AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880044314.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880044314.01.T01 MTR_8g461390 94.273 227 13 0 1 227 1 227 1.42e-164 453
MsG0880044314.01.T01 MTR_4g105470 41.111 180 97 4 39 215 23 196 4.28e-32 116
MsG0880044314.01.T01 MTR_8g069755 34.135 208 123 5 13 215 5 203 2.08e-30 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880044314.01.T01 AT1G17100 60.891 202 74 2 25 221 30 231 1.99e-89 263
MsG0880044314.01.T01 AT1G78450 47.768 224 104 4 4 222 1 216 1.38e-69 213
MsG0880044314.01.T01 AT1G78460 44.385 187 96 3 35 220 40 219 3.75e-49 160

Find 56 sgRNAs with CRISPR-Local

Find 99 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAATGGTAAATTGATAAA+AGG 0.212029 8:-39879465 None:intergenic
CTTATCTCAATTTCATTATC+AGG 0.236313 8:+39879571 MsG0880044314.01.T01:CDS
AAGCTACTAGAACTGGTTTC+AGG 0.240236 8:+39879740 MsG0880044314.01.T01:CDS
TTCTTGTTTGATTTGGAAAA+TGG 0.250380 8:+39881115 MsG0880044314.01.T01:CDS
GACGTTATAATTCGTCTGTT+TGG 0.282437 8:+39879680 MsG0880044314.01.T01:CDS
TAGGCTATTTGATTACATTC+AGG 0.303343 8:+39880715 MsG0880044314.01.T01:intron
GGATTTGCTTGGTTCACTTT+TGG 0.319811 8:-39880848 None:intergenic
GATATGGTTCTTGTTTGATT+TGG 0.325272 8:+39881108 MsG0880044314.01.T01:CDS
TGAACATGAAGACCCTTTGC+AGG 0.347285 8:-39880875 None:intergenic
AATGTCTTGAATAGGAGAAT+TGG 0.347748 8:-39879707 None:intergenic
TATGCAGCAGTTAGACAATT+TGG 0.366995 8:+39880914 MsG0880044314.01.T01:CDS
AACTTACATAACATACTATC+TGG 0.380641 8:-39881185 None:intergenic
CTTGTTGAAGCTACTAGAAC+TGG 0.386778 8:+39879733 MsG0880044314.01.T01:CDS
ACAAATGAAGACTCACAAAA+TGG 0.387846 8:-39880809 None:intergenic
ACCCTATTATCGTATTCAAA+AGG 0.389319 8:-39881079 None:intergenic
AGCTTCTATGACATCATAGT+TGG 0.390370 8:-39879638 None:intergenic
CTGAAGCATGACCAGCTCTA+TGG 0.399888 8:-39881030 None:intergenic
ACAAGAGAAATGTCTTGAAT+AGG 0.403479 8:-39879715 None:intergenic
CCCTATTATCGTATTCAAAA+GGG 0.409052 8:-39881078 None:intergenic
ACAGCCATGGATTGCATGCT+TGG 0.416699 8:-39879511 None:intergenic
AGAATGGTAAATTGATAAAA+GGG 0.418250 8:-39879464 None:intergenic
TACTATCTGGAATTTGTGAA+TGG 0.426802 8:-39881172 None:intergenic
AGGCTATTTGATTACATTCA+GGG 0.450840 8:+39880716 MsG0880044314.01.T01:intron
TGAAGACCCTTTGCAGGTGG+TGG 0.452104 8:-39880869 None:intergenic
GGAGTTTGTGAATTATGTTA+AGG 0.453586 8:-39879490 None:intergenic
TTGCAGGTGGTGGATTTGCT+TGG 0.453762 8:-39880859 None:intergenic
