FvH4_6g24370

tRNA-splicing endonuclease subunit sen54 N-term

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0003580
Physical Location & Seq
Reverse (-)
18484406 .. 18485420
1015 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g24370.t1

Sequence Viewer

Length: 960 bp
ATGCACAGTACCTGCCGACCAAAAATAATCTTTGCTCTTTGCTACGCCACAATACCCACCTCCTCTTCCTCCCCACACCCACTTCTCCAATCCCACCATAACCAAAAACGCTGCGTTTCATCACATGACCGACTACCGGATACCACCCACCATGAATCTCTGGACAAACGACAACGCCTCCCTCATGGAGGCCTTCATGAGCAACTCCGATCTCACCTCCTTCTAGGCCGCCCAACCGGCCCAGCCCGCCGCCCACCCACTCCACTAGCCCCAGTCTTCGGCTTCCATGTCGGACTACCCCCGCCCCCCGACGCAGGCGTTGGCTCTGATATCGGCGCCGTTCAACCAGGAGACCCTTATGTAGTGGCTTCGTCGTACGACATGCCGGGCGCCTCCATGCTCGGCTGGGGCGAGGGGTTTTACAAGGACGAGAGGGACAAAGTAAAAACAAAGCCCAAAACGACAACGTCTCTGGTCGAGCAGGAGTACCGCAAGAAAGTTCTCAGGGACTTGAACTCCTTGATTTCCGGTGCCGACACCTCAGCAGACAACGCCGTCATCGATCACGAGGTCACTGACGCAGAATGGTTCTTCCTCGTTTCCATGACCCAGAATTTCGTCAACGGCAGCGGGTTGCCGAGTCAGGCCTTCTTCCATTCCAACCCGGTCTGGGTCGCCATGCAGGACCGCCTCGCCGCCTCTTCTTGCGAGCGTGCCCGCCAAGGTCAGGTGTTCGGGCTTCAGACCATGGTCTGCGTCCCGACAACGAACGACGTCGTCGAGTTGGGCTCTGGTGGGATTGGAGAAGTGGGTGTGGGGAGGAAGAGGAGGTGGGTATTGTGGCGTAGCAAAGAGCAAAGATTATTTTTGGTCGGCAGGTATTGTGCATCACTGTGTTTTTCTCTCAAAATCATTTCTGTTAATTTTGAATTATTTGAAGACCATGATATGATAAAATGA
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
tRNA_int_end_N2

Protein Analysis

320

Amino Acids

35.31

Weight (kDa)

8.45

Isoelectric Point (pI)

