AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025435.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025435.01.T01 MTR_5g028930 94.340 106 6 0 1 106 321 426 3.37e-66 211
MsG0580025435.01.T01 MTR_5g028920 79.130 115 24 0 1 115 123 237 2.67e-59 183
MsG0580025435.01.T01 MTR_5g028830 73.077 104 28 0 1 104 187 290 1.01e-49 160
MsG0580025435.01.T01 MTR_5g028450 56.604 106 45 1 1 106 1 105 2.44e-33 118
MsG0580025435.01.T01 MTR_5g028190 52.727 110 49 2 1 108 240 348 9.09e-28 106
MsG0580025435.01.T01 MTR_5g028130 49.550 111 49 3 1 106 42 150 5.26e-25 97.1
MsG0580025435.01.T01 MTR_2g438740 34.314 102 66 1 4 105 279 379 7.02e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025435.01.T01 AT3G18670 34.286 105 68 1 1 105 293 396 6.92e-15 70.1
MsG0580025435.01.T01 AT3G18670 34.286 105 68 1 1 105 348 451 9.44e-15 69.7
MsG0580025435.01.T01 AT5G35810 30.172 116 81 0 4 119 38 153 5.38e-12 61.6

Find 25 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAATGTAATTATTCCATTC+TGG 0.217875 5:+18577203 None:intergenic
AAAAGAAATTCAATGGTTTA+AGG 0.273664 5:-18576930 MsG0580025435.01.T01:CDS
CAATGTAATTATTCCATTCT+GGG 0.330215 5:+18577204 None:intergenic
CAACTCATATATTCTCTCAA+TGG 0.391228 5:-18577076 MsG0580025435.01.T01:CDS
ATCTATCTGTCTATCTATAA+CGG 0.412881 5:-18576890 MsG0580025435.01.T01:CDS
ATCTATCCGTAGTGGCAGAT+TGG 0.427944 5:-18576972 MsG0580025435.01.T01:CDS
TCTATCCGTAGTGGCAGATT+GGG 0.459211 5:-18576971 MsG0580025435.01.T01:CDS
CATATATTCTCTCAATGGAT+TGG 0.461472 5:-18577071 MsG0580025435.01.T01:CDS
TCTATCTGTCTATCTATAAC+GGG 0.465564 5:-18576889 MsG0580025435.01.T01:CDS
GTCACTGATAACCGTGGTAG+AGG 0.507156 5:-18577142 MsG0580025435.01.T01:CDS
CATTGAGAGAATATATGAGT+TGG 0.547930 5:+18577077 None:intergenic
TTACATTGATAAATGCTATG+AGG 0.553274 5:-18577189 MsG0580025435.01.T01:CDS
TCAGTGACTGAAAGTAGATA+AGG 0.553905 5:+18577157 None:intergenic
ATGTTGTATGCAGCCCAGAA+TGG 0.559331 5:-18577217 MsG0580025435.01.T01:CDS
TTCTCTCAATGGATTGGAGA+AGG 0.559507 5:-18577065 MsG0580025435.01.T01:CDS
ACCGTGGTAGAGGCATACTT+TGG 0.564540 5:-18577132 MsG0580025435.01.T01:CDS
CTGCCACTACGGATAGATGA+AGG 0.585097 5:+18576977 None:intergenic
CAGGACCCAATCTGCCACTA+CGG 0.595324 5:+18576966 None:intergenic
GTTCCTTCATCTATCCGTAG+TGG 0.606436 5:-18576980 MsG0580025435.01.T01:CDS
ATTCTGGGCTGCATACAACA+TGG 0.634347 5:+18577219 None:intergenic
GATTAAATATCGCACAGACT+CGG 0.647343 5:-18577038 MsG0580025435.01.T01:CDS
GGAACAAACTACAATGCTAG+TGG 0.663424 5:-18576868 None:intergenic
TGACAATAATCTATTGCACA+TGG 0.693960 5:-18577014 MsG0580025435.01.T01:CDS
ACCAAAGTATGCCTCTACCA+CGG 0.697647 5:+18577131 None:intergenic
CTTTCAGTCACTGATAACCG+TGG 0.726294 5:-18577148 MsG0580025435.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAGAAATTCAATGGTTTA+AGG - Chr5:18577158-18577177 MsG0580025435.01.T01:CDS 20.0%
!! AAGTACAAAAAGAAATTCAA+TGG - Chr5:18577151-18577170 MsG0580025435.01.T01:CDS 20.0%