AACTATGATGTCATAGAAGC+TGG 0.463929 8:+39879640 MsG0880044314.01.T01:CDS
GCGTTGAAGGACAGTATTGC+CGG 0.472222 8:+39880977 MsG0880044314.01.T01:CDS
ATAATAGGGTGAATGAGATA+TGG 0.475621 8:+39881092 MsG0880044314.01.T01:CDS
TGAGCTAGCATCAGCGTTGA+AGG 0.486594 8:+39880964 MsG0880044314.01.T01:CDS
GATGTCATAGAAGCTGGAAA+TGG 0.490076 8:+39879646 MsG0880044314.01.T01:CDS
TGAATTGATAAATAAAGTGC+AGG 0.491035 8:+39881265 MsG0880044314.01.T01:three_prime_UTR
AGCAAATCCACCACCTGCAA+AGG 0.503511 8:+39880862 MsG0880044314.01.T01:CDS
AGGGTCTTCATGTTCAAAGA+TGG 0.509198 8:+39880882 MsG0880044314.01.T01:CDS
TGTTGTGGTGGTTACAGCCA+TGG 0.533600 8:-39879524 None:intergenic
GGTAAGACTTCAGAGAGAAC+AGG 0.536541 8:-39880776 None:intergenic
AACTCCAAGCATGCAATCCA+TGG 0.545237 8:+39879507 MsG0880044314.01.T01:exon
GGACACTCTATGCGTTTGCA+TGG 0.549178 8:-39879616 None:intergenic
GCAAATCCACCACCTGCAAA+GGG 0.549447 8:+39880863 MsG0880044314.01.T01:CDS
GCTTCTATGACATCATAGTT+GGG 0.553146 8:-39879637 None:intergenic
TCACAAAATGGTCCATCACT+TGG 0.562399 8:-39880797 None:intergenic
TCTGAAGTCTTACCAAGTGA+TGG 0.564116 8:+39880785 MsG0880044314.01.T01:CDS
GCAGCAGTTAGACAATTTGG+TGG 0.569529 8:+39880917 MsG0880044314.01.T01:CDS
GGCTATTTGATTACATTCAG+GGG 0.574090 8:+39880717 MsG0880044314.01.T01:intron
TTTGTCAAAGATACAGATGT+TGG 0.582094 8:+39880941 MsG0880044314.01.T01:CDS
AGCAGAAGACCACTTAGTAC+CGG 0.588835 8:-39880996 None:intergenic
AATTATGTTAAGGAACAGAA+TGG 0.589911 8:-39879480 None:intergenic
ATTGAACAAAGCCATAGAGC+TGG 0.606780 8:+39881019 MsG0880044314.01.T01:CDS
ACAGTATTGCCGGTACTAAG+TGG 0.612734 8:+39880987 MsG0880044314.01.T01:CDS
CAGTGAGAGCTTCCATGTTG+TGG 0.619405 8:-39879539 None:intergenic
CCTATTATCGTATTCAAAAG+GGG 0.621839 8:-39881077 None:intergenic
TGGCTGTAACCACCACAACA+TGG 0.629806 8:+39879527 MsG0880044314.01.T01:CDS
TGTATACTATACAAAATGTG+TGG 0.633327 8:+39879398 None:intergenic
TGAGAGCTTCCATGTTGTGG+TGG 0.652258 8:-39879536 None:intergenic
CTACTAGAACTGGTTTCAGG+AGG 0.662955 8:+39879743 MsG0880044314.01.T01:CDS
ACATGAAGACCCTTTGCAGG+TGG 0.699868 8:-39880872 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGTTGAATACATATAAAA+GGG + Chr8:39879984-39880003 MsG0880044314.01.T01:intron 15.0%
!! AATGTGAAATGATTTATACT+TGG + Chr8:39880416-39880435 MsG0880044314.01.T01:intron 20.0%
!! AGAATGGTAAATTGATAAAA+GGG - Chr8:39879467-39879486 None:intergenic 20.0%
!! GAAAGTTGAATACATATAAA+AGG + Chr8:39879983-39880002 MsG0880044314.01.T01:intron 20.0%
