AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040728.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040728.01.T01 MTR_7g096720 61.719 384 106 5 7 351 1 382 1.36e-154 439
MsG0780040728.01.T01 MTR_4g088925 58.146 356 110 8 27 351 34 381 2.14e-123 360
MsG0780040728.01.T01 MTR_8g085760 52.304 369 131 7 23 349 17 382 1.52e-119 350
MsG0780040728.01.T01 MTR_6g092570 41.322 363 149 12 23 347 12 348 1.46e-67 217
MsG0780040728.01.T01 MTR_5g079830 40.437 366 149 14 23 344 10 350 2.42e-60 199
MsG0780040728.01.T01 MTR_8g074640 35.342 365 177 10 12 330 1 352 4.76e-52 177
MsG0780040728.01.T01 MTR_2g041510 36.170 376 177 12 12 342 21 378 7.33e-51 174
MsG0780040728.01.T01 MTR_2g041510 36.170 376 177 12 12 342 1 358 7.53e-51 174
MsG0780040728.01.T01 MTR_8g074610 36.096 374 170 13 21 342 27 383 1.58e-50 173
MsG0780040728.01.T01 MTR_7g096760 82.979 94 15 1 198 290 1 94 1.66e-45 152
MsG0780040728.01.T01 MTR_4g125090 34.295 312 126 12 23 300 49 315 1.89e-36 134
MsG0780040728.01.T01 MTR_2g047180 23.947 380 209 11 21 343 6 362 6.27e-18 84.3
MsG0780040728.01.T01 MTR_3g029650 27.616 344 174 10 17 317 3 314 2.46e-16 80.9
MsG0780040728.01.T01 MTR_6g018390 24.548 387 197 16 21 343 7 362 4.72e-14 72.8
MsG0780040728.01.T01 MTR_3g029950 27.078 373 163 17 10 316 1 330 9.13e-14 72.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040728.01.T01 AT1G44080 29.969 327 198 7 21 330 7 319 5.26e-32 123
MsG0780040728.01.T01 AT1G65770 27.171 357 186 11 21 330 5 334 8.22e-32 123
MsG0780040728.01.T01 AT1G65740 27.684 354 200 9 21 330 5 346 6.15e-29 115
MsG0780040728.01.T01 AT3G25750 28.750 320 184 9 21 317 7 305 1.05e-28 114
MsG0780040728.01.T01 AT2G26160 27.697 343 195 11 21 329 7 330 9.39e-27 108
MsG0780040728.01.T01 AT3G25750 27.545 334 184 9 21 317 7 319 2.99e-26 107
MsG0780040728.01.T01 AT1G65760 26.124 356 173 9 17 317 3 323 1.20e-24 103
MsG0780040728.01.T01 AT4G35733 27.434 339 198 10 23 328 10 333 2.36e-23 99.8
MsG0780040728.01.T01 AT2G17030 28.150 373 185 14 21 333 5 354 1.05e-21 95.9
MsG0780040728.01.T01 AT2G17690 23.614 415 192 11 21 330 5 399 2.38e-21 94.7

Find 56 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTTATGTTGTGGATAAAA+TGG 0.170692 7:-81689345 MsG0780040728.01.T01:CDS
CATATCTTCCTGAAGAATTA+TGG 0.174102 7:-81689942 MsG0780040728.01.T01:CDS
ACTTCTTCTTGTTCTAATAA+AGG 0.211089 7:-81689730 MsG0780040728.01.T01:CDS
