AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046255.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046255.01.T01 MTR_4g104240 86.765 68 9 0 1 68 294 361 1.50e-38 132
MsG0880046255.01.T01 MTR_7g111780 52.632 57 27 0 1 57 184 240 1.38e-16 72.4
MsG0880046255.01.T01 MTR_7g111780 52.632 57 27 0 1 57 283 339 3.34e-16 72.4
MsG0880046255.01.T01 MTR_2g015630 53.333 60 26 2 2 61 296 353 5.27e-15 68.9
MsG0880046255.01.T01 MTR_2g015650 52.542 59 26 2 3 60 293 350 8.73e-15 68.2
MsG0880046255.01.T01 MTR_3g463960 50.000 64 27 2 2 61 303 365 1.83e-14 67.4
MsG0880046255.01.T01 MTR_3g463950 50.000 64 27 2 2 61 303 365 1.83e-14 67.4
MsG0880046255.01.T01 MTR_3g463970 50.000 64 27 2 2 61 303 365 1.83e-14 67.4
MsG0880046255.01.T01 MTR_3g463940 50.000 64 27 2 2 61 303 365 1.83e-14 67.4
MsG0880046255.01.T01 MTR_3g463930 50.000 64 27 2 2 61 310 372 2.06e-14 67.4
MsG0880046255.01.T01 MTR_2g015590 48.333 60 29 2 2 60 293 351 1.47e-13 64.7
MsG0880046255.01.T01 MTR_2g015580 53.333 60 25 3 2 61 311 367 2.33e-13 64.3
MsG0880046255.01.T01 MTR_8g028160 43.333 60 34 0 2 61 302 361 3.28e-13 63.9
MsG0880046255.01.T01 MTR_2g015670 49.153 59 28 2 3 60 279 336 4.01e-13 63.5
MsG0880046255.01.T01 MTR_3g438030 49.206 63 26 3 2 60 287 347 1.91e-12 61.6
MsG0880046255.01.T01 MTR_3g069780 49.206 63 26 3 2 60 287 347 2.22e-12 61.6
MsG0880046255.01.T01 MTR_7g113860 43.750 64 28 1 1 56 285 348 8.73e-12 59.7
MsG0880046255.01.T01 MTR_7g113860 43.750 64 28 1 1 56 217 280 3.14e-11 58.2
MsG0880046255.01.T01 MTR_3g069520 41.791 67 33 2 4 66 287 351 3.30e-11 58.2
MsG0880046255.01.T01 MTR_7g113860 43.750 64 28 1 1 56 291 354 4.45e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046255.01.T01 AT3G48460 65.672 67 22 1 1 67 296 361 7.85e-25 95.9
MsG0880046255.01.T01 AT1G28660 50.000 60 28 2 2 60 296 354 2.79e-15 69.7
MsG0880046255.01.T01 AT1G28660 50.000 60 28 2 2 60 297 355 2.80e-15 69.7
MsG0880046255.01.T01 AT1G28610 53.333 60 26 2 2 60 292 350 3.48e-15 69.7
MsG0880046255.01.T01 AT1G28650 50.000 60 28 2 2 60 299 357 5.24e-15 68.9
MsG0880046255.01.T01 AT1G28670 50.000 60 28 2 2 60 298 356 6.36e-15 68.9
MsG0880046255.01.T01 AT2G27360 50.820 61 28 2 1 60 295 354 8.55e-15 68.6
MsG0880046255.01.T01 AT5G45910 49.153 59 29 1 3 60 297 355 1.01e-14 68.2
MsG0880046255.01.T01 AT1G28580 50.820 61 28 2 2 61 218 277 1.36e-14 67.4
MsG0880046255.01.T01 AT1G31550 48.333 60 29 2 2 60 297 355 1.60e-14 67.8
MsG0880046255.01.T01 AT1G28580 50.820 61 28 2 2 61 299 358 1.85e-14 67.4
MsG0880046255.01.T01 AT1G28640 48.333 60 29 2 2 60 297 355 5.60e-14 66.2
MsG0880046255.01.T01 AT1G56670 46.429 56 30 0 1 56 290 345 6.83e-14 65.9
MsG0880046255.01.T01 AT1G09390 44.643 56 31 0 1 56 287 342 1.14e-13 65.1
MsG0880046255.01.T01 AT1G28600 50.000 60 28 2 2 60 292 350 2.76e-13 64.3
MsG0880046255.01.T01 AT3G05180 38.372 86 41 3 3 76 294 379 2.08e-12 61.6
MsG0880046255.01.T01 AT3G62280 50.980 51 25 0 7 57 290 340 2.37e-12 61.6
MsG0880046255.01.T01 AT1G28590 44.262 61 32 2 2 61 298 357 3.68e-12 60.8
MsG0880046255.01.T01 AT1G31550 47.917 48 24 1 13 60 306 352 2.04e-11 58.9
MsG0880046255.01.T01 AT1G54790 40.000 65 31 1 1 57 287 351 9.38e-11 57.0

