AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026064.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026064.01.T01 MTR_5g038850 72.897 107 29 0 1 107 1 107 1.68e-51 159
MsG0580026064.01.T01 MTR_5g038850 72.897 107 29 0 1 107 34 140 1.86e-51 160
MsG0580026064.01.T01 MTR_5g038850 72.897 107 29 0 1 107 1 107 1.94e-51 159
MsG0580026064.01.T01 MTR_5g038850 76.000 100 24 0 1 100 34 133 3.05e-51 159
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 43 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACTTATGGCGATCAATAT+TGG 0.343903 5:+30093914 MsG0580026064.01.T01:CDS
TGCAAGAACGGCATCACTCT+TGG 0.379512 5:-30094239 None:intergenic
ACACATTGAAACAGCTGCTT+AGG 0.381681 5:-30093872 None:intergenic
AATGTCAAGGGCATGGTGAT+TGG 0.392910 5:+30094402 MsG0580026064.01.T01:CDS
CAAAGGCCCGGATGACTCTA+TGG 0.410598 5:+30093976 MsG0580026064.01.T01:CDS
TTGATCGCCATAAGTCTTCC+AGG 0.417269 5:-30093908 None:intergenic
AGCAAAACCTGGAAGACTTA+TGG 0.429979 5:+30093901 MsG0580026064.01.T01:CDS
CGATGAAGAAGAAACGGATC+TGG 0.441960 5:-30093127 None:intergenic
TGGAGTTGCCATTACAGATC+TGG 0.444655 5:+30093949 MsG0580026064.01.T01:CDS
CTACCGTTGAATGATAAGTC+TGG 0.460787 5:+30094211 MsG0580026064.01.T01:CDS
TTTGTTCTCCAGATCTGTAA+TGG 0.466604 5:-30093957 None:intergenic
TACTTAGCCATAGAGTCATC+CGG 0.469276 5:-30093983 None:intergenic
GCAAGAACGGCATCACTCTT+GGG 0.469282 5:-30094238 None:intergenic
GGGCATGGTGATTGGAAAGC+TGG 0.473771 5:+30094410 MsG0580026064.01.T01:CDS
GACGACTATCGAGCTGTTCA+AGG 0.479607 5:-30094434 None:intergenic
CGTTCTTGCATCTGAAATCA+AGG 0.489503 5:+30094252 MsG0580026064.01.T01:CDS
ATTTCTTCGATTCCTCCATC+CGG 0.496843 5:+30092963 MsG0580026064.01.T01:five_prime_UTR
TACAACATACATCGGAAGAC+AGG 0.510759 5:-30094458 None:intergenic
TGTGTATGCCAAGCAAAACC+TGG 0.512163 5:+30093890 MsG0580026064.01.T01:CDS
CACATTGAAACAGCTGCTTA+GGG 0.523313 5:-30093871 None:intergenic
TGCATCTGAAATCAAGGAGC+TGG 0.527091 5:+30094258 MsG0580026064.01.T01:CDS
GGAAAACGATGAAGAAGAAA+CGG 0.529559 5:-30093106 None:intergenic
GAGTGTGATTTCAGCTTGGC+CGG 0.530297 5:-30092982 None:intergenic
GTGATTTCAGCTTGGCCGGA+TGG 0.532643 5:-30092978 None:intergenic
CGAAAACGATGAAGAAGAAA+CGG 0.534887 5:-30093133 None:intergenic
CTTGATTTCAGATGCAAGAA+CGG 0.542759 5:-30094251 None:intergenic
ATGGCAACTCCAACATACTC+AGG 0.546125 5:-30093938 None:intergenic
AGATCTGGAGAACAAAGGCC+CGG 0.550303 5:+30093964 MsG0580026064.01.T01:CDS
