AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025876.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025876.01.T01 MTR_5g036410 96.591 176 6 0 26 201 193 368 9.55e-121 347
MsG0580025876.01.T01 MTR_8g062770 70.186 161 48 0 28 188 195 355 8.74e-76 232
MsG0580025876.01.T01 MTR_5g012680 56.250 176 70 3 28 201 184 354 8.23e-62 196
MsG0580025876.01.T01 MTR_8g005900 57.143 161 67 1 28 188 178 336 3.74e-61 194
MsG0580025876.01.T01 MTR_6g008480 41.447 152 67 2 27 158 180 329 5.39e-31 115
MsG0580025876.01.T01 MTR_5g036080 48.175 137 60 6 27 161 194 321 2.61e-28 108
MsG0580025876.01.T01 MTR_5g036083 38.372 172 71 5 6 176 145 282 1.97e-24 98.2
MsG0580025876.01.T01 MTR_5g036087 34.500 200 112 4 6 201 164 348 7.41e-22 91.7
MsG0580025876.01.T01 MTR_5g036290 35.417 192 101 7 14 201 196 368 2.73e-21 90.1
MsG0580025876.01.T01 MTR_5g036270 38.776 147 80 5 27 163 167 313 3.79e-20 86.7
MsG0580025876.01.T01 MTR_5g036093 35.912 181 95 7 27 201 147 312 1.14e-19 85.1
MsG0580025876.01.T01 MTR_5g036360 36.667 150 78 4 14 160 186 321 2.61e-19 84.7
MsG0580025876.01.T01 MTR_5g036310 35.366 164 91 6 42 201 157 309 1.59e-15 73.6
MsG0580025876.01.T02 MTR_5g036410 95.652 69 3 0 1 69 300 368 8.19e-41 136
MsG0580025876.01.T02 MTR_8g062770 53.571 56 26 0 1 56 300 355 2.62e-13 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025876.01.T01 AT1G70170 67.808 146 46 1 28 172 192 337 3.38e-66 208
MsG0580025876.01.T01 AT2G45040 64.493 138 47 1 28 165 167 302 2.41e-60 192
MsG0580025876.01.T01 AT1G24140 58.065 155 63 1 28 180 196 350 2.08e-59 191
MsG0580025876.01.T01 AT4G16640 54.913 173 74 2 27 199 188 356 6.96e-58 186
MsG0580025876.01.T01 AT1G59970 57.962 157 63 2 27 180 179 335 5.88e-52 171
MsG0580025876.01.T02 AT1G70170 60.000 40 16 0 1 40 298 337 1.05e-11 58.5