!!! AAATTAATCATCTCTAGAAT+TGG - Chr8:39880493-39880512 None:intergenic 20.0%
!!! AGTTTTTTCAGTAATAGTTT+AGG + Chr8:39879785-39879804 MsG0880044314.01.T01:intron 20.0%
!!! TCAATCTTTTTCTTTTTCTT+AGG + Chr8:39880696-39880715 MsG0880044314.01.T01:intron 20.0%
! AACTAATTCTAACTTGAAGT+TGG - Chr8:39880208-39880227 None:intergenic 25.0%
! AACTTACATAACATACTATC+TGG - Chr8:39881188-39881207 None:intergenic 25.0%
! AATTATGTTAAGGAACAGAA+TGG - Chr8:39879483-39879502 None:intergenic 25.0%
! ATGCTAAAATCAATTGTTTC+TGG + Chr8:39880532-39880551 MsG0880044314.01.T01:intron 25.0%
! CAGAATGGTAAATTGATAAA+AGG - Chr8:39879468-39879487 None:intergenic 25.0%
! CTTATCTCAATTTCATTATC+AGG + Chr8:39879571-39879590 MsG0880044314.01.T01:CDS 25.0%
! TGAACTTATTGATCATTCAT+TGG - Chr8:39880602-39880621 None:intergenic 25.0%
! TGAATTGATAAATAAAGTGC+AGG + Chr8:39881265-39881284 MsG0880044314.01.T01:three_prime_UTR 25.0%
! TTTAGTGTAATTACAAGTGT+CGG + Chr8:39880116-39880135 MsG0880044314.01.T01:intron 25.0%
! TTTCAAATTATTAGCTGTGT+CGG - Chr8:39880084-39880103 None:intergenic 25.0%
!!! AAGTTTTAATGAAGTGTTTG+TGG + Chr8:39880636-39880655 MsG0880044314.01.T01:intron 25.0%
!!! ACAATTGATTTTAGCATGTT+TGG - Chr8:39880529-39880548 None:intergenic 25.0%
!!! TGATAAAAGGGTTTTTTCTA+TGG - Chr8:39879455-39879474 None:intergenic 25.0%
!!! TTCTTGTTTGATTTGGAAAA+TGG + Chr8:39881115-39881134 MsG0880044314.01.T01:CDS 25.0%
AATGTCTTGAATAGGAGAAT+TGG - Chr8:39879710-39879729 None:intergenic 30.0%
ACAAATGAAGACTCACAAAA+TGG - Chr8:39880812-39880831 None:intergenic 30.0%
ACAAGAGAAATGTCTTGAAT+AGG - Chr8:39879718-39879737 None:intergenic 30.0%
ACCCTATTATCGTATTCAAA+AGG - Chr8:39881082-39881101 None:intergenic 30.0%
AGGCTATTTGATTACATTCA+GGG + Chr8:39880716-39880735 MsG0880044314.01.T01:intron 30.0%
ATAATAGGGTGAATGAGATA+TGG + Chr8:39881092-39881111 MsG0880044314.01.T01:CDS 30.0%
CCCTATTATCGTATTCAAAA+GGG - Chr8:39881081-39881100 None:intergenic 30.0%
CCTATTATCGTATTCAAAAG+GGG - Chr8:39881080-39881099 None:intergenic 30.0%
GATCAAGTTTAGTAACTCTT+CGG - Chr8:39880678-39880697 None:intergenic 30.0%
GGAGTTTGTGAATTATGTTA+AGG - Chr8:39879493-39879512 None:intergenic 30.0%
TAGGCTATTTGATTACATTC+AGG + Chr8:39880715-39880734 MsG0880044314.01.T01:intron 30.0%
TAGTGTGATTGGAATTGATT+TGG + Chr8:39879910-39879929 MsG0880044314.01.T01:intron 30.0%
TTTGTCAAAGATACAGATGT+TGG + Chr8:39880941-39880960 MsG0880044314.01.T01:CDS 30.0%