AATATTGGCCCTGAGTATGT+TGG 0.569814 5:+30093929 MsG0580026064.01.T01:CDS
ACAACATACATCGGAAGACA+GGG 0.573716 5:-30094457 None:intergenic
GGTTGATCGTAACAATGTCA+AGG 0.585258 5:+30094389 MsG0580026064.01.T01:intron
ACTTAGCCATAGAGTCATCC+GGG 0.596959 5:-30093982 None:intergenic
ATTTCAGCTTGGCCGGATGG+AGG 0.599542 5:-30092975 None:intergenic
ATTAAACATACAACATACAT+CGG 0.604969 5:-30094466 None:intergenic
TTTCCAGACTTATCATTCAA+CGG 0.609359 5:-30094214 None:intergenic
ACTTATCATTCAACGGTAGA+CGG 0.611943 5:-30094207 None:intergenic
AGCTGAAATCACACTCACAC+AGG 0.614705 5:+30092989 MsG0580026064.01.T01:five_prime_UTR
GTTGATCGTAACAATGTCAA+GGG 0.618149 5:+30094390 MsG0580026064.01.T01:CDS
TCGTAACAATGTCAAGGGCA+TGG 0.620582 5:+30094395 MsG0580026064.01.T01:CDS
GTGTGAGTGTGATTTCAGCT+TGG 0.631596 5:-30092986 None:intergenic
TGGCAACTCCAACATACTCA+GGG 0.667741 5:-30093937 None:intergenic
ATTACAGATCTGGAGAACAA+AGG 0.681431 5:+30093959 MsG0580026064.01.T01:CDS
CAACATACATCGGAAGACAG+GGG 0.723782 5:-30094456 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATAATAATAATAA+CGG + Chr5:30094111-30094130 MsG0580026064.01.T01:intron 0.0%
!! AAAATAAAAACTAAAACAAA+CGG - Chr5:30094023-30094042 None:intergenic 10.0%
!!! TATAGTTTTGTTATAATATA+AGG + Chr5:30094307-30094326 MsG0580026064.01.T01:intron 10.0%
!! AAATAAAAACTAAAACAAAC+GGG - Chr5:30094022-30094041 None:intergenic 15.0%
!! ATAAATATGATTAATCATGT+TGG - Chr5:30093643-30093662 None:intergenic 15.0%
!!! AATTTTTAAGATGTGAAATT+AGG + Chr5:30093251-30093270 MsG0580026064.01.T01:intron 15.0%
!!! ATTTTTAAGATGTGAAATTA+GGG + Chr5:30093252-30093271 MsG0580026064.01.T01:intron 15.0%
!! AATAAAAACTAAAACAAACG+GGG - Chr5:30094021-30094040 None:intergenic 20.0%
!! ATGAAAATGATTATAAGTAC+CGG - Chr5:30094355-30094374 None:intergenic 20.0%
!! ATTAAACATACAACATACAT+CGG - Chr5:30094469-30094488 None:intergenic 20.0%
!! ATTTAACTGTAATAACTCAA+GGG + Chr5:30093410-30093429 MsG0580026064.01.T01:intron 20.0%
!!! AAAATCATTTGAAACTTACA+AGG - Chr5:30093597-30093616 None:intergenic 20.0%
!!! ATTAATATTGACATTTTGTC+CGG + Chr5:30094333-30094352 MsG0580026064.01.T01:intron 20.0%
!!! GATTTTCAAAAGTCATTAAT+CGG - Chr5:30093310-30093329 None:intergenic 20.0%
!!! TCAAATGATTTTCTTCAATA+AGG + Chr5:30093605-30093624 MsG0580026064.01.T01:intron 20.0%
!!! TTATGTGAGTTTTAAGAAAT+TGG + Chr5:30093373-30093392 MsG0580026064.01.T01:intron 20.0%
!!! TTTTTTGTTGTTGTTGTTTT+TGG + Chr5:30093806-30093825 MsG0580026064.01.T01:intron 20.0%