Find 39 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGAAATAGGTCATTTATT+AGG 0.161352 5:-25732639 MsG0580025876.01.T01:CDS
CAAGGGATTCAGATGCTTTA+TGG 0.164417 5:-25732528 MsG0580025876.01.T01:CDS
AGTTCATCAGATATTAAAAT+AGG 0.204054 5:-25732843 MsG0580025876.01.T01:CDS
GTAGTTGTCCCAGTAAAATT+AGG 0.215410 5:+25732498 None:intergenic
ATGAAATAGGTCATTTATTA+GGG 0.288245 5:-25732638 MsG0580025876.01.T01:CDS
AAGGGATTCAGATGCTTTAT+GGG 0.334917 5:-25732527 MsG0580025876.01.T01:CDS
AGGGATAGAGAATCTAGTTT+TGG 0.345074 5:-25732465 MsG0580025876.01.T01:CDS
GTTCATCAGATATTAAAATA+GGG 0.348740 5:-25732842 MsG0580025876.01.T01:CDS
ATAGGTCATTTATTAGGGTT+AGG 0.349255 5:-25732633 MsG0580025876.01.T01:CDS
TCTTTGGTGTTTCTTGGGTT+TGG 0.360778 5:-25732414 MsG0580025876.01.T01:CDS
TAGTTGTCCCAGTAAAATTA+GGG 0.403688 5:+25732499 None:intergenic
TTGCAAACGCGTTTAATCAA+TGG 0.405880 5:-25732935 MsG0580025876.01.T01:CDS
TCTGTTGCGGTTCATGAAAT+AGG 0.406415 5:-25732651 MsG0580025876.01.T01:CDS
GAAGCATTTGACGGAGTCCT+TGG 0.447406 5:-25732792 MsG0580025876.01.T01:CDS
AAGTAAACGCGTTTAATCAA+TGG 0.452002 5:-25732908 MsG0580025876.01.T01:CDS
TTTGTTCTTGAACTTATCGT+AGG 0.452379 5:+25732579 None:intergenic
TAGGTCATTTATTAGGGTTA+GGG 0.476335 5:-25732632 MsG0580025876.01.T01:CDS
CTTGAGGAGGATGATATTCA+AGG 0.479588 5:-25732546 MsG0580025876.01.T01:CDS
GTACATAATAGCCTCTTCAA+TGG 0.498583 5:+25732602 None:intergenic
ACTTGGACAAAGCAGAAGAC+TGG 0.508911 5:-25732728 MsG0580025876.01.T01:CDS
TTGTTCTTGAACTTATCGTA+GGG 0.525939 5:+25732580 None:intergenic
GGACAACTACTGCTACTTCG+AGG 0.530572 5:-25732485 MsG0580025876.01.T01:CDS
GCAGAAGACTGGGTAGTTAG+CGG 0.544338 5:-25732717 MsG0580025876.01.T01:CDS
AACGTTTCGTTGCGTCGTCG+AGG 0.556191 5:+25732959 None:intergenic
AACTGATGGAAGGTTACACT+TGG 0.558584 5:-25732745 MsG0580025876.01.T01:CDS
AGGGCATTCTTCCATTGAAG+AGG 0.560714 5:-25732613 MsG0580025876.01.T01:CDS
GGCGACGGAGAAGCATTTGA+CGG 0.569294 5:-25732801 MsG0580025876.01.T01:CDS
TACAGTGGGGACCATGGCGA+CGG 0.572091 5:-25732816 MsG0580025876.01.T01:CDS
TTGAGGAGGATGATATTCAA+GGG 0.580266 5:-25732545 MsG0580025876.01.T01:CDS
GGTAGTTAGCGGAGATGTAA+CGG 0.582074 5:-25732706 MsG0580025876.01.T01:CDS
CTTGGACAAAGCAGAAGACT+GGG 0.588598 5:-25732727 MsG0580025876.01.T01:CDS
CAAATGCTTCTCCGTCGCCA+TGG 0.589334 5:+25732805 None:intergenic
AAGTGTAACCTTCCATCAGT+TGG 0.595259 5:+25732747 None:intergenic
GACAACTACTGCTACTTCGA+GGG 0.599729 5:-25732484 MsG0580025876.01.T01:CDS
AACAAAGAAAGTTGAACTTG+AGG 0.601323 5:-25732562 MsG0580025876.01.T01:CDS
AAAGAAAGTTGAACTTGAGG+AGG 0.606210 5:-25732559 MsG0580025876.01.T01:CDS
AAGCGTGTGCTAATGTTCCA+AGG 0.614495 5:+25732775 None:intergenic
TGTTGACTTAGAATCTGTTG+CGG 0.625824 5:-25732664 MsG0580025876.01.T01:CDS
TTCGCTGGGATCGAAAGCAT+AGG 0.636695 5:+25732984 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTTCATCAGATATTAAAAT+AGG - Chr5:25732536-25732555 MsG0580025876.01.T01:CDS 20.0%
!! ATGAAATAGGTCATTTATTA+GGG - Chr5:25732741-25732760 MsG0580025876.01.T01:CDS 20.0%
!! GTTCATCAGATATTAAAATA+GGG - Chr5:25732537-25732556 MsG0580025876.01.T01:CDS 20.0%
! CATGAAATAGGTCATTTATT+AGG - Chr5:25732740-25732759 MsG0580025876.01.T01:CDS 25.0%
!! ATTAAAATAGGGTTTTACAG+TGG - Chr5:25732548-25732567 MsG0580025876.01.T01:CDS 25.0%
!! TTAAAATAGGGTTTTACAGT+GGG - Chr5:25732549-25732568 MsG0580025876.01.T01:CDS 25.0%
AACAAAGAAAGTTGAACTTG+AGG - Chr5:25732817-25732836 MsG0580025876.01.T01:CDS 30.0%
AAGTAAACGCGTTTAATCAA+TGG - Chr5:25732471-25732490 MsG0580025876.01.T01:CDS 30.0%
ATAGGTCATTTATTAGGGTT+AGG - Chr5:25732746-25732765 MsG0580025876.01.T01:CDS 30.0%
TAGGTCATTTATTAGGGTTA+GGG - Chr5:25732747-25732766 MsG0580025876.01.T01:CDS 30.0%
TAGTTGTCCCAGTAAAATTA+GGG + Chr5:25732883-25732902 None:intergenic 30.0%
TTGTTCTTGAACTTATCGTA+GGG + Chr5:25732802-25732821 None:intergenic 30.0%
TTTGTTCTTGAACTTATCGT+AGG + Chr5:25732803-25732822 None:intergenic 30.0%
! TAAAATAGGGTTTTACAGTG+GGG - Chr5:25732550-25732569 MsG0580025876.01.T01:CDS 30.0%
!!! TTTTGTCTTTGGTGTTTCTT+GGG - Chr5:25732960-25732979 MsG0580025876.01.T01:CDS 30.0%
!!! TTTTTGTCTTTGGTGTTTCT+TGG - Chr5:25732959-25732978 MsG0580025876.01.T01:CDS 30.0%
