(s) 181
AluBI AGCT 1 cut(s) 122
AluI AGCT 1 cut(s) 122
Alw21I GWGCWC 1 cut(s) 124
AlwI GGATC 1 cut(s) 123
ApeKI GCWGC 1 cut(s) 414
ApoI RAATTY 1 cut(s) 420
AspA2I CCTAGG 1 cut(s) 8
AspLEI GCGC 1 cut(s) 15
AspS9I GGNCC 1 cut(s) 194
AsuHPI GGTGA 1 cut(s) 283
AvaII GGWCC 1 cut(s) 194
AvrII CCTAGG 1 cut(s) 8
BanI GGYRCC 2 cut(s) 12, 185
BanII GRGCYC 1 cut(s) 124
Bbv12I GWGCWC 1 cut(s) 124
BbvCI CCTCAGC 1 cut(s) 101
BccI CCATC 1 cut(s) 271
BceAI ACGGC 1 cut(s) 35
BciVI GTATCC 1 cut(s) 337
BfaI CTAG 1 cut(s) 9
BfoI RGCGCY 1 cut(s) 16
BfuI GTATCC 1 cut(s) 337
BglI GCCNNNNNGGC 1 cut(s) 10
BisI GCNGC 1 cut(s) 415
BlnI CCTAGG 1 cut(s) 8
BlsI GCNGC 1 cut(s) 416
Bme18I GGWCC 1 cut(s) 194
BmgT120I GGNCC 1 cut(s) 194
BmiI GGNNCC 4 cut(s) 14, 187, 195, 196
BmsI GCATC 1 cut(s) 193
BpmI CTGGAG 1 cut(s) 186
Bpu10I CCTNAGC 1 cut(s) 101
BsaHI GRCGYC 1 cut(s) 13
BsaJI CCNNGG 3 cut(s) 8, 17, 189
Bse1I ACTGG 2 cut(s) 81, 317
Bse3DI GCAATG 1 cut(s) 67
BseDI CCNNGG 3 cut(s) 8, 17, 189
BseGI GGATG 2 cut(s) 112, 301
BseMI GCAATG 1 cut(s) 67
BseMII CTCAG 1 cut(s) 92
BseNI ACTGG 2 cut(s) 81, 317
BseRI GAGGAG 1 cut(s) 160
BshNI GGYRCC 2 cut(s) 12, 185
BsiHKAI GWGCWC 1 cut(s) 124
BslFI GGGAC 2 cut(s) 87, 207
BsmFI GGGAC 2 cut(s) 87, 207
Bsp1286I GDGCHC 1 cut(s) 124
Bsp143I GATC 1 cut(s) 115
BspACI CCGC 1 cut(s) 412
BspCNI CTCAG 1 cut(s) 93
BspLI GGNNCC 4 cut(s) 14, 187, 195, 196
BspPI GGATC 1 cut(s) 123
BspT107I GGYRCC 2 cut(s) 12, 185
BsrDI GCAATG 1 cut(s) 67
BsrI ACTGG 2 cut(s) 81, 317
BssECI CCNNGG 3 cut(s) 8, 17, 189
BssMI GATC 1 cut(s) 115
BssNI GRCGYC 1 cut(s) 13
BssT1I CCWWGG 2 cut(s) 8, 189
Bst4CI ACNGT 1 cut(s) 139
Bst6I CTCTTC 3 cut(s) 137, 255, 386
BstACI GRCGYC 1 cut(s) 13
BstC8I GCNNGC 3 cut(s) 244, 324, 328
BstDEI CTNAG 1 cut(s) 101
BstDSI CCRYGG 1 cut(s) 17
BstF5I GGATG 2 cut(s) 112, 301
BstH2I RGCGCY 1 cut(s) 16
BstHHI GCGC 1 cut(s) 15
BstKTI GATC 1 cut(s) 118
BstMBI GATC 1 cut(s) 115
BstMWI GCNNNNNNNGC 2 cut(s) 10, 19
BsuI GTATCC 1 cut(s) 337
BtgI CCRYGG 1 cut(s) 17
BtsCI GGATG 2 cut(s) 112, 301
BtsI GCAGTG 1 cut(s) 288
BtsIMutI CAGTG 3 cut(s) 144, 288, 310
Cac8I GCNNGC 3 cut(s) 244, 324, 328
CfoI GCGC 1 cut(s) 15
Cfr13I GGNCC 1 cut(s) 194
CviAII CATG 1 cut(s) 112
CviJI RGCY 4 cut(s) 35, 122, 164, 236
CviKI_1 RGCY 4 cut(s) 35, 122, 164, 236
DdeI CTNAG 1 cut(s) 101
DinI GGCGCC 1 cut(s) 14
DpnI GATC 1 cut(s) 117
DpnII GATC 1 cut(s) 115
Eam1104I CTCTTC 3 cut(s) 137, 255, 386
EarI CTCTTC 3 cut(s) 137, 255, 386
Ecl136II GAGCTC 1 cut(s) 122
Eco130I CCWWGG 2 cut(s) 8, 189
Eco24I GRGCYC 1 cut(s) 124
Eco47I GGWCC 1 cut(s) 194
Eco53kI GAGCTC 1 cut(s) 122
EcoICRI GAGCTC 1 cut(s) 122
EcoO109I RGGNCCY 1 cut(s) 194
EcoT14I CCWWGG 2 cut(s) 8, 189
EcoT38I GRGCYC 1 cut(s) 124
EgeI GGCGCC 1 cut(s) 14
EheI GGCGCC 1 cut(s) 14