! ACATCAAGTAACTTATAGAA+TGG - Chr5:30093505-30093524 None:intergenic 25.0%
! GATTTAACTGTAATAACTCA+AGG + Chr5:30093409-30093428 MsG0580026064.01.T01:intron 25.0%
! TACTTCATTGCCTATTTAAT+CGG - Chr5:30093845-30093864 None:intergenic 25.0%
! TGAATTGCATTCAAATTCAA+AGG - Chr5:30093550-30093569 None:intergenic 25.0%
!! GTTTTCTTGATTTCTAATTC+AGG + Chr5:30093070-30093089 MsG0580026064.01.T01:intron 25.0%
AAACGAAGAAAACTGAAGAA+AGG - Chr5:30093026-30093045 None:intergenic 30.0%
CCTATTTAATCGGTAAACAA+AGG - Chr5:30093835-30093854 None:intergenic 30.0%
TAGAAATCAAGAAAACGATG+AGG - Chr5:30093066-30093085 None:intergenic 30.0%
TCAAAAGACTCAAAACCTTA+TGG - Chr5:30093717-30093736 None:intergenic 30.0%
TTTCCAGACTTATCATTCAA+CGG - Chr5:30094217-30094236 None:intergenic 30.0%
! ATTCTGGCTGAAATAGAAAT+TGG + Chr5:30093214-30093233 MsG0580026064.01.T01:intron 30.0%
! CCTTTGTTTACCGATTAAAT+AGG + Chr5:30093832-30093851 MsG0580026064.01.T01:intron 30.0%
!! AAGAAATTGGAAAGTGTTGA+AGG + Chr5:30093386-30093405 MsG0580026064.01.T01:intron 30.0%
!! AGAAATTGGAAAGTGTTGAA+GGG + Chr5:30093387-30093406 MsG0580026064.01.T01:intron 30.0%
AAAGGACTAAAATCGCTTCT+GGG + Chr5:30093434-30093453 MsG0580026064.01.T01:intron 35.0%
ACTTATCATTCAACGGTAGA+CGG - Chr5:30094210-30094229 None:intergenic 35.0%
AGACTTATGGCGATCAATAT+TGG + Chr5:30093914-30093933 MsG0580026064.01.T01:CDS 35.0%
ATTACAGATCTGGAGAACAA+AGG + Chr5:30093959-30093978 MsG0580026064.01.T01:CDS 35.0%
CGAAAACGATGAAGAAGAAA+CGG - Chr5:30093136-30093155 None:intergenic 35.0%
CTGTAATAACTCAAGGGTAA+AGG + Chr5:30093416-30093435 MsG0580026064.01.T01:intron 35.0%
CTTGATTTCAGATGCAAGAA+CGG - Chr5:30094254-30094273 None:intergenic 35.0%
GGAAAACGATGAAGAAGAAA+CGG - Chr5:30093109-30093128 None:intergenic 35.0%
GTTGATCGTAACAATGTCAA+GGG + Chr5:30094390-30094409 MsG0580026064.01.T01:CDS 35.0%
TAAAGGACTAAAATCGCTTC+TGG + Chr5:30093433-30093452 MsG0580026064.01.T01:intron 35.0%
TTTGAGAGACAAACACCATA+AGG + Chr5:30093699-30093718 MsG0580026064.01.T01:intron 35.0%
TTTGTTCTCCAGATCTGTAA+TGG - Chr5:30093960-30093979 None:intergenic 35.0%
! CACATTCATTGTTTTCCAAG+TGG + Chr5:30093763-30093782 MsG0580026064.01.T01:intron 35.0%
! TTTCTTCTTCATCGTTTTCG+AGG + Chr5:30093136-30093155 MsG0580026064.01.T01:five_prime_UTR 35.0%
AATATTGGCCCTGAGTATGT+TGG + Chr5:30093929-30093948 MsG0580026064.01.T01:CDS 40.0%
ACAACATACATCGGAAGACA+GGG - Chr5:30094460-30094479 None:intergenic 40.0%