! ATCTATCTGTCTATCTATAA+CGG - Chr5:18577198-18577217 MsG0580025435.01.T01:CDS 25.0%
! CAATGTAATTATTCCATTCT+GGG + Chr5:18576887-18576906 None:intergenic 25.0%
! TCAATGTAATTATTCCATTC+TGG + Chr5:18576888-18576907 None:intergenic 25.0%
! TTACATTGATAAATGCTATG+AGG - Chr5:18576899-18576918 MsG0580025435.01.T01:CDS 25.0%
CAACTCATATATTCTCTCAA+TGG - Chr5:18577012-18577031 MsG0580025435.01.T01:CDS 30.0%
CATATATTCTCTCAATGGAT+TGG - Chr5:18577017-18577036 MsG0580025435.01.T01:CDS 30.0%
CATTGAGAGAATATATGAGT+TGG + Chr5:18577014-18577033 None:intergenic 30.0%
TCTATCTGTCTATCTATAAC+GGG - Chr5:18577199-18577218 MsG0580025435.01.T01:CDS 30.0%
TGACAATAATCTATTGCACA+TGG - Chr5:18577074-18577093 MsG0580025435.01.T01:CDS 30.0%
GATTAAATATCGCACAGACT+CGG - Chr5:18577050-18577069 MsG0580025435.01.T01:CDS 35.0%
TCAGTGACTGAAAGTAGATA+AGG + Chr5:18576934-18576953 None:intergenic 35.0%
! TCTTTTTGTACTTGCATAGC+AGG + Chr5:18577144-18577163 None:intergenic 35.0%
!! TTCTCTCAATGGATTGGAGA+AGG - Chr5:18577023-18577042 MsG0580025435.01.T01:CDS 40.0%
ACCAAAGTATGCCTCTACCA+CGG + Chr5:18576960-18576979 None:intergenic 45.0%
ATCTATCCGTAGTGGCAGAT+TGG - Chr5:18577116-18577135 MsG0580025435.01.T01:CDS 45.0%
ATGTTGTATGCAGCCCAGAA+TGG - Chr5:18576871-18576890 MsG0580025435.01.T01:CDS 45.0%
CTTTCAGTCACTGATAACCG+TGG - Chr5:18576940-18576959 MsG0580025435.01.T01:CDS 45.0%
GTTCCTTCATCTATCCGTAG+TGG - Chr5:18577108-18577127 MsG0580025435.01.T01:CDS 45.0%
TCTATCCGTAGTGGCAGATT+GGG - Chr5:18577117-18577136 MsG0580025435.01.T01:CDS 45.0%
CTGCCACTACGGATAGATGA+AGG + Chr5:18577114-18577133 None:intergenic 50.0%
GTCACTGATAACCGTGGTAG+AGG - Chr5:18576946-18576965 MsG0580025435.01.T01:CDS 50.0%
! ACCGTGGTAGAGGCATACTT+TGG - Chr5:18576956-18576975 MsG0580025435.01.T01:CDS 50.0%
CAGGACCCAATCTGCCACTA+CGG + Chr5:18577125-18577144 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 18576871 18577239 18576871 ID=MsG0580025435.01;Name=MsG0580025435.01
Chr5 mRNA 18576871 18577239 18576871 ID=MsG0580025435.01.T01;Parent=MsG0580025435.01;Name=MsG0580025435.01.T01;_AED=0.54;_eAED=0.54;_QI=0|-1|0|1|-1|1|1|0|122
Chr5 exon 18576871 18577239 18576871 ID=MsG0580025435.01.T01:exon:4460;Parent=MsG0580025435.01.T01
Chr5 CDS 18576871 18577239 18576871 ID=MsG0580025435.01.T01:cds;Parent=MsG0580025435.01.T01
Gene Sequence

>MsG0580025435.01.T01

ATGTTGTATGCAGCCCAGAATGGAATAATTACATTGATAAATGCTATGAGGAATGCTAATCCTTATCTACTTTCAGTCACTGATAACCGTGGTAGAGGCATACTTTGGTATGCAATTCTGAATCGCAGAAGATCTGTTTTCCAACTCATATATTCTCTCAATGGATTGGAGAAGGAGATGATTAAATATCGCACAGACTCGGTTGACAATAATCTATTGCACATGGCAGCTCTTTTAGTTCCTTCATCTATCCGTAGTGGCAGATTGGGTCCTGCTATGCAAGTACAAAAAGAAATTCAATGGTTTAAGGTCATTTCTCTCATCTCTATCTATCTGTCTATCTATAACGGGAACAAACTACAATGCTAG
Protein sequence

>MsG0580025435.01.T01

MLYAAQNGIITLINAMRNANPYLLSVTDNRGRGILWYAILNRRRSVFQLIYSLNGLEKEMIKYRTDSVDNNLLHMAALLVPSSIRSGRLGPAMQVQKEIQWFKVISLISIYLSIYNGNKLQC*