! CCCTTTTGAATACGATAATA+GGG + Chr8:39881078-39881097 MsG0880044314.01.T01:CDS 30.0%
! GATATGGTTCTTGTTTGATT+TGG + Chr8:39881108-39881127 MsG0880044314.01.T01:CDS 30.0%
! TACTATCTGGAATTTGTGAA+TGG - Chr8:39881175-39881194 None:intergenic 30.0%
!! GAGTTTGATTTTGACATGTT+TGG - Chr8:39880263-39880282 None:intergenic 30.0%
AACTATGATGTCATAGAAGC+TGG + Chr8:39879640-39879659 MsG0880044314.01.T01:CDS 35.0%
AAGTTTAGTAACTCTTCGGA+TGG - Chr8:39880674-39880693 None:intergenic 35.0%
AGCTTCTATGACATCATAGT+TGG - Chr8:39879641-39879660 None:intergenic 35.0%
AGTTTAGTAACTCTTCGGAT+GGG - Chr8:39880673-39880692 None:intergenic 35.0%
GACGTTATAATTCGTCTGTT+TGG + Chr8:39879680-39879699 MsG0880044314.01.T01:CDS 35.0%
GCTTCTATGACATCATAGTT+GGG - Chr8:39879640-39879659 None:intergenic 35.0%
GGCTATTTGATTACATTCAG+GGG + Chr8:39880717-39880736 MsG0880044314.01.T01:intron 35.0%
TATGCAGCAGTTAGACAATT+TGG + Chr8:39880914-39880933 MsG0880044314.01.T01:CDS 35.0%
! CCCCTTTTGAATACGATAAT+AGG + Chr8:39881077-39881096 MsG0880044314.01.T01:CDS 35.0%
! TTAGTGTGTGTTTGGTTTCA+CGG - Chr8:39880578-39880597 None:intergenic 35.0%
!! TCATTGGTTTAGTGTGTGTT+TGG - Chr8:39880586-39880605 None:intergenic 35.0%
!!! CTGTCATCTCAATTTTTTGC+TGG - Chr8:39880754-39880773 None:intergenic 35.0%
AGGGTCTTCATGTTCAAAGA+TGG + Chr8:39880882-39880901 MsG0880044314.01.T01:CDS 40.0%
ATTGAACAAAGCCATAGAGC+TGG + Chr8:39881019-39881038 MsG0880044314.01.T01:CDS 40.0%
CTTGTTGAAGCTACTAGAAC+TGG + Chr8:39879733-39879752 MsG0880044314.01.T01:CDS 40.0%
GATGTCATAGAAGCTGGAAA+TGG + Chr8:39879646-39879665 MsG0880044314.01.T01:CDS 40.0%
GGGAGTTGAAAAATCATGTC+TGG + Chr8:39880004-39880023 MsG0880044314.01.T01:intron 40.0%
GTGTTTGCTTCTAGTGTGAT+TGG + Chr8:39879899-39879918 MsG0880044314.01.T01:intron 40.0%
TCACAAAATGGTCCATCACT+TGG - Chr8:39880800-39880819 None:intergenic 40.0%
! AAGCTACTAGAACTGGTTTC+AGG + Chr8:39879740-39879759 MsG0880044314.01.T01:CDS 40.0%
! TAATGAAGTGTTTGTGGTGC+TGG + Chr8:39880642-39880661 MsG0880044314.01.T01:intron 40.0%
! TCTGAAGTCTTACCAAGTGA+TGG + Chr8:39880785-39880804 MsG0880044314.01.T01:CDS 40.0%
!! GGATTTGCTTGGTTCACTTT+TGG - Chr8:39880851-39880870 None:intergenic 40.0%
!! GTAATTACAAGTGTCGGTGT+CGG + Chr8:39880122-39880141 MsG0880044314.01.T01:intron 40.0%
!! TAATTACAAGTGTCGGTGTC+GGG + Chr8:39880123-39880142 MsG0880044314.01.T01:intron 40.0%
AACTCCAAGCATGCAATCCA+TGG + Chr8:39879507-39879526 MsG0880044314.01.T01:exon 45.0%
ACACTTCCCAACGTAAACAG+TGG - Chr8:39880289-39880308 None:intergenic 45.0%