42.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
bHLH-MYC_N PF14215 126 - 264 3.7e-34 bHLH-MYC and R2R3-MYB transcription factors N-terminal
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)
AasI GACNNNNNNGTC 1 cut(s) 554
AatII GACGTC 1 cut(s) 777
Acc36I ACCTGC 2 cut(s) 20, 867
AccB1I GGYRCC 3 cut(s) 335, 389, 530
AciI CCGC 9 cut(s) 229, 247, 250, 302, 490, 630, 688, 696, 718
AcsI RAATTY 1 cut(s) 613
AcuI CTGAAG 1 cut(s) 725
AcyI GRCGYC 3 cut(s) 336, 390, 774
AfaI GTAC 3 cut(s) 10, 377, 488
AfiI CCNNNNNNNGG 6 cut(s) 136, 188, 278, 314, 670, 727
AgsI TTSAA 4 cut(s) 344, 514, 929, 938
AjnI CCWGG 1 cut(s) 346
Alw26I GTCTC 2 cut(s) 345, 474
AlwNI CAGNNNCTG 1 cut(s) 12
AoxI GGCC 4 cut(s) 190, 226, 238, 645
ApeKI GCWGC 2 cut(s) 111, 627
ApoI RAATTY 1 cut(s) 613
AspLEI GCGC 2 cut(s) 338, 392
AspS9I GGNCC 2 cut(s) 239, 685
AsuC2I CCSGG 2 cut(s) 387, 665
AsuHPI GGTGA 1 cut(s) 206
AvaII GGWCC 1 cut(s) 685
BaeGI GKGCMC 1 cut(s) 718
BanI GGYRCC 3 cut(s) 335, 389, 530
BanII GRGCYC 1 cut(s) 791
BauI CACGAG 1 cut(s) 566
BbsI GAAGAC 2 cut(s) 268, 945
BbvCI CCTCAGC 1 cut(s) 541
BbvI GCAGC 2 cut(s) 98, 639
BceAI ACGGC 3 cut(s) 323, 539, 640
BciT130I CCWGG 1 cut(s) 348
BciVI GTATCC 1 cut(s) 133
BcnI CCSGG 2 cut(s) 387, 665
BcoDI GTCTC 2 cut(s) 345, 474
BfaI CTAG 2 cut(s) 224, 266
BfoI RGCGCY 2 cut(s) 339, 393
BfuAI ACCTGC 2 cut(s) 20, 867
BfuI GTATCC 1 cut(s) 133
BglI GCCNNNNNGGC 1 cut(s) 237
BisI GCNGC 5 cut(s) 112, 229, 250, 628, 696
BlsI GCNGC 5 cut(s) 113, 230, 251, 629, 697
Bme1390I CCNGG 3 cut(s) 348, 387, 665
Bme18I GGWCC 1 cut(s) 685
BmgT120I GGNCC 2 cut(s) 239, 685
BmiI GGNNCC 3 cut(s) 337, 391, 532
BmrFI CCNGG 3 cut(s) 348, 387, 665
BmrI ACTGGG 1 cut(s) 266
BmsI GCATC 1 cut(s) 896
BmuI ACTGGG 1 cut(s) 266
BoxI GACNNNNGTC 1 cut(s) 749
BpiI GAAGAC 2 cut(s) 268, 945
BplI GAGNNNNNCTC 2 cut(s) 773, 805
Bpu10I CCTNAGC 1 cut(s) 541
BpuMI CCSGG 2 cut(s) 387, 665
Bsa29I ATCGAT 1 cut(s) 561
BsaHI GRCGYC 3 cut(s) 336, 390, 774
BsaI GGTCTC 1 cut(s) 345
BsaJI CCNNGG 2 cut(s) 721, 747
BsaWI WCCGGW 2 cut(s) 136, 527
BsaXI ACNNNNNCTCC 4 cut(s) 162, 192, 500, 530
Bsc4I CCNNNNNNNGG 6 cut(s) 136, 188, 278, 314, 670, 727
Bse118I RCCGGY 1 cut(s) 236
Bse1I ACTGG 1 cut(s) 272
BseBI CCWGG 1 cut(s) 348
BseCI ATCGAT 1 cut(s) 561
BseDI CCNNGG 2 cut(s) 721, 747
BseLI CCNNNNNNNGG 6 cut(s) 136, 188, 278, 314, 670, 727
BseMII CTCAG 2 cut(s) 517, 555
BseNI ACTGG 1 cut(s) 272