AAAGAAAGTTGAACTTGAGG+AGG - Chr5:25732820-25732839 MsG0580025876.01.T01:CDS 35.0%
AAGGGATTCAGATGCTTTAT+GGG - Chr5:25732852-25732871 MsG0580025876.01.T01:CDS 35.0%
GTACATAATAGCCTCTTCAA+TGG + Chr5:25732780-25732799 None:intergenic 35.0%
GTAGTTGTCCCAGTAAAATT+AGG + Chr5:25732884-25732903 None:intergenic 35.0%
TTGAGGAGGATGATATTCAA+GGG - Chr5:25732834-25732853 MsG0580025876.01.T01:CDS 35.0%
TTGCAAACGCGTTTAATCAA+TGG - Chr5:25732444-25732463 MsG0580025876.01.T01:CDS 35.0%
! GGTCTAACCCTAATTTTACT+GGG - Chr5:25732873-25732892 MsG0580025876.01.T01:CDS 35.0%
!! AGGGATAGAGAATCTAGTTT+TGG - Chr5:25732914-25732933 MsG0580025876.01.T01:CDS 35.0%
!! TGTTGACTTAGAATCTGTTG+CGG - Chr5:25732715-25732734 MsG0580025876.01.T01:CDS 35.0%
!!! GATAGAGAATCTAGTTTTGG+TGG - Chr5:25732917-25732936 MsG0580025876.01.T01:CDS 35.0%
!!! GGTGTCTTTGTTTTTGTCTT+TGG - Chr5:25732949-25732968 MsG0580025876.01.T01:CDS 35.0%
AACTGATGGAAGGTTACACT+TGG - Chr5:25732634-25732653 MsG0580025876.01.T01:CDS 40.0%
AAGTGTAACCTTCCATCAGT+TGG + Chr5:25732635-25732654 None:intergenic 40.0%
CAAGGGATTCAGATGCTTTA+TGG - Chr5:25732851-25732870 MsG0580025876.01.T01:CDS 40.0%
CTTGAGGAGGATGATATTCA+AGG - Chr5:25732833-25732852 MsG0580025876.01.T01:CDS 40.0%
TCTGTTGCGGTTCATGAAAT+AGG - Chr5:25732728-25732747 MsG0580025876.01.T01:CDS 40.0%
! GGGTCTAACCCTAATTTTAC+TGG - Chr5:25732872-25732891 MsG0580025876.01.T01:CDS 40.0%
!! CTTTTTCACCAACTGATGGA+AGG - Chr5:25732624-25732643 MsG0580025876.01.T01:CDS 40.0%
!! TCTTTGGTGTTTCTTGGGTT+TGG - Chr5:25732965-25732984 MsG0580025876.01.T01:CDS 40.0%
!!! CTAGTTTTGGTGGAAGACAT+GGG - Chr5:25732927-25732946 MsG0580025876.01.T01:CDS 40.0%
!!! TAGTTTTGGTGGAAGACATG+GGG - Chr5:25732928-25732947 MsG0580025876.01.T01:CDS 40.0%
!!! TCTAGTTTTGGTGGAAGACA+TGG - Chr5:25732926-25732945 MsG0580025876.01.T01:CDS 40.0%
AAGCGTGTGCTAATGTTCCA+AGG + Chr5:25732607-25732626 None:intergenic 45.0%
ACTTGGACAAAGCAGAAGAC+TGG - Chr5:25732651-25732670 MsG0580025876.01.T01:CDS 45.0%
CTTGGACAAAGCAGAAGACT+GGG - Chr5:25732652-25732671 MsG0580025876.01.T01:CDS 45.0%
GGTAGTTAGCGGAGATGTAA+CGG - Chr5:25732673-25732692 MsG0580025876.01.T01:CDS 45.0%
! AGGGCATTCTTCCATTGAAG+AGG - Chr5:25732766-25732785 MsG0580025876.01.T01:CDS 45.0%
! GACAACTACTGCTACTTCGA+GGG - Chr5:25732895-25732914 MsG0580025876.01.T01:CDS 45.0%
!!! CACGCTTTTTCACCAACTGA+TGG - Chr5:25732620-25732639 MsG0580025876.01.T01:CDS 45.0%
GCAGAAGACTGGGTAGTTAG+CGG - Chr5:25732662-25732681 MsG0580025876.01.T01:CDS 50.0%
! GAAGCATTTGACGGAGTCCT+TGG - Chr5:25732587-25732606 MsG0580025876.01.T01:CDS 50.0%
! GGACAACTACTGCTACTTCG+AGG - Chr5:25732894-25732913 MsG0580025876.01.T01:CDS 50.0%
AACGTTTCGTTGCGTCGTCG+AGG + Chr5:25732423-25732442 None:intergenic 55.0%
CAAATGCTTCTCCGTCGCCA+TGG + Chr5:25732577-25732596 None:intergenic 55.0%
! GGGTTTTACAGTGGGGACCA+TGG - Chr5:25732557-25732576 MsG0580025876.01.T01:CDS 55.0%
!! GGCGACGGAGAAGCATTTGA+CGG - Chr5:25732578-25732597 MsG0580025876.01.T01:CDS 55.0%
TACAGTGGGGACCATGGCGA+CGG - Chr5:25732563-25732582 MsG0580025876.01.T01:CDS 60.0%
! GCGTCGTCGAGGTTTTCGCT+GGG + Chr5:25732412-25732431 None:intergenic 60.0%
! TGCGTCGTCGAGGTTTTCGC+TGG + Chr5:25732413-25732432 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 25732398 25733003 25732398 ID=MsG0580025876.01;Name=MsG0580025876.01
Chr5 mRNA 25732398 25733003 25732398 ID=MsG0580025876.01.T01;Parent=MsG0580025876.01;Name=MsG0580025876.01.T01;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|201
Chr5 exon 25732398 25733003 25732398 ID=MsG0580025876.01.T01:exon:5052;Parent=MsG0580025876.01.T01
Chr5 CDS 25732398 25733003 25732398 ID=MsG0580025876.01.T01:cds;Parent=MsG0580025876.01.T01
Chr5 mRNA 25732398 25732607 25732398 ID=MsG0580025876.01.T02;Parent=MsG0580025876.01;Name=MsG0580025876.01.T02;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|0|1|0|69
Chr5 exon 25732398 25732607 25732398 ID=MsG0580025876.01.T02:exon:5053;Parent=MsG0580025876.01.T02
Chr5 CDS 25732398 25732607 25732398 ID=MsG0580025876.01.T02:cds;Parent=MsG0580025876.01.T02
Gene Sequence

