AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025049.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025049.01.T01 MTR_5g021530 95.327 214 10 0 11 224 145 358 4.92e-148 421
MsG0580025049.01.T01 MTR_8g076210 76.389 216 51 0 9 224 120 335 1.82e-117 342
MsG0580025049.01.T01 MTR_6g014000 48.588 177 35 2 13 189 155 275 2.04e-41 147
MsG0580025049.01.T01 MTR_7g105400 35.714 140 79 5 14 142 170 309 5.90e-13 67.8
MsG0580025049.01.T01 MTR_7g105390 29.075 227 124 9 14 214 165 380 2.63e-11 62.8
MsG0580025049.01.T01 MTR_7g105390 34.211 114 67 2 14 119 183 296 3.41e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025049.01.T01 AT4G36190 65.438 217 74 1 9 224 152 368 8.82e-102 303
MsG0580025049.01.T01 AT4G36195 65.899 217 73 1 9 224 152 368 1.40e-101 303
MsG0580025049.01.T01 AT4G36195 65.899 217 73 1 9 224 152 368 1.58e-101 303
MsG0580025049.01.T01 AT4G36195 65.899 217 73 1 9 224 152 368 1.58e-101 303
MsG0580025049.01.T01 AT2G18080 61.860 215 80 1 9 221 152 366 7.01e-95 286
MsG0580025049.01.T01 AT2G24280 27.556 225 127 9 15 214 159 372 2.60e-11 62.8
MsG0580025049.01.T01 AT2G24280 27.556 225 127 9 15 214 159 372 2.92e-11 62.8

Find 45 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAAAACTCTTTGATAAATT+TGG 0.123339 5:+13267847 None:intergenic
TGATAAATGCTTCCTGAAAT+TGG 0.189185 5:-13268988 None:intergenic
TACTGAGGTTGCATACTTTC+AGG 0.189361 5:-13267720 MsG0580025049.01.T01:CDS
GACAATCCCTGGTTCGTATT+TGG 0.213224 5:-13268913 MsG0580025049.01.T01:CDS
CGGTGATTTCTTGTATTTCT+TGG 0.250029 5:-13268276 MsG0580025049.01.T01:CDS
AAGAATATACTGCCAATTTC+AGG 0.323648 5:+13268976 None:intergenic
GTATATTAACAATGGAAATA+AGG 0.325260 5:+13267644 None:intergenic
CAGTGTTCTTCAAGTTCTTT+TGG 0.336857 5:+13267789 None:intergenic
AATTGGCAGTATATTCTTGC+AGG 0.344349 5:-13268971 MsG0580025049.01.T01:CDS
GAAGAAGGACGGCGAGGATT+TGG 0.352683 5:-13268093 MsG0580025049.01.T01:CDS
AGAGGCTTGCATAATATATC+AGG 0.380488 5:+13268125 None:intergenic
GATCGAAAACTTGCAACTAA+TGG 0.382807 5:-13268470 MsG0580025049.01.T01:CDS
GCTATCACTGAAAACAGTTC+TGG 0.427215 5:-13267767 MsG0580025049.01.T01:CDS
AACTAATGGAAAGGCATTGA+AGG 0.436371 5:-13268456 MsG0580025049.01.T01:CDS
TGAATGTTTCAGTTTCAATA+CGG 0.447537 5:-13268152 MsG0580025049.01.T01:intron
AACCATGCACTGAGAGCTCC+AGG 0.463971 5:+13268880 None:intergenic
TCCTTCTTCGCTTTAACAAG+AGG 0.482709 5:+13268107 None:intergenic
GTCGGCAGGTGTTGAATGTA+AGG 0.485695 5:-13268522 MsG0580025049.01.T01:CDS
CTTCACAGAATTTGATCAGC+AGG 0.491409 5:-13268788 MsG0580025049.01.T01:intron
GAATGTTTCAGTTTCAATAC+GGG 0.502329 5:-13268151 MsG0580025049.01.T01:intron
TACTTTCACCTTCAGTTCCA+AGG 0.504143 5:+13267825 None:intergenic
GGAGCGTATACTGTCATTTG+AGG 0.507310 5:+13267691 None:intergenic
GAAGGACGGCGAGGATTTGG+TGG 0.507610 5:-13268090 MsG0580025049.01.T01:intron
GCCTCTTGTTAAAGCGAAGA+AGG 0.509807 5:-13268108 MsG0580025049.01.T01:CDS
GTATTTGGTGTTTCATACCC+TGG 0.529286 5:-13268898 MsG0580025049.01.T01:CDS