ACAGTATTGCCGGTACTAAG+TGG + Chr8:39880987-39881006 MsG0880044314.01.T01:CDS 45.0%
ACTCTTCCCACTGTTTACGT+TGG + Chr8:39880279-39880298 MsG0880044314.01.T01:intron 45.0%
AGCAGAAGACCACTTAGTAC+CGG - Chr8:39880999-39881018 None:intergenic 45.0%
CACTTCCCAACGTAAACAGT+GGG - Chr8:39880288-39880307 None:intergenic 45.0%
CTCTTCCCACTGTTTACGTT+GGG + Chr8:39880280-39880299 MsG0880044314.01.T01:intron 45.0%
GCAGCAGTTAGACAATTTGG+TGG + Chr8:39880917-39880936 MsG0880044314.01.T01:CDS 45.0%
GGTAAGACTTCAGAGAGAAC+AGG - Chr8:39880779-39880798 None:intergenic 45.0%
TGAACATGAAGACCCTTTGC+AGG - Chr8:39880878-39880897 None:intergenic 45.0%
! ATGTCTGGAGCTATGAAGCA+CGG + Chr8:39880019-39880038 MsG0880044314.01.T01:intron 45.0%
! CTACTAGAACTGGTTTCAGG+AGG + Chr8:39879743-39879762 MsG0880044314.01.T01:CDS 45.0%
ACATGAAGACCCTTTGCAGG+TGG - Chr8:39880875-39880894 None:intergenic 50.0%
AGCAAATCCACCACCTGCAA+AGG + Chr8:39880862-39880881 MsG0880044314.01.T01:CDS 50.0%
CAGTGAGAGCTTCCATGTTG+TGG - Chr8:39879542-39879561 None:intergenic 50.0%
CTGAAGCATGACCAGCTCTA+TGG - Chr8:39881033-39881052 None:intergenic 50.0%
GCAAATCCACCACCTGCAAA+GGG + Chr8:39880863-39880882 MsG0880044314.01.T01:CDS 50.0%
GCGTTGAAGGACAGTATTGC+CGG + Chr8:39880977-39880996 MsG0880044314.01.T01:CDS 50.0%
GGACACTCTATGCGTTTGCA+TGG - Chr8:39879619-39879638 None:intergenic 50.0%
GTCGGGATACGTCTAATTCG+AGG + Chr8:39880140-39880159 MsG0880044314.01.T01:intron 50.0%
GTGTCTGTGCTTCATAGGTC+TGG + Chr8:39880164-39880183 MsG0880044314.01.T01:intron 50.0%
TCTGTGCTTCATAGGTCTGG+AGG + Chr8:39880167-39880186 MsG0880044314.01.T01:intron 50.0%
TGAGAGCTTCCATGTTGTGG+TGG - Chr8:39879539-39879558 None:intergenic 50.0%
TGGCTGTAACCACCACAACA+TGG + Chr8:39879527-39879546 MsG0880044314.01.T01:CDS 50.0%
TGTTGTGGTGGTTACAGCCA+TGG - Chr8:39879527-39879546 None:intergenic 50.0%
! ACAGCCATGGATTGCATGCT+TGG - Chr8:39879514-39879533 None:intergenic 50.0%
! GTGTGTGTTTGGTTTCACGG+TGG - Chr8:39880575-39880594 None:intergenic 50.0%
! TGAGCTAGCATCAGCGTTGA+AGG + Chr8:39880964-39880983 MsG0880044314.01.T01:CDS 50.0%
!! GAGGAGTGTCTGTGCTTCAT+AGG + Chr8:39880159-39880178 MsG0880044314.01.T01:intron 50.0%
!! TTGCAGGTGGTGGATTTGCT+TGG - Chr8:39880862-39880881 None:intergenic 50.0%
CTATGAAGCACGGATGCGGA+CGG + Chr8:39880029-39880048 MsG0880044314.01.T01:intron 55.0%
GGAGCTATGAAGCACGGATG+CGG + Chr8:39880025-39880044 MsG0880044314.01.T01:intron 55.0%