BseRI GAGGAG 2 cut(s) 52, 841
BseSI GKGCMC 1 cut(s) 718
BseXI GCAGC 2 cut(s) 98, 639
BseYI CCCAGC 2 cut(s) 241, 405
BshFI GGCC 4 cut(s) 192, 228, 240, 647
BshNI GGYRCC 3 cut(s) 335, 389, 530
BshVI ATCGAT 1 cut(s) 561
BsiSI CCGG 5 cut(s) 137, 237, 386, 528, 665
BsiWI CGTACG 1 cut(s) 375
BslFI GGGAC 3 cut(s) 449, 521, 743
BslI CCNNNNNNNGG 6 cut(s) 136, 188, 278, 314, 670, 727
BsmAI GTCTC 2 cut(s) 345, 474
BsmBI CGTCTC 1 cut(s) 474
BsmFI GGGAC 3 cut(s) 449, 521, 743
BsnI GGCC 4 cut(s) 192, 228, 240, 647
Bso31I GGTCTC 1 cut(s) 345
Bsp1286I GDGCHC 2 cut(s) 718, 791
Bsp143I GATC 2 cut(s) 209, 562
Bsp19I CCATGG 1 cut(s) 747
BspACI CCGC 9 cut(s) 229, 247, 250, 302, 490, 630, 688, 696, 718
BspANI GGCC 4 cut(s) 192, 228, 240, 647
BspCNI CTCAG 2 cut(s) 516, 554
BspDI ATCGAT 1 cut(s) 561
BspHI TCATGA 1 cut(s) 196
BspLI GGNNCC 3 cut(s) 337, 391, 532
BspMI ACCTGC 2 cut(s) 20, 867
BspT107I GGYRCC 3 cut(s) 335, 389, 530
BspTNI GGTCTC 1 cut(s) 345
BsrFI RCCGGY 1 cut(s) 236
BsrI ACTGG 1 cut(s) 272
BssAI RCCGGY 1 cut(s) 236
BssECI CCNNGG 2 cut(s) 721, 747
BssMI GATC 2 cut(s) 209, 562
BssNI GRCGYC 3 cut(s) 336, 390, 774
BssSI CACGAG 1 cut(s) 566
BssT1I CCWWGG 2 cut(s) 721, 747
Bst2BI CACGAG 1 cut(s) 566
Bst2UI CCWGG 1 cut(s) 348
Bst4CI ACNGT 2 cut(s) 8, 894
Bst6I CTCTTC 3 cut(s) 70, 706, 818
BstACI GRCGYC 3 cut(s) 336, 390, 774
BstC8I GCNNGC 5 cut(s) 247, 316, 710, 714, 718
BstDEI CTNAG 2 cut(s) 503, 541
BstDSI CCRYGG 1 cut(s) 747
BstENI CCTNNNNNAGG 1 cut(s) 186
BstH2I RGCGCY 2 cut(s) 339, 393
BstHHI GCGC 2 cut(s) 338, 392
BstKTI GATC 2 cut(s) 212, 565
BstMAI GTCTC 2 cut(s) 345, 474
BstMBI GATC 2 cut(s) 209, 562
BstMWI GCNNNNNNNGC 3 cut(s) 237, 246, 551
BstNI CCWGG 1 cut(s) 348
BstNSI RCATGY 1 cut(s) 385
BstPAI GACNNNNGTC 1 cut(s) 749
BstSCI CCNGG 3 cut(s) 346, 385, 663
BstSLI GKGCMC 1 cut(s) 718
BstV1I GCAGC 2 cut(s) 98, 639
BstV2I GAAGAC 2 cut(s) 268, 945
Bsu15I ATCGAT 1 cut(s) 561
BsuI GTATCC 1 cut(s) 133
BsuRI GGCC 4 cut(s) 192, 228, 240, 647
BsuTUI ATCGAT 1 cut(s) 561
BtgI CCRYGG 1 cut(s) 747
BtsIMutI CAGTG 2 cut(s) 573, 890
BveI ACCTGC 2 cut(s) 20, 867
Cac8I GCNNGC 5 cut(s) 247, 316, 710, 714, 718
CaiI CAGNNNCTG 1 cut(s) 12
CciI TCATGA 1 cut(s) 196
CfoI GCGC 2 cut(s) 338, 392
Cfr10I RCCGGY 1 cut(s) 236
Cfr13I GGNCC 2 cut(s) 239, 685
ClaI ATCGAT 1 cut(s) 561
CseI GACGC 3 cut(s) 320, 587, 745
Csp6I GTAC 3 cut(s) 9, 376, 487
CviQI GTAC 3 cut(s) 9, 376, 487
DdeI CTNAG 2 cut(s) 503, 541