TCCACCATCATCCTTTAATA+TGG 0.252077 7:+81689409 None:intergenic
GGGTGATGTTTCGTTTGTTT+TGG 0.269127 7:-81689057 MsG0780040728.01.T01:CDS
ATGGTTAGATGTAAAAGATT+TGG 0.281291 7:-81689078 MsG0780040728.01.T01:CDS
TTTCAACTTGGAGAATTTAG+AGG 0.305854 7:-81688943 MsG0780040728.01.T01:CDS
CTTCTTCTTGTTCTAATAAA+GGG 0.306699 7:-81689729 MsG0780040728.01.T01:CDS
ATAATTTCCCATAATTCTTC+AGG 0.324466 7:+81689934 None:intergenic
TTGATCAAGAATGGGGTAAA+TGG 0.326226 7:-81689097 MsG0780040728.01.T01:CDS
TTCATCAAATTCAACACTTT+AGG 0.328588 7:+81689610 None:intergenic
AGACTCAAACATTGCATTGT+TGG 0.341865 7:-81689030 MsG0780040728.01.T01:CDS
TGGTTAGATGTAAAAGATTT+GGG 0.347718 7:-81689077 MsG0780040728.01.T01:CDS
TGGTTGAATGCGGTATATTT+TGG 0.350450 7:+81689777 None:intergenic
CAATGCTTTGTCTTTGAAGT+TGG 0.363091 7:-81689306 MsG0780040728.01.T01:CDS
TTAGAACAAGAAGAAGTTGA+TGG 0.363611 7:+81689736 None:intergenic
ATATCTTCCTGAAGAATTAT+GGG 0.363732 7:-81689941 MsG0780040728.01.T01:CDS
TCCGCAGTACTTGTAGTTCA+TGG 0.380067 7:-81689873 MsG0780040728.01.T01:CDS
CAGGACTTCTTGTTTCAACT+TGG 0.381282 7:-81688955 MsG0780040728.01.T01:CDS
TTTATAAGCTTGATCAAGAA+TGG 0.392244 7:-81689106 MsG0780040728.01.T01:CDS
GATGAATATGAATGACAAAA+AGG 0.393608 7:-81689977 MsG0780040728.01.T01:CDS
CTTTATGTTGTGGATAAAAT+GGG 0.396836 7:-81689344 MsG0780040728.01.T01:CDS
TCGTGAGAGAGAGGTGGAGG+AGG 0.431799 7:+81689838 None:intergenic
TTATAAGCTTGATCAAGAAT+GGG 0.450966 7:-81689105 MsG0780040728.01.T01:CDS
TGATGATATAATACTTTACA+AGG 0.467606 7:-81689372 MsG0780040728.01.T01:CDS
ATTTGTATATTGACGATGAA+AGG 0.475996 7:-81689172 MsG0780040728.01.T01:CDS
ATCAAAGAGATAAAATTTGA+AGG 0.482053 7:+81689675 None:intergenic
CAAATTGGGTCACATATTGA+AGG 0.498468 7:-81689144 MsG0780040728.01.T01:CDS
GTGTAGCTTTATCCTTCGAT+AGG 0.524566 7:+81689632 None:intergenic
CAAGGGACAACTTTATGTTG+TGG 0.530035 7:-81689354 MsG0780040728.01.T01:CDS
GTGACAGGATGGAACAAAGT+TGG 0.530217 7:+81688891 None:intergenic
AGGTCGTGAGAGAGAGGTGG+AGG 0.531646 7:+81689835 None:intergenic
AATACCATATTAAAGGATGA+TGG 0.535242 7:-81689413 MsG0780040728.01.T01:CDS
TTTGATGAACATTCGAGTTG+TGG 0.535981 7:-81689596 MsG0780040728.01.T01:CDS
CATATTGAAGGCTATTTGTG+TGG 0.549161 7:-81689132 MsG0780040728.01.T01:CDS
GACCTTCGCATTCCACATCA+AGG 0.560781 7:-81689817 MsG0780040728.01.T01:CDS
CTTCTTGTTCTAATAAAGGG+TGG 0.561460 7:-81689726 MsG0780040728.01.T01:CDS