ATGCAGATTGGTGAGTCGGC+AGG 0.541853 5:-13268536 MsG0580025049.01.T01:intron
ACCCTGGAGCTCTCAGTGCA+TGG 0.550259 5:-13268882 MsG0580025049.01.T01:CDS
TAACATGCAGATTGGTGAGT+CGG 0.559633 5:-13268540 MsG0580025049.01.T01:intron
GAGCGTATACTGTCATTTGA+GGG 0.567349 5:+13267692 None:intergenic
AGAGAGAAGTATATTAACAA+TGG 0.576021 5:+13267636 None:intergenic
AAAACTTGCAACTAATGGAA+AGG 0.577807 5:-13268465 MsG0580025049.01.T01:CDS
GGCTGATGCTGCTGTTACAG+CGG 0.587685 5:-13268255 MsG0580025049.01.T01:intron
AGACTTCCACATGTTAAATG+TGG 0.602160 5:+13268844 None:intergenic
TGAGGTTGCATACTTTCAGG+TGG 0.602164 5:-13267717 MsG0580025049.01.T01:CDS
CTTGTTAAAGCGAAGAAGGA+CGG 0.605377 5:-13268104 MsG0580025049.01.T01:CDS
TGAAACACCAAATACGAACC+AGG 0.616013 5:+13268906 None:intergenic
AAGTTTCCACATTTAACATG+TGG 0.628526 5:-13268850 MsG0580025049.01.T01:CDS
TTAAATGTGGAAACTTAAGA+CGG 0.644137 5:+13268857 None:intergenic
ACAGTTCTGGTAGACTGTGG+TGG 0.644242 5:-13267754 MsG0580025049.01.T01:CDS
GTGGTTTCAAGTTTGTACTG+AGG 0.661390 5:-13267735 MsG0580025049.01.T01:CDS
GAAACACCAAATACGAACCA+GGG 0.662124 5:+13268907 None:intergenic
GCTCCTCAAAAGTTGACACA+AGG 0.698403 5:-13267673 MsG0580025049.01.T01:CDS
ACCATGCACTGAGAGCTCCA+GGG 0.699923 5:+13268881 None:intergenic
TAAAGCGAAGAAGGACGGCG+AGG 0.706442 5:-13268099 MsG0580025049.01.T01:CDS
AAAACAGTTCTGGTAGACTG+TGG 0.763757 5:-13267757 MsG0580025049.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAGGAAAAATAAAAATGAA+AGG + Chr5:13268656-13268675 None:intergenic 20.0%
!! GTAAAACTCTTTGATAAATT+TGG + Chr5:13268787-13268806 None:intergenic 20.0%
!!! AGATTATAATATGCTTTAGA+AGG + Chr5:13268243-13268262 None:intergenic 20.0%
! ACATATATAATTCACTATGC+AGG - Chr5:13268752-13268771 MsG0580025049.01.T01:intron 25.0%
! AGGAAAAATATTACTAAGCA+AGG + Chr5:13268674-13268693 None:intergenic 25.0%
! ATGACTATATTGTATGACAA+AGG + Chr5:13268694-13268713 None:intergenic 25.0%
! GTTCTATCAAAAACCATATT+TGG + Chr5:13267913-13267932 None:intergenic 25.0%
! TGAATGTTTCAGTTTCAATA+CGG - Chr5:13268479-13268498 MsG0580025049.01.T01:CDS 25.0%
! TTAAATGTGGAAACTTAAGA+CGG + Chr5:13267777-13267796 None:intergenic 25.0%
!! TTTATCAAAGAGTTTTACCT+TGG - Chr5:13268789-13268808 MsG0580025049.01.T01:CDS 25.0%
!!! CTTATTGTATAGTTCTAAGT+TGG - Chr5:13268728-13268747 MsG0580025049.01.T01:intron 25.0%
AAAACTTGCAACTAATGGAA+AGG - Chr5:13268166-13268185 MsG0580025049.01.T01:intron 30.0%
AAACATTCACAAAGAAGACA+TGG + Chr5:13268468-13268487 None:intergenic 30.0%
AAGAATATACTGCCAATTTC+AGG + Chr5:13267658-13267677 None:intergenic 30.0%
AAGTTTCCACATTTAACATG+TGG - Chr5:13267781-13267800 MsG0580025049.01.T01:CDS 30.0%
ACAAAAATGTATGACCAAGA+AGG + Chr5:13267886-13267905 None:intergenic 30.0%
GAATGTTTCAGTTTCAATAC+GGG - Chr5:13268480-13268499 MsG0580025049.01.T01:CDS 30.0%
TCTATCTTTAACATGCAGAT+TGG - Chr5:13268083-13268102 MsG0580025049.01.T01:intron 30.0%
! CATTTTTGTGGATCCAAATA+TGG - Chr5:13267897-13267916 MsG0580025049.01.T01:intron 30.0%