DinI GGCGCC 2 cut(s) 337, 391
DpnI GATC 2 cut(s) 211, 564
DpnII GATC 2 cut(s) 209, 562
DrdI GACNNNNNNGTC 1 cut(s) 554
DseDI GACNNNNNNGTC 1 cut(s) 554
Eam1104I CTCTTC 3 cut(s) 70, 706, 818
EarI CTCTTC 3 cut(s) 70, 706, 818
Eco130I CCWWGG 2 cut(s) 721, 747
Eco147I AGGCCT 2 cut(s) 192, 647
Eco24I GRGCYC 1 cut(s) 791
Eco31I GGTCTC 1 cut(s) 345
Eco32I GATATC 1 cut(s) 331
Eco47I GGWCC 1 cut(s) 685
Eco57I CTGAAG 1 cut(s) 725
EcoNI CCTNNNNNAGG 1 cut(s) 186
EcoRII CCWGG 1 cut(s) 346
EcoRV GATATC 1 cut(s) 331
EcoT14I CCWWGG 2 cut(s) 721, 747
EcoT38I GRGCYC 1 cut(s) 791
EgeI GGCGCC 2 cut(s) 337, 391
EheI GGCGCC 2 cut(s) 337, 391
ErhI CCWWGG 2 cut(s) 721, 747
Esp3I CGTCTC 1 cut(s) 474
FaqI GGGAC 3 cut(s) 449, 521, 743
FauI CCCGC 4 cut(s) 254, 309, 623, 725
Fnu4HI GCNGC 5 cut(s) 112, 229, 250, 628, 696
FriOI GRGCYC 1 cut(s) 791
Fsp4HI GCNGC 5 cut(s) 112, 229, 250, 628, 696
FspBI CTAG 2 cut(s) 224, 266
GlaI GCGC 2 cut(s) 337, 391
GluI GCNGC 5 cut(s) 112, 229, 250, 628, 696
GsaI CCCAGC 2 cut(s) 245, 409
HaeII RGCGCY 2 cut(s) 339, 393
HaeIII GGCC 4 cut(s) 192, 228, 240, 647
HapII CCGG 5 cut(s) 137, 237, 386, 528, 665
HgaI GACGC 3 cut(s) 320, 587, 745
HhaI GCGC 2 cut(s) 338, 392
Hin1I GRCGYC 3 cut(s) 336, 390, 774
Hin6I GCGC 2 cut(s) 336, 390
HinP1I GCGC 2 cut(s) 336, 390
HincII GTYRAC 1 cut(s) 622
HindII GTYRAC 1 cut(s) 622
HinfI GANTC 2 cut(s) 155, 640
HpaII CCGG 5 cut(s) 137, 237, 386, 528, 665
HphI GGTGA 1 cut(s) 206
Hpy166II GTNNAC 1 cut(s) 622
Hpy188I TCNGA 4 cut(s) 209, 293, 328, 744
Hpy188III TCNNGA 4 cut(s) 161, 197, 566, 760
Hpy8I GTNNAC 1 cut(s) 622
Hpy99I CGWCG 5 cut(s) 314, 376, 776, 779, 782
HpyAV CCTTC 3 cut(s) 203, 230, 658
HpyCH4III ACNGT 2 cut(s) 8, 894
HpyCH4IV ACGT 2 cut(s) 467, 774
HpyCH4V TGCA 3 cut(s) 4, 682, 887
HpyF10VI GCNNNNNNNGC 3 cut(s) 237, 246, 551
HpyF3I CTNAG 2 cut(s) 503, 541
HpySE526I ACGT 2 cut(s) 467, 774
Hsp92I GRCGYC 3 cut(s) 336, 390, 774
HspAI GCGC 2 cut(s) 336, 390
KasI GGCGCC 2 cut(s) 335, 389
Kzo9I GATC 2 cut(s) 209, 562
Lsp1109I GCAGC 2 cut(s) 98, 639
LweI GCATC 1 cut(s) 896
MaeI CTAG 2 cut(s) 224, 266
MaeII ACGT 2 cut(s) 467, 774
MaeIII GTNAC 1 cut(s) 571
MalI GATC 2 cut(s) 211, 564
MboI GATC 2 cut(s) 209, 562
MboII GAAGA 7 cut(s) 57, 268, 583, 643, 693, 835, 950
MhlI GDGCHC 2 cut(s) 718, 791
MluCI AATT 3 cut(s) 613, 922, 929
Mly113I GGCGCC 2 cut(s) 336, 390
MlyI GAGTC 1 cut(s) 649
MmeI TCCRAC 2 cut(s) 271, 684