Find 29 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCCTTCTCAGTATATTAAT+TGG 0.148489 8:-71111800 MsG0880046255.01.T01:CDS
TGTTTACAAAAGATATATTT+TGG 0.186057 8:-71111440 MsG0880046255.01.T01:three_prime_UTR
TCTTGGTCCTTGAAACTGTA+AGG 0.398353 8:-71111630 MsG0880046255.01.T01:three_prime_UTR
CCCTTCTCAGTATATTAATT+GGG 0.408026 8:-71111799 MsG0880046255.01.T01:CDS
GTTTCTAATATGTTTCTTCA+AGG 0.411183 8:-71111742 MsG0880046255.01.T01:CDS
ATGAAGAATCCAAGCAAGTA+TGG 0.412451 8:-71111924 MsG0880046255.01.T01:CDS
AGTGTTATTTCGTAAATCAA+TGG 0.414113 8:+71111592 None:intergenic
GACAGACCCTTACAGTTTCA+AGG 0.415341 8:+71111623 None:intergenic
TTCAGTGTCTGCTGTGGATC+AGG 0.434569 8:-71111888 MsG0880046255.01.T01:CDS
TCTTTGAATCCATACTTGCT+TGG 0.457241 8:+71111915 None:intergenic
GCAAACACAGTAAAGTTGTA+AGG 0.470362 8:+71111858 None:intergenic
TGCAGTATAAGAGACTATTA+TGG 0.479296 8:-71111497 MsG0880046255.01.T01:three_prime_UTR
CTAGTGCAGACAGTAGCATT+AGG 0.483410 8:+71111822 None:intergenic
TTTACTGTGTTTGCTACTTG+TGG 0.486375 8:-71111849 MsG0880046255.01.T01:CDS
AAACAACTTATACATAGCTT+CGG 0.487091 8:+71111761 None:intergenic
CCCAATTAATATACTGAGAA+GGG 0.489096 8:+71111799 None:intergenic
CAATAATGTAGGTCTTTCCT+CGG 0.497338 8:-71111473 MsG0880046255.01.T01:three_prime_UTR
ACTATTATGGTCAATAATGT+AGG 0.506275 8:-71111484 MsG0880046255.01.T01:three_prime_UTR
TCTCAGTATATTAATTGGGA+TGG 0.526757 8:-71111795 MsG0880046255.01.T01:CDS
TCCCAATTAATATACTGAGA+AGG 0.543751 8:+71111798 None:intergenic
GGTCTGACATTGTTCAAATG+AGG 0.549604 8:+71111563 None:intergenic
GAGAGACATGGCTGAATGCA+TGG 0.564354 8:-71111676 MsG0880046255.01.T01:CDS
AAAATAGAGGGCTAAAATGA+GGG 0.581309 8:+71111542 None:intergenic
CTTGGTCCTTGAAACTGTAA+GGG 0.586857 8:-71111629 MsG0880046255.01.T01:three_prime_UTR
GTCTGACATTGTTCAAATGA+GGG 0.593856 8:+71111564 None:intergenic
TTGGAAAACAAAGAGAGACA+TGG 0.662787 8:-71111688 MsG0880046255.01.T01:CDS
AACACAGTAAAGTTGTAAGG+AGG 0.674046 8:+71111861 None:intergenic
GATATGTTCAGTGTCTGCTG+TGG 0.678417 8:-71111894 MsG0880046255.01.T01:CDS
GTAAACATCGATCAAAACCG+AGG 0.682008 8:+71111456 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAATAGTAGTATAATCT+TGG - Chr8:71111656-71111675 MsG0880046255.01.T01:CDS 15.0%
!! AGATAAAATCTTAAAAATAG+AGG + Chr8:71111777-71111796 None:intergenic 15.0%
!! GATAAAATCTTAAAAATAGA+GGG + Chr8:71111776-71111795 None:intergenic 15.0%
!!! AAGATTATACTACTATTTTT+TGG + Chr8:71111657-71111676 None:intergenic 15.0%