! TACATTTTTGTGTGTCAAGA+TGG - Chr5:13268013-13268032 MsG0580025049.01.T01:intron 30.0%
! TGGTTTTTGATAGAACACTA+TGG - Chr5:13267917-13267936 MsG0580025049.01.T01:intron 30.0%
! TTCTTGGTCATACATTTTTG+TGG - Chr5:13267885-13267904 MsG0580025049.01.T01:intron 30.0%
!! AATCCTGAATGAACTTGTTT+TGG - Chr5:13268612-13268631 MsG0580025049.01.T01:intron 30.0%
!! TTTTCGATCAATAAGTTGAG+TGG + Chr5:13268150-13268169 None:intergenic 30.0%
AATTGGCAGTATATTCTTGC+AGG - Chr5:13267660-13267679 MsG0580025049.01.T01:CDS 35.0%
AGACTTCCACATGTTAAATG+TGG + Chr5:13267790-13267809 None:intergenic 35.0%
AGAGGCTTGCATAATATATC+AGG + Chr5:13268509-13268528 None:intergenic 35.0%
AGATAGTGATTTCTCCTTCT+TGG - Chr5:13267869-13267888 MsG0580025049.01.T01:intron 35.0%
AGTCGTAGAAGAAAATCTAG+TGG + Chr5:13268296-13268315 None:intergenic 35.0%
CATCCAAAACAAGTTCATTC+AGG + Chr5:13268618-13268637 None:intergenic 35.0%
CGGTGATTTCTTGTATTTCT+TGG - Chr5:13268355-13268374 MsG0580025049.01.T01:intron 35.0%
GATCGAAAACTTGCAACTAA+TGG - Chr5:13268161-13268180 MsG0580025049.01.T01:intron 35.0%
GTCGTAGAAGAAAATCTAGT+GGG + Chr5:13268295-13268314 None:intergenic 35.0%
TCGTAGAAGAAAATCTAGTG+GGG + Chr5:13268294-13268313 None:intergenic 35.0%
TCTGCCAAAACATTTCGAAA+CGG - Chr5:13268586-13268605 MsG0580025049.01.T01:intron 35.0%
! GTTGTTGTTGTTGTTGTTGT+TGG - Chr5:13267987-13268006 MsG0580025049.01.T01:intron 35.0%
! GTTTTGCAGCTTGAAATTGA+CGG - Chr5:13268335-13268354 MsG0580025049.01.T01:intron 35.0%
!! AACTAATGGAAAGGCATTGA+AGG - Chr5:13268175-13268194 MsG0580025049.01.T01:intron 35.0%
!! CAGTGTTCTTCAAGTTCTTT+TGG + Chr5:13268845-13268864 None:intergenic 35.0%
AAGAAAATCTAGTGGGGACT+CGG + Chr5:13268288-13268307 None:intergenic 40.0%
CTTCACAGAATTTGATCAGC+AGG - Chr5:13267843-13267862 MsG0580025049.01.T01:CDS 40.0%
CTTGTTAAAGCGAAGAAGGA+CGG - Chr5:13268527-13268546 MsG0580025049.01.T01:CDS 40.0%
GAAACACCAAATACGAACCA+GGG + Chr5:13267727-13267746 None:intergenic 40.0%
GAACAAAAACTGACAATCCC+TGG - Chr5:13267707-13267726 MsG0580025049.01.T01:CDS 40.0%
GCTATCACTGAAAACAGTTC+TGG - Chr5:13268864-13268883 MsG0580025049.01.T01:CDS 40.0%
TAACATGCAGATTGGTGAGT+CGG - Chr5:13268091-13268110 MsG0580025049.01.T01:CDS 40.0%
TACTGAGGTTGCATACTTTC+AGG - Chr5:13268911-13268930 MsG0580025049.01.T01:CDS 40.0%
TACTTTCACCTTCAGTTCCA+AGG + Chr5:13268809-13268828 None:intergenic 40.0%
TCCTTCTTCGCTTTAACAAG+AGG + Chr5:13268527-13268546 None:intergenic 40.0%
TCTTCTACGACTCTCATGTT+GGG - Chr5:13268304-13268323 MsG0580025049.01.T01:intron 40.0%
TGAAACACCAAATACGAACC+AGG + Chr5:13267728-13267747 None:intergenic 40.0%
TTCTTCTACGACTCTCATGT+TGG - Chr5:13268303-13268322 MsG0580025049.01.T01:intron 40.0%
! AAAACAGTTCTGGTAGACTG+TGG - Chr5:13268874-13268893 MsG0580025049.01.T01:CDS 40.0%
! AAGCCTTATCCCACTAAGTA+GGG + Chr5:13267966-13267985 None:intergenic 40.0%
! GAGCGTATACTGTCATTTGA+GGG + Chr5:13268942-13268961 None:intergenic 40.0%
! GAGTTTTACCTTGGAACTGA+AGG - Chr5:13268798-13268817 MsG0580025049.01.T01:CDS 40.0%