ACACATTGAAACAGCTGCTT+AGG - Chr5:30093875-30093894 None:intergenic 40.0%
AGCAAAACCTGGAAGACTTA+TGG + Chr5:30093901-30093920 MsG0580026064.01.T01:CDS 40.0%
ATCCAAACAAACAGTCCACT+TGG - Chr5:30093781-30093800 None:intergenic 40.0%
ATTTCTTCGATTCCTCCATC+CGG + Chr5:30092963-30092982 MsG0580026064.01.T01:five_prime_UTR 40.0%
CACATTGAAACAGCTGCTTA+GGG - Chr5:30093874-30093893 None:intergenic 40.0%
CTACCGTTGAATGATAAGTC+TGG + Chr5:30094211-30094230 MsG0580026064.01.T01:CDS 40.0%
GGTTGATCGTAACAATGTCA+AGG + Chr5:30094389-30094408 MsG0580026064.01.T01:intron 40.0%
TACAACATACATCGGAAGAC+AGG - Chr5:30094461-30094480 None:intergenic 40.0%
TACTTAGCCATAGAGTCATC+CGG - Chr5:30093986-30094005 None:intergenic 40.0%
! CGTTCTTGCATCTGAAATCA+AGG + Chr5:30094252-30094271 MsG0580026064.01.T01:CDS 40.0%
! TAAGTCTTCCAGGTTTTGCT+TGG - Chr5:30093901-30093920 None:intergenic 40.0%
!! TTCCAAGTGGACTGTTTGTT+TGG + Chr5:30093776-30093795 MsG0580026064.01.T01:intron 40.0%
ACTTAGCCATAGAGTCATCC+GGG - Chr5:30093985-30094004 None:intergenic 45.0%
AGCTGAAATCACACTCACAC+AGG + Chr5:30092989-30093008 MsG0580026064.01.T01:five_prime_UTR 45.0%
ATGGCAACTCCAACATACTC+AGG - Chr5:30093941-30093960 None:intergenic 45.0%
CAACATACATCGGAAGACAG+GGG - Chr5:30094459-30094478 None:intergenic 45.0%
CGATGAAGAAGAAACGGATC+TGG - Chr5:30093130-30093149 None:intergenic 45.0%
GTGTGAGTGTGATTTCAGCT+TGG - Chr5:30092989-30093008 None:intergenic 45.0%
TCGTAACAATGTCAAGGGCA+TGG + Chr5:30094395-30094414 MsG0580026064.01.T01:CDS 45.0%
TGGAGTTGCCATTACAGATC+TGG + Chr5:30093949-30093968 MsG0580026064.01.T01:CDS 45.0%
TGGCAACTCCAACATACTCA+GGG - Chr5:30093940-30093959 None:intergenic 45.0%
TGTGTATGCCAAGCAAAACC+TGG + Chr5:30093890-30093909 MsG0580026064.01.T01:CDS 45.0%
TTGATCGCCATAAGTCTTCC+AGG - Chr5:30093911-30093930 None:intergenic 45.0%
! AATGTCAAGGGCATGGTGAT+TGG + Chr5:30094402-30094421 MsG0580026064.01.T01:CDS 45.0%
! TGCATCTGAAATCAAGGAGC+TGG + Chr5:30094258-30094277 MsG0580026064.01.T01:CDS 45.0%
!! ATAATAATAATAATAATAAC+GGG + Chr5:30094166-30094185 MsG0580026064.01.T01:intron 5.0%
!!! TTTTCATTTTAATTAATTAT+AGG + Chr5:30094368-30094387 MsG0580026064.01.T01:intron 5.0%
AGATCTGGAGAACAAAGGCC+CGG + Chr5:30093964-30093983 MsG0580026064.01.T01:CDS 50.0%
GACGACTATCGAGCTGTTCA+AGG - Chr5:30094437-30094456 None:intergenic 50.0%
GAGTGTGATTTCAGCTTGGC+CGG - Chr5:30092985-30093004 None:intergenic 50.0%
GCAAGAACGGCATCACTCTT+GGG - Chr5:30094241-30094260 None:intergenic 50.0%