AAACAATTAGTAGAGTCTGA+TGG 0.567913 7:-81689212 MsG0780040728.01.T01:CDS
GGTTCGTGATCATGCAATGA+TGG 0.577634 7:+81689757 None:intergenic
CAAGATTACTACGGATGTGA+AGG 0.582722 7:-81689005 MsG0780040728.01.T01:CDS
TCTACTTCTATTGTGAAGAC+AGG 0.586419 7:-81688974 MsG0780040728.01.T01:CDS
CAAATTAACTCGTGACAGGA+TGG 0.587347 7:+81688880 None:intergenic
CTTACAAATTAACTCGTGAC+AGG 0.596567 7:+81688876 None:intergenic
ATCCTTGATGTGGAATGCGA+AGG 0.602272 7:+81689815 None:intergenic
ATGCGAAGGTCGTGAGAGAG+AGG 0.604993 7:+81689829 None:intergenic
CGAAGGTCGTGAGAGAGAGG+TGG 0.605345 7:+81689832 None:intergenic
AGTAGAACAAATCCTTGATG+TGG 0.613692 7:+81689805 None:intergenic
TTGTTGGCTCAAGATTACTA+CGG 0.627281 7:-81689014 MsG0780040728.01.T01:CDS
TATAAGCTTGATCAAGAATG+GGG 0.627945 7:-81689104 MsG0780040728.01.T01:CDS
GATGATATAATACTTTACAA+GGG 0.643392 7:-81689371 MsG0780040728.01.T01:CDS
ACCATATTAAAGGATGATGG+TGG 0.644107 7:-81689410 MsG0780040728.01.T01:CDS
TAATAAGAGACTCCTATCGA+AGG 0.647154 7:-81689644 MsG0780040728.01.T01:CDS
GGATGGAACAAAGTTGGACA+AGG 0.682403 7:+81688897 None:intergenic
GTCTGATGGAAATCTCTATG+TGG 0.689360 7:-81689198 MsG0780040728.01.T01:CDS
GCCATGAACTACAAGTACTG+CGG 0.714603 7:+81689872 None:intergenic
CATGCAATGATGGTTGAATG+CGG 0.773749 7:+81689767 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATGTCATAATTTTGATTTT+CGG - Chr7:81689335-81689354 MsG0780040728.01.T01:CDS 15.0%
!! ACAGAAAAATACCATATTAA+AGG - Chr7:81689467-81689486 MsG0780040728.01.T01:intron 20.0%
!! ATCAAAGAGATAAAATTTGA+AGG + Chr7:81689215-81689234 None:intergenic 20.0%
!! GATGATATAATACTTTACAA+GGG - Chr7:81689516-81689535 MsG0780040728.01.T01:intron 20.0%
!! TGATGATATAATACTTTACA+AGG - Chr7:81689515-81689534 MsG0780040728.01.T01:intron 20.0%
! AATACCATATTAAAGGATGA+TGG - Chr7:81689474-81689493 MsG0780040728.01.T01:intron 25.0%
! ACTTCTTCTTGTTCTAATAA+AGG - Chr7:81689157-81689176 MsG0780040728.01.T01:CDS 25.0%
! ACTTTATGTTGTGGATAAAA+TGG - Chr7:81689542-81689561 MsG0780040728.01.T01:CDS 25.0%
! ATAATTTCCCATAATTCTTC+AGG + Chr7:81688956-81688975 None:intergenic 25.0%
! ATATCTTCCTGAAGAATTAT+GGG - Chr7:81688946-81688965 MsG0780040728.01.T01:CDS 25.0%
! ATGGTTAGATGTAAAAGATT+TGG - Chr7:81689809-81689828 MsG0780040728.01.T01:CDS 25.0%
! ATTTGTATATTGACGATGAA+AGG - Chr7:81689715-81689734 MsG0780040728.01.T01:CDS 25.0%