MseI TTAA 1 cut(s) 921
MslI CAYNNNNRTG 1 cut(s) 892
MspA1I CMGCKG 1 cut(s) 630
MspI CCGG 5 cut(s) 137, 237, 386, 528, 665
MspR9I CCNGG 3 cut(s) 348, 387, 665
MvaI CCWGG 1 cut(s) 348
MwoI GCNNNNNNNGC 3 cut(s) 237, 246, 551
NarI GGCGCC 2 cut(s) 336, 390
NciI CCSGG 2 cut(s) 387, 665
NcoI CCATGG 1 cut(s) 747
NdeII GATC 2 cut(s) 209, 562
NlaIV GGNNCC 3 cut(s) 337, 391, 532
NmeAIII GCCGAG 2 cut(s) 381, 663
NmuCI GTSAC 1 cut(s) 571
NspI RCATGY 1 cut(s) 385
PagI TCATGA 1 cut(s) 196
PceI AGGCCT 2 cut(s) 192, 647
PcsI WCGNNNNNNNCGW 3 cut(s) 408, 558, 777
PfeI GAWTC 1 cut(s) 155
Pfl23II CGTACG 1 cut(s) 375
PflFI GACNNNGTC 2 cut(s) 466, 776
PkrI GCNGC 5 cut(s) 113, 230, 251, 629, 697
PleI GAGTC 1 cut(s) 648
PluTI GGCGCC 2 cut(s) 339, 393
PpsI GAGTC 1 cut(s) 648
PshAI GACNNNNGTC 1 cut(s) 749
Psp6I CCWGG 1 cut(s) 346
PspFI CCCAGC 2 cut(s) 241, 405
PspGI CCWGG 1 cut(s) 346
PspLI CGTACG 1 cut(s) 375
PspN4I GGNNCC 3 cut(s) 337, 391, 532
PspPI GGNCC 2 cut(s) 239, 685
PstNI CAGNNNCTG 1 cut(s) 12
PsyI GACNNNGTC 2 cut(s) 466, 776
RsaI GTAC 3 cut(s) 10, 377, 488
RsaNI GTAC 3 cut(s) 9, 376, 487
RseI CAYNNNNRTG 1 cut(s) 892
SaqAI TTAA 1 cut(s) 921
SatI GCNGC 5 cut(s) 112, 229, 250, 628, 696
Sau3AI GATC 2 cut(s) 209, 562
Sau96I GGNCC 2 cut(s) 239, 685
SchI GAGTC 1 cut(s) 649
ScrFI CCNGG 3 cut(s) 348, 387, 665
SduI GDGCHC 2 cut(s) 718, 791
SfaNI GCATC 1 cut(s) 896
SfoI GGCGCC 2 cut(s) 337, 391
SinI GGWCC 1 cut(s) 685
SmiMI CAYNNNNRTG 1 cut(s) 892
Sse9I AATT 3 cut(s) 613, 922, 929
SseBI AGGCCT 2 cut(s) 192, 647
SsiI CCGC 9 cut(s) 229, 247, 250, 302, 490, 630, 688, 696, 718
SspDI GGCGCC 2 cut(s) 335, 389
SspMI CTAG 2 cut(s) 224, 266
StuI AGGCCT 2 cut(s) 192, 647
StyD4I CCNGG 3 cut(s) 346, 385, 663
StyI CCWWGG 2 cut(s) 721, 747
TaaI ACNGT 2 cut(s) 8, 894
TaiI ACGT 2 cut(s) 470, 777
TaqI TCGA 3 cut(s) 477, 561, 780
TaqII GACCGA 1 cut(s) 144
TasI AATT 3 cut(s) 613, 922, 929
TauI GCSGC 3 cut(s) 231, 252, 698
TfiI GAWTC 1 cut(s) 155
Tru1I TTAA 1 cut(s) 921
Tru9I TTAA 1 cut(s) 921
TscAI CASTG 2 cut(s) 580, 897
TseFI GTSAC 1 cut(s) 571
TseI GCWGC 2 cut(s) 111, 627
Tsp45I GTSAC 1 cut(s) 571
TspDTI ATGAA 3 cut(s) 108, 168, 185
TspRI CASTG 2 cut(s) 580, 897
Tth111I GACNNNGTC 2 cut(s) 466, 776
VpaK11BI GGWCC 1 cut(s) 685
XagI CCTNNNNNAGG 1 cut(s) 186
XapI RAATTY 1 cut(s) 613
XceI RCATGY 1 cut(s) 385
XspI CTAG 2 cut(s) 224, 266
ZraI GACGTC 1 cut(s) 775
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.