ErhI CCWWGG 2 cut(s) 8, 189
FaeI CATG 1 cut(s) 115
FaiI YATR 6 cut(s) 98, 113, 135, 159, 210, 356
FalI AAGNNNNNCTT 2 cut(s) 365, 397
FaqI GGGAC 2 cut(s) 87, 207
FatI CATG 1 cut(s) 111
Fnu4HI GCNGC 1 cut(s) 415
FokI GGATG 2 cut(s) 119, 308
FriOI GRGCYC 1 cut(s) 124
Fsp4HI GCNGC 1 cut(s) 415
FspBI CTAG 1 cut(s) 9
GlaI GCGC 1 cut(s) 14
GluI GCNGC 1 cut(s) 415
GsuI CTGGAG 1 cut(s) 186
HaeII RGCGCY 1 cut(s) 16
HhaI GCGC 1 cut(s) 15
Hin1I GRCGYC 1 cut(s) 13
Hin1II CATG 1 cut(s) 115
Hin6I GCGC 1 cut(s) 13
HinP1I GCGC 1 cut(s) 13
HinfI GANTC 2 cut(s) 299, 376
HphI GGTGA 1 cut(s) 283
Hpy166II GTNNAC 1 cut(s) 220
Hpy8I GTNNAC 1 cut(s) 220
HpyAV CCTTC 1 cut(s) 262
HpyCH4III ACNGT 1 cut(s) 139
HpyCH4V TGCA 1 cut(s) 242
HpyF10VI GCNNNNNNNGC 2 cut(s) 10, 19
HpyF3I CTNAG 1 cut(s) 101
Hsp92I GRCGYC 1 cut(s) 13
Hsp92II CATG 1 cut(s) 115
HspAI GCGC 1 cut(s) 13
KasI GGCGCC 1 cut(s) 12
KflI GGGWCCC 1 cut(s) 194
Kzo9I GATC 1 cut(s) 115
LmnI GCTCC 3 cut(s) 127, 167, 364
LpnPI CCDG 8 cut(s) 55, 62, 150, 270, 298, 316, 340, 417
LweI GCATC 1 cut(s) 193
MaeI CTAG 1 cut(s) 9
MaeIII GTNAC 1 cut(s) 283
MalI GATC 1 cut(s) 117
MboI GATC 1 cut(s) 115
MboII GAAGA 4 cut(s) 154, 272, 286, 373
MhlI GDGCHC 1 cut(s) 124
MluCI AATT 1 cut(s) 420
Mly113I GGCGCC 1 cut(s) 13
MlyI GAGTC 1 cut(s) 370
MnlI CCTC 9 cut(s) 15, 49, 58, 96, 138, 141, 154, 258, 334
MseI TTAA 1 cut(s) 372
MwoI GCNNNNNNNGC 2 cut(s) 10, 19
NarI GGCGCC 1 cut(s) 13
NdeII GATC 1 cut(s) 115
NlaIII CATG 1 cut(s) 115
NlaIV GGNNCC 4 cut(s) 14, 187, 195, 196
NmuCI GTSAC 1 cut(s) 283
PcsI WCGNNNNNNNCGW 1 cut(s) 25
PfeI GAWTC 1 cut(s) 299
PkrI GCNGC 1 cut(s) 416
PleI GAGTC 1 cut(s) 370
PluTI GGCGCC 1 cut(s) 16
PpsI GAGTC 1 cut(s) 370
PpuMI RGGWCCY 1 cut(s) 194
Psp124BI GAGCTC 1 cut(s) 124
Psp5II RGGWCCY 1 cut(s) 194
PspN4I GGNNCC 4 cut(s) 14, 187, 195, 196
PspPI GGNCC 1 cut(s) 194
PspPPI RGGWCCY 1 cut(s) 194
SacI GAGCTC 1 cut(s) 124
SaqAI TTAA 1 cut(s) 372
SatI GCNGC 1 cut(s) 415
Sau3AI GATC 1 cut(s) 115
Sau96I GGNCC 1 cut(s) 194
SchI GAGTC 1 cut(s) 370
SduI GDGCHC 1 cut(s) 124
SetI ASST 4 cut(s) 69, 124, 133, 273
SfaNI GCATC 1 cut(s) 193
SfoI GGCGCC 1 cut(s) 14
SinI GGWCC 1 cut(s) 194
Sse9I AATT 1 cut(s) 420
SsiI CCGC 1 cut(s) 412
SspDI GGCGCC 1 cut(s) 12
SspI AATATT 1 cut(s) 395
SspMI CTAG 1 cut(s) 9
SstI GAGCTC 1 cut(s) 124
StyI CCWWGG 2 cut(s) 8, 189
TaaI ACNGT 1 cut(s) 139
TaqI TCGA 2 cut(s) 41, 118
TasI AATT 1 cut(s) 420
TfiI GAWTC 1 cut(s) 299
Tru1I TTAA 1 cut(s) 372
Tru9I TTAA 1 cut(s) 372
TscAI CASTG 3 cut(s) 144, 288, 317
TseFI GTSAC 1 cut(s) 283
TseI GCWGC 1 cut(s) 414
Tsp45I GTSAC 1 cut(s) 283
TspRI CASTG 3 cut(s) 144, 288, 317
VpaK11BI GGWCC 1 cut(s) 194
XapI RAATTY 1 cut(s) 420
XmaJI CCTAGG 1 cut(s) 8
XspI CTAG 1 cut(s) 9
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.