TGCAAGAACGGCATCACTCT+TGG - Chr5:30094242-30094261 None:intergenic 50.0%
! GCTGCTGCGTTTTCGTATTC+TGG + Chr5:30093198-30093217 MsG0580026064.01.T01:intron 50.0%
ATTTCAGCTTGGCCGGATGG+AGG - Chr5:30092978-30092997 None:intergenic 55.0%
CAAAGGCCCGGATGACTCTA+TGG + Chr5:30093976-30093995 MsG0580026064.01.T01:CDS 55.0%
GGGCATGGTGATTGGAAAGC+TGG + Chr5:30094410-30094429 MsG0580026064.01.T01:CDS 55.0%
GTGATTTCAGCTTGGCCGGA+TGG - Chr5:30092981-30093000 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 30092946 30094506 30092946 ID=MsG0580026064.01;Name=MsG0580026064.01
Chr5 mRNA 30092946 30094506 30092946 ID=MsG0580026064.01.T01;Parent=MsG0580026064.01;Name=MsG0580026064.01.T01;_AED=0.48;_eAED=0.50;_QI=134|1|0.8|1|0.5|0.4|5|0|111
Chr5 exon 30092946 30093010 30092946 ID=MsG0580026064.01.T01:exon:33721;Parent=MsG0580026064.01.T01
Chr5 exon 30093092 30093157 30093092 ID=MsG0580026064.01.T01:exon:33722;Parent=MsG0580026064.01.T01
Chr5 exon 30093854 30094002 30093854 ID=MsG0580026064.01.T01:exon:33723;Parent=MsG0580026064.01.T01
Chr5 exon 30094207 30094279 30094207 ID=MsG0580026064.01.T01:exon:33724;Parent=MsG0580026064.01.T01
Chr5 exon 30094390 30094506 30094390 ID=MsG0580026064.01.T01:exon:33725;Parent=MsG0580026064.01.T01
Chr5 five_prime_UTR 30092946 30093010 30092946 ID=MsG0580026064.01.T01:five_prime_utr;Parent=MsG0580026064.01.T01
Chr5 five_prime_UTR 30093092 30093157 30093092 ID=MsG0580026064.01.T01:five_prime_utr;Parent=MsG0580026064.01.T01
Chr5 five_prime_UTR 30093854 30093856 30093854 ID=MsG0580026064.01.T01:five_prime_utr;Parent=MsG0580026064.01.T01
Chr5 CDS 30093857 30094002 30093857 ID=MsG0580026064.01.T01:cds;Parent=MsG0580026064.01.T01
Chr5 CDS 30094207 30094279 30094207 ID=MsG0580026064.01.T01:cds;Parent=MsG0580026064.01.T01
Chr5 CDS 30094390 30094506 30094390 ID=MsG0580026064.01.T01:cds;Parent=MsG0580026064.01.T01
Gene Sequence

>MsG0580026064.01.T01

ATGAAGTACATGCTCCCTAAGCAGCTGTTTCAATGTGTATGCCAAGCAAAACCTGGAAGACTTATGGCGATCAATATTGGCCCTGAGTATGTTGGAGTTGCCATTACAGATCTGGAGAACAAAGGCCCGGATGACTCTATGGCTAACCGTCTACCGTTGAATGATAAGTCTGGAAAGCCCAAGAGTGATGCCGTTCTTGCATCTGAAATCAAGGAGCTGGTTGATCGTAACAATGTCAAGGGCATGGTGATTGGAAAGCTGGACCTTGAACAGCTCGATAGTCGTCCCCTGTCTTCCGATGTATGTTGTATGTTTAATTTCAAGTGCAAAAATTAA
Protein sequence

>MsG0580026064.01.T01

MKYMLPKQLFQCVCQAKPGRLMAINIGPEYVGVAITDLENKGPDDSMANRLPLNDKSGKPKSDAVLASEIKELVDRNNVKGMVIGKLDLEQLDSRPLSSDVCCMFNFKCKN*