! CTTCTTCTTGTTCTAATAAA+GGG - Chr7:81689158-81689177 MsG0780040728.01.T01:CDS 25.0%
! CTTTATGTTGTGGATAAAAT+GGG - Chr7:81689543-81689562 MsG0780040728.01.T01:CDS 25.0%
! GATGAATATGAATGACAAAA+AGG - Chr7:81688910-81688929 MsG0780040728.01.T01:CDS 25.0%
! TAAAAAGAGTAATATCTGGA+AGG - Chr7:81689635-81689654 MsG0780040728.01.T01:CDS 25.0%
! TGGTTAGATGTAAAAGATTT+GGG - Chr7:81689810-81689829 MsG0780040728.01.T01:CDS 25.0%
! TTATAAGCTTGATCAAGAAT+GGG - Chr7:81689782-81689801 MsG0780040728.01.T01:CDS 25.0%
! TTCATCAAATTCAACACTTT+AGG + Chr7:81689280-81689299 None:intergenic 25.0%
! TTTATAAGCTTGATCAAGAA+TGG - Chr7:81689781-81689800 MsG0780040728.01.T01:CDS 25.0%
!! ATAAAATGGGAACAATTTTC+TGG - Chr7:81689556-81689575 MsG0780040728.01.T01:CDS 25.0%
!! GATGAAAGGTTTTACAAATT+GGG - Chr7:81689729-81689748 MsG0780040728.01.T01:CDS 25.0%
!!! AAGTTGAAAGTGTCTAATAT+TGG - Chr7:81689441-81689460 MsG0780040728.01.T01:intron 25.0%
AAACAATTAGTAGAGTCTGA+TGG - Chr7:81689675-81689694 MsG0780040728.01.T01:CDS 30.0%
CATATCTTCCTGAAGAATTA+TGG - Chr7:81688945-81688964 MsG0780040728.01.T01:CDS 30.0%
GTGGTAAAAAGAGTAATATC+TGG - Chr7:81689631-81689650 MsG0780040728.01.T01:CDS 30.0%
TATAAGCTTGATCAAGAATG+GGG - Chr7:81689783-81689802 MsG0780040728.01.T01:CDS 30.0%
TTAGAACAAGAAGAAGTTGA+TGG + Chr7:81689154-81689173 None:intergenic 30.0%
TTTCAACTTGGAGAATTTAG+AGG - Chr7:81689944-81689963 MsG0780040728.01.T01:CDS 30.0%
! CGATGAAAGGTTTTACAAAT+TGG - Chr7:81689728-81689747 MsG0780040728.01.T01:CDS 30.0%
!!! AGTAATCTTGTTTTCTGTTG+AGG - Chr7:81689384-81689403 MsG0780040728.01.T01:CDS 30.0%
!!! GTAATCTTGTTTTCTGTTGA+GGG - Chr7:81689385-81689404 MsG0780040728.01.T01:CDS 30.0%
!!! TTACCACAACAGAAGTTTTT+TGG + Chr7:81689618-81689637 None:intergenic 30.0%
AGACTCAAACATTGCATTGT+TGG - Chr7:81689857-81689876 MsG0780040728.01.T01:CDS 35.0%
AGTAGAACAAATCCTTGATG+TGG + Chr7:81689085-81689104 None:intergenic 35.0%
CAAATTGGGTCACATATTGA+AGG - Chr7:81689743-81689762 MsG0780040728.01.T01:CDS 35.0%
CATATTGAAGGCTATTTGTG+TGG - Chr7:81689755-81689774 MsG0780040728.01.T01:CDS 35.0%
CTTCTTGTTCTAATAAAGGG+TGG - Chr7:81689161-81689180 MsG0780040728.01.T01:CDS 35.0%
TAATAAGAGACTCCTATCGA+AGG - Chr7:81689243-81689262 MsG0780040728.01.T01:CDS 35.0%
TCACCAAAAAACTTCTGTTG+TGG - Chr7:81689612-81689631 MsG0780040728.01.T01:CDS 35.0%
TCCACCATCATCCTTTAATA+TGG + Chr7:81689481-81689500 None:intergenic 35.0%