>MsG0580025876.01.T01

ATGCTTTCGATCCCAGCGAAAACCTCGACGACGCAACGAAACGTTTTTGCAAACGCGTTTAATCAATGGTCAAAAGTAAACGCGTTTAATCAATGGTCAAAAGTAACAACAATAACATTCACAGAAGCAACGTCATATAGTTCATCAGATATTAAAATAGGGTTTTACAGTGGGGACCATGGCGACGGAGAAGCATTTGACGGAGTCCTTGGAACATTAGCACACGCTTTTTCACCAACTGATGGAAGGTTACACTTGGACAAAGCAGAAGACTGGGTAGTTAGCGGAGATGTAACGGAATCATCTTTATCAAACGCTGTTGACTTAGAATCTGTTGCGGTTCATGAAATAGGTCATTTATTAGGGTTAGGGCATTCTTCCATTGAAGAGGCTATTATGTACCCTACGATAAGTTCAAGAACAAAGAAAGTTGAACTTGAGGAGGATGATATTCAAGGGATTCAGATGCTTTATGGGTCTAACCCTAATTTTACTGGGACAACTACTGCTACTTCGAGGGATAGAGAATCTAGTTTTGGTGGAAGACATGGGGTGTCTTTGTTTTTGTCTTTGGTGTTTCTTGGGTTTGGTTTTTTGAGTTTGTAG

>MsG0580025876.01.T02

ATGTACCCTACGATAAGTTCAAGAACAAAGAAAGTTGAACTTGAGGAGGATGATATTCAAGGGATTCAGATGCTTTATGGGTCTAACCCTAATTTTACTGGGACAACTACTGCTACTTCGAGGGATAGAGAATCTAGTTTTGGTGGAAGACATGGGGTGTCTTTGTTTTTGTCTTTGGTGTTTCTTGGGTTTGGTTTTTTGAGTTTGTAG

Protein sequence

>MsG0580025876.01.T01

MLSIPAKTSTTQRNVFANAFNQWSKVNAFNQWSKVTTITFTEATSYSSSDIKIGFYSGDHGDGEAFDGVLGTLAHAFSPTDGRLHLDKAEDWVVSGDVTESSLSNAVDLESVAVHEIGHLLGLGHSSIEEAIMYPTISSRTKKVELEEDDIQGIQMLYGSNPNFTGTTTATSRDRESSFGGRHGVSLFLSLVFLGFGFLSL*

>MsG0580025876.01.T02

MYPTISSRTKKVELEEDDIQGIQMLYGSNPNFTGTTTATSRDRESSFGGRHGVSLFLSLVFLGFGFLSL*