TGAAGACCCTTTGCAGGTGG+TGG - Chr8:39880872-39880891 None:intergenic 55.0%
GTCAGTGTCCGTGTCGTGTC+CGG - Chr8:39880058-39880077 None:intergenic 60.0%
GACGGACACCGGACACGACA+CGG + Chr8:39880047-39880066 MsG0880044314.01.T01:intron 65.0%
GCACGGATGCGGACGGACAC+CGG + Chr8:39880036-39880055 MsG0880044314.01.T01:intron 70.0%
Chromosome Type Strat End Strand Name
Chr8 gene 39879400 39881325 39879400 ID=MsG0880044314.01;Name=MsG0880044314.01
Chr8 mRNA 39879400 39881325 39879400 ID=MsG0880044314.01.T01;Parent=MsG0880044314.01;Name=MsG0880044314.01.T01;_AED=0.47;_eAED=0.47;_QI=117|1|1|1|0.5|0.33|3|152|227
Chr8 exon 39879400 39879764 39879400 ID=MsG0880044314.01.T01:exon:3137;Parent=MsG0880044314.01.T01
Chr8 exon 39880718 39881200 39880718 ID=MsG0880044314.01.T01:exon:3138;Parent=MsG0880044314.01.T01
Chr8 exon 39881221 39881325 39881221 ID=MsG0880044314.01.T01:exon:3139;Parent=MsG0880044314.01.T01
Chr8 five_prime_UTR 39879400 39879516 39879400 ID=MsG0880044314.01.T01:five_prime_utr;Parent=MsG0880044314.01.T01
Chr8 CDS 39879517 39879764 39879517 ID=MsG0880044314.01.T01:cds;Parent=MsG0880044314.01.T01
Chr8 CDS 39880718 39881153 39880718 ID=MsG0880044314.01.T01:cds;Parent=MsG0880044314.01.T01
Chr8 three_prime_UTR 39881154 39881200 39881154 ID=MsG0880044314.01.T01:three_prime_utr;Parent=MsG0880044314.01.T01
Chr8 three_prime_UTR 39881221 39881325 39881221 ID=MsG0880044314.01.T01:three_prime_utr;Parent=MsG0880044314.01.T01
Gene Sequence

>MsG0880044314.01.T01

ATGCAATCCATGGCTGTAACCACCACAACATGGAAGCTCTCACTGTTCTTGACTCTTATCTCAATTTCATTATCAGGTATTCTTTCATATGATATTATACCATGCAAACGCATAGAGTGTCCCAACTATGATGTCATAGAAGCTGGAAATGGCTATGAAATCAGACGTTATAATTCGTCTGTTTGGATTTCCAATTCTCCTATTCAAGACATTTCTCTTGTTGAAGCTACTAGAACTGGTTTCAGGAGGCTATTTGATTACATTCAGGGGAAGAACAACTACCAGCAAAAAATTGAGATGACAGCACCTGTTCTCTCTGAAGTCTTACCAAGTGATGGACCATTTTGTGAGTCTTCATTTGTTGTCAGCTTTTATGTACCAAAAGTGAACCAAGCAAATCCACCACCTGCAAAGGGTCTTCATGTTCAAAGATGGAAATCTGTGTATGCAGCAGTTAGACAATTTGGTGGTTTTGTCAAAGATACAGATGTTGGTGAGCTAGCATCAGCGTTGAAGGACAGTATTGCCGGTACTAAGTGGTCTTCTGCTATTGAACAAAGCCATAGAGCTGGTCATGCTTCAGTTTACTCTGTTGCTCAGTACAATGCCCCTTTTGAATACGATAATAGGGTGAATGAGATATGGTTCTTGTTTGATTTGGAAAATGGTTTGCATTCTATGTGA

Protein sequence

>MsG0880044314.01.T01

MQSMAVTTTTWKLSLFLTLISISLSGILSYDIIPCKRIECPNYDVIEAGNGYEIRRYNSSVWISNSPIQDISLVEATRTGFRRLFDYIQGKNNYQQKIEMTAPVLSEVLPSDGPFCESSFVVSFYVPKVNQANPPPAKGLHVQRWKSVYAAVRQFGGFVKDTDVGELASALKDSIAGTKWSSAIEQSHRAGHASVYSVAQYNAPFEYDNRVNEIWFLFDLENGLHSM*