!!! AGATTATACTACTATTTTTT+GGG + Chr8:71111656-71111675 None:intergenic 15.0%
!!! TGTTTACAAAAGATATATTT+TGG - Chr8:71111863-71111882 MsG0880046255.01.T01:CDS 15.0%
!!! ATTATACTACTATTTTTTGG+GGG + Chr8:71111654-71111673 None:intergenic 20.0%
!!! GATTATACTACTATTTTTTG+GGG + Chr8:71111655-71111674 None:intergenic 20.0%
!!! TTTTCCAACAAAAAATCAAA+TGG + Chr8:71111603-71111622 None:intergenic 20.0%
! AAACAACTTATACATAGCTT+CGG + Chr8:71111545-71111564 None:intergenic 25.0%
! ACTATTATGGTCAATAATGT+AGG - Chr8:71111819-71111838 MsG0880046255.01.T01:CDS 25.0%
! GTTTCTAATATGTTTCTTCA+AGG - Chr8:71111561-71111580 MsG0880046255.01.T01:three_prime_UTR 25.0%
!!! AGTGTTATTTCGTAAATCAA+TGG + Chr8:71111714-71111733 None:intergenic 25.0%
!!! ATATATTTTGGTGAAGTGAA+GGG - Chr8:71111875-71111894 MsG0880046255.01.T01:CDS 25.0%
AAAAATAGAGGGCTAAAATG+AGG + Chr8:71111765-71111784 None:intergenic 30.0%
AAAATAGAGGGCTAAAATGA+GGG + Chr8:71111764-71111783 None:intergenic 30.0%
ACAAAAAATCAAATGGAGGT+TGG + Chr8:71111596-71111615 None:intergenic 30.0%
CCCAATTAATATACTGAGAA+GGG + Chr8:71111507-71111526 None:intergenic 30.0%
CCCTTCTCAGTATATTAATT+GGG - Chr8:71111504-71111523 MsG0880046255.01.T01:three_prime_UTR 30.0%
TCCAACAAAAAATCAAATGG+AGG + Chr8:71111600-71111619 None:intergenic 30.0%
TCCCAATTAATATACTGAGA+AGG + Chr8:71111508-71111527 None:intergenic 30.0%
TCTCAGTATATTAATTGGGA+TGG - Chr8:71111508-71111527 MsG0880046255.01.T01:three_prime_UTR 30.0%
TGCAGTATAAGAGACTATTA+TGG - Chr8:71111806-71111825 MsG0880046255.01.T01:CDS 30.0%
!!! ACCTCCATTTGATTTTTTGT+TGG - Chr8:71111596-71111615 MsG0880046255.01.T01:three_prime_UTR 30.0%
!!! GATATATTTTGGTGAAGTGA+AGG - Chr8:71111874-71111893 MsG0880046255.01.T01:CDS 30.0%
AACACAGTAAAGTTGTAAGG+AGG + Chr8:71111445-71111464 None:intergenic 35.0%
ATGAAGAATCCAAGCAAGTA+TGG - Chr8:71111379-71111398 MsG0880046255.01.T01:three_prime_UTR 35.0%
CAATAATGTAGGTCTTTCCT+CGG - Chr8:71111830-71111849 MsG0880046255.01.T01:CDS 35.0%
GCAAACACAGTAAAGTTGTA+AGG + Chr8:71111448-71111467 None:intergenic 35.0%
GCCCTTCTCAGTATATTAAT+TGG - Chr8:71111503-71111522 MsG0880046255.01.T01:three_prime_UTR 35.0%
GTCTGACATTGTTCAAATGA+GGG + Chr8:71111742-71111761 None:intergenic 35.0%
TCTTTGAATCCATACTTGCT+TGG + Chr8:71111391-71111410 None:intergenic 35.0%
TTGGAAAACAAAGAGAGACA+TGG - Chr8:71111615-71111634 MsG0880046255.01.T01:three_prime_UTR 35.0%