TCTACTTCTATTGTGAAGAC+AGG - Chr7:81689913-81689932 MsG0780040728.01.T01:CDS 35.0%
TTGATCAAGAATGGGGTAAA+TGG - Chr7:81689790-81689809 MsG0780040728.01.T01:CDS 35.0%
! ACCATATTAAAGGATGATGG+TGG - Chr7:81689477-81689496 MsG0780040728.01.T01:intron 35.0%
! GATTTTCGGTTAAAACGTGT+TGG - Chr7:81689349-81689368 MsG0780040728.01.T01:CDS 35.0%
! GTGGCTCATTAAAGTTTTTC+AGG - Chr7:81689180-81689199 MsG0780040728.01.T01:CDS 35.0%
! TGGTTGAATGCGGTATATTT+TGG + Chr7:81689113-81689132 None:intergenic 35.0%
!! CAATGCTTTGTCTTTGAAGT+TGG - Chr7:81689581-81689600 MsG0780040728.01.T01:CDS 35.0%
!! GGTGATGTTTCGTTTGTTTT+GGG - Chr7:81689831-81689850 MsG0780040728.01.T01:CDS 35.0%
!! TTGTTGGCTCAAGATTACTA+CGG - Chr7:81689873-81689892 MsG0780040728.01.T01:CDS 35.0%
!! TTTGATGAACATTCGAGTTG+TGG - Chr7:81689291-81689310 MsG0780040728.01.T01:CDS 35.0%
!!! CTAAGCCAGCTAACATTTTT+TGG - Chr7:81689967-81689986 MsG0780040728.01.T01:CDS 35.0%
!!! GAATGCGGTATATTTTGGTT+TGG + Chr7:81689108-81689127 None:intergenic 35.0%
CAAGATTACTACGGATGTGA+AGG - Chr7:81689882-81689901 MsG0780040728.01.T01:CDS 40.0%
CAAGGCCAAAAAATGTTAGC+TGG + Chr7:81689975-81689994 None:intergenic 40.0%
CAAGGGACAACTTTATGTTG+TGG - Chr7:81689533-81689552 MsG0780040728.01.T01:CDS 40.0%
CATGCAATGATGGTTGAATG+CGG + Chr7:81689123-81689142 None:intergenic 40.0%
GTCTGATGGAAATCTCTATG+TGG - Chr7:81689689-81689708 MsG0780040728.01.T01:CDS 40.0%
! CAGGACTTCTTGTTTCAACT+TGG - Chr7:81689932-81689951 MsG0780040728.01.T01:CDS 40.0%
! GGGTGATGTTTCGTTTGTTT+TGG - Chr7:81689830-81689849 MsG0780040728.01.T01:CDS 40.0%
!! GTGTAGCTTTATCCTTCGAT+AGG + Chr7:81689258-81689277 None:intergenic 40.0%
ATCCTTGATGTGGAATGCGA+AGG + Chr7:81689075-81689094 None:intergenic 45.0%
GGATGGAACAAAGTTGGACA+AGG + Chr7:81689993-81690012 None:intergenic 45.0%
GGTTCGTGATCATGCAATGA+TGG + Chr7:81689133-81689152 None:intergenic 45.0%
GTGACAGGATGGAACAAAGT+TGG + Chr7:81689999-81690018 None:intergenic 45.0%
TCCGCAGTACTTGTAGTTCA+TGG - Chr7:81689014-81689033 MsG0780040728.01.T01:CDS 45.0%
! GCCATGAACTACAAGTACTG+CGG + Chr7:81689018-81689037 None:intergenic 45.0%
GACCTTCGCATTCCACATCA+AGG - Chr7:81689070-81689089 MsG0780040728.01.T01:CDS 50.0%
ATGCGAAGGTCGTGAGAGAG+AGG + Chr7:81689061-81689080 None:intergenic 55.0%
TTCTGTTGAGGGTCGTCGCA+TGG - Chr7:81689396-81689415 MsG0780040728.01.T01:CDS 55.0%
AGGTCGTGAGAGAGAGGTGG+AGG + Chr7:81689055-81689074 None:intergenic 60.0%
CGAAGGTCGTGAGAGAGAGG+TGG + Chr7:81689058-81689077 None:intergenic 60.0%
TCGTGAGAGAGAGGTGGAGG+AGG + Chr7:81689052-81689071 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 81688884 81690025 81688884 ID=MsG0780040728.01;Name=MsG0780040728.01
Chr7 mRNA 81688884 81690025 81688884 ID=MsG0780040728.01.T01;Parent=MsG0780040728.01;Name=MsG0780040728.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|351
Chr7 exon 81689525 81690025 81689525 ID=MsG0780040728.01.T01:exon:38176;Parent=MsG0780040728.01.T01
Chr7 exon 81688884 81689438 81688884 ID=MsG0780040728.01.T01:exon:38175;Parent=MsG0780040728.01.T01
Chr7 CDS 81689525 81690025 81689525 ID=MsG0780040728.01.T01:cds;Parent=MsG0780040728.01.T01
Chr7 CDS 81688884 81689438 81688884 ID=MsG0780040728.01.T01:cds;Parent=MsG0780040728.01.T01
Gene Sequence

>MsG0780040728.01.T01

ATGGGAAAAAAATGTGTTGTGAATGTGATGAATATGAATGACAAAAAGGACTGTTCAAACTCATATCTTCCTGAAGAATTATGGGAAATTATATTAAAAAAACTGAAAACTACACTTGATGTTGTTCGATTCCGCAGTACTTGTAGTTCATGGCACTCTTTTCTTCCTCCTCCACCTCTCTCTCACGACCTTCGCATTCCACATCAAGGATTTGTTCTACTCCAAACCAAAATATACCGCATTCAACCATCATTGCATGATCACGAACCATCAACTTCTTCTTGTTCTAATAAAGGGTGGCTCATTAAAGTTTTTCAGGATTCAAATTCCTTCAAATTTTATCTCTTTGATCTTGTCACTAATAAGAGACTCCTATCGAAGGATAAAGCTACACCTAAAGTGTTGAATTTGATGAACATTCGAGTTGTGGAGTTGTTTGAACTATACACTCTATGTCATAATTTTGATTTTCGGTTAAAACGTGTTGGTAATGTTCGCAAAAAAAATACCATATTAAAGGATGATGGTGGAGAAAACAAGTATTTTGATGATATAATACTTTACAAGGGACAACTTTATGTTGTGGATAAAATGGGAACAATTTTCTGGATCAATGCTTTGTCTTTGAAGTTGGTTCAATTTTCACCAAAAAACTTCTGTTGTGGTAAAAAGAGTAATATCTGGAAGGTTTCTAGTACATACACTAAACAATTAGTAGAGTCTGATGGAAATCTCTATGTGGTTGATTTGTATATTGACGATGAAAGGTTTTACAAATTGGGTCACATATTGAAGGCTATTTGTGTGGAAGTTTATAAGCTTGATCAAGAATGGGGTAAATGGTTAGATGTAAAAGATTTGGGTGATGTTTCGTTTGTTTTGGGTAAAGACTCAAACATTGCATTGTTGGCTCAAGATTACTACGGATGTGAAGGAAATTGCATCTACTTCTATTGTGAAGACAGGACTTCTTGTTTCAACTTGGAGAATTTAGAGGCTAAGCCAGCTAACATTTTTTGGCCTTGTCCAACTTTGTTCCATCCTGTCACGAGTTAA
Protein sequence

>MsG0780040728.01.T01

MGKKCVVNVMNMNDKKDCSNSYLPEELWEIILKKLKTTLDVVRFRSTCSSWHSFLPPPPLSHDLRIPHQGFVLLQTKIYRIQPSLHDHEPSTSSCSNKGWLIKVFQDSNSFKFYLFDLVTNKRLLSKDKATPKVLNLMNIRVVELFELYTLCHNFDFRLKRVGNVRKKNTILKDDGGENKYFDDIILYKGQLYVVDKMGTIFWINALSLKLVQFSPKNFCCGKKSNIWKVSSTYTKQLVESDGNLYVVDLYIDDERFYKLGHILKAICVEVYKLDQEWGKWLDVKDLGDVSFVLGKDSNIALLAQDYYGCEGNCIYFYCEDRTSCFNLENLEAKPANIFWPCPTLFHPVTS*