! TTTACTGTGTTTGCTACTTG+TGG - Chr8:71111454-71111473 MsG0880046255.01.T01:three_prime_UTR 35.0%
CTTGGTCCTTGAAACTGTAA+GGG - Chr8:71111674-71111693 MsG0880046255.01.T01:CDS 40.0%
GGTCTGACATTGTTCAAATG+AGG + Chr8:71111743-71111762 None:intergenic 40.0%
GTAAACATCGATCAAAACCG+AGG + Chr8:71111850-71111869 None:intergenic 40.0%
TCTTGGTCCTTGAAACTGTA+AGG - Chr8:71111673-71111692 MsG0880046255.01.T01:CDS 40.0%
CTAGTGCAGACAGTAGCATT+AGG + Chr8:71111484-71111503 None:intergenic 45.0%
GACAGACCCTTACAGTTTCA+AGG + Chr8:71111683-71111702 None:intergenic 45.0%
GATATGTTCAGTGTCTGCTG+TGG - Chr8:71111409-71111428 MsG0880046255.01.T01:three_prime_UTR 45.0%
GAGAGACATGGCTGAATGCA+TGG - Chr8:71111627-71111646 MsG0880046255.01.T01:three_prime_UTR 50.0%
TTCAGTGTCTGCTGTGGATC+AGG - Chr8:71111415-71111434 MsG0880046255.01.T01:three_prime_UTR 50.0%
Chromosome Type Strat End Strand Name
Chr8 gene 71111379 71111946 71111379 ID=MsG0880046255.01;Name=MsG0880046255.01
Chr8 mRNA 71111379 71111946 71111379 ID=MsG0880046255.01.T01;Parent=MsG0880046255.01;Name=MsG0880046255.01.T01;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|0|1|274|97
Chr8 exon 71111379 71111946 71111379 ID=MsG0880046255.01.T01:exon:15458;Parent=MsG0880046255.01.T01
Chr8 CDS 71111653 71111946 71111653 ID=MsG0880046255.01.T01:cds;Parent=MsG0880046255.01.T01
Chr8 three_prime_UTR 71111379 71111652 71111379 ID=MsG0880046255.01.T01:three_prime_utr;Parent=MsG0880046255.01.T01
Chr8 mRNA 71111757 71111840 71111757 ID=MsG0880046255.01.T02;Parent=MsG0880046255.01;Name=MsG0880046255.01.T02;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|0|1|0|27
Chr8 exon 71111757 71111840 71111757 ID=MsG0880046255.01.T02:exon:15459;Parent=MsG0880046255.01.T02
Chr8 CDS 71111757 71111840 71111757 ID=MsG0880046255.01.T02:cds;Parent=MsG0880046255.01.T02
Gene Sequence

>MsG0880046255.01.T01

ATGAAGAATCCAAGCAAGTATGGATTCAAAGATATGTTCAGTGTCTGCTGTGGATCAGGAGAACCTCCTTACAACTTTACTGTGTTTGCTACTTGTGGTACACCTAATGCTACTGTCTGCACTAGCCCTTCTCAGTATATTAATTGGGATGGTGTTCATCTTACCGAAGCTATGTATAAGTTGTTTCTAATATGTTTCTTCAAGGAAATTTCAGCCAACCTCCATTTGATTTTTTGTTGGAAAACAAAGAGAGACATGGCTGAATGCATGGTCCCCCAAAAAATAGTAGTATAA

>MsG0880046255.01.T02

ATGCTACTGTCTGCACTAGCCCTTCTCAGTATATTAATTGGGATGGTGTTCATCTTACCGAAGCTATGTATAAGTTGTTTCTAA

Protein sequence

>MsG0880046255.01.T01

MKNPSKYGFKDMFSVCCGSGEPPYNFTVFATCGTPNATVCTSPSQYINWDGVHLTEAMYKLFLICFFKEISANLHLIFCWKTKRDMAECMVPQKIVV*

>MsG0880046255.01.T02

MLLSALALLSILIGMVFILPKLCISCF*