! TGAGCCGTTTCGAAATGTTT+TGG + Chr5:13268593-13268612 None:intergenic 40.0%
! TTGCCTTGTGTCAACTTTTG+AGG + Chr5:13268964-13268983 None:intergenic 40.0%
!! GTATTTGGTGTTTCATACCC+TGG - Chr5:13267733-13267752 MsG0580025049.01.T01:CDS 40.0%
!! GTGGTTTCAAGTTTGTACTG+AGG - Chr5:13268896-13268915 MsG0580025049.01.T01:CDS 40.0%
AGAAAATCTAGTGGGGACTC+GGG + Chr5:13268287-13268306 None:intergenic 45.0%
CTACTTAGTGGGATAAGGCT+TGG - Chr5:13267965-13267984 MsG0580025049.01.T01:intron 45.0%
CTTATCCCACTAAGTAGGGT+CGG + Chr5:13267962-13267981 None:intergenic 45.0%
GCCTCTTGTTAAAGCGAAGA+AGG - Chr5:13268523-13268542 MsG0580025049.01.T01:CDS 45.0%
GCTCCTCAAAAGTTGACACA+AGG - Chr5:13268958-13268977 MsG0580025049.01.T01:CDS 45.0%
TGAGGTTGCATACTTTCAGG+TGG - Chr5:13268914-13268933 MsG0580025049.01.T01:CDS 45.0%
! CAAGCCTTATCCCACTAAGT+AGG + Chr5:13267967-13267986 None:intergenic 45.0%
! GACAATCCCTGGTTCGTATT+TGG - Chr5:13267718-13267737 MsG0580025049.01.T01:CDS 45.0%
! GGAGCGTATACTGTCATTTG+AGG + Chr5:13268943-13268962 None:intergenic 45.0%
ACTAAGTAGGGTCGGCTACA+TGG + Chr5:13267954-13267973 None:intergenic 50.0%
ATGTAGCCGACCCTACTTAG+TGG - Chr5:13267953-13267972 MsG0580025049.01.T01:intron 50.0%
CGACCCTACTTAGTGGGATA+AGG - Chr5:13267960-13267979 MsG0580025049.01.T01:intron 50.0%
TGTAGCCGACCCTACTTAGT+GGG - Chr5:13267954-13267973 MsG0580025049.01.T01:intron 50.0%
! ACAGTTCTGGTAGACTGTGG+TGG - Chr5:13268877-13268896 MsG0580025049.01.T01:CDS 50.0%
!! GTCGGCAGGTGTTGAATGTA+AGG - Chr5:13268109-13268128 MsG0580025049.01.T01:CDS 50.0%
AACCATGCACTGAGAGCTCC+AGG + Chr5:13267754-13267773 None:intergenic 55.0%
ACCATGCACTGAGAGCTCCA+GGG + Chr5:13267753-13267772 None:intergenic 55.0%
ATGCAGATTGGTGAGTCGGC+AGG - Chr5:13268095-13268114 MsG0580025049.01.T01:CDS 55.0%
GAAGAAGGACGGCGAGGATT+TGG - Chr5:13268538-13268557 MsG0580025049.01.T01:intron 55.0%
GGCTGATGCTGCTGTTACAG+CGG - Chr5:13268376-13268395 MsG0580025049.01.T01:intron 55.0%
TAAAGCGAAGAAGGACGGCG+AGG - Chr5:13268532-13268551 MsG0580025049.01.T01:CDS 55.0%
ACCCTGGAGCTCTCAGTGCA+TGG - Chr5:13267749-13267768 MsG0580025049.01.T01:CDS 60.0%
GAAGGACGGCGAGGATTTGG+TGG - Chr5:13268541-13268560 MsG0580025049.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 13267649 13269004 13267649 ID=MsG0580025049.01;Name=MsG0580025049.01
Chr5 mRNA 13267649 13269004 13267649 ID=MsG0580025049.01.T01;Parent=MsG0580025049.01;Name=MsG0580025049.01.T01;_AED=0.43;_eAED=0.47;_QI=0|1|0.6|1|1|1|5|0|229
Chr5 exon 13268789 13269004 13268789 ID=MsG0580025049.01.T01:exon:5531;Parent=MsG0580025049.01.T01
Chr5 exon 13268436 13268552 13268436 ID=MsG0580025049.01.T01:exon:5530;Parent=MsG0580025049.01.T01
Chr5 exon 13268256 13268309 13268256 ID=MsG0580025049.01.T01:exon:5529;Parent=MsG0580025049.01.T01
Chr5 exon 13268091 13268162 13268091 ID=MsG0580025049.01.T01:exon:5528;Parent=MsG0580025049.01.T01
Chr5 exon 13267649 13267879 13267649 ID=MsG0580025049.01.T01:exon:5527;Parent=MsG0580025049.01.T01
Chr5 CDS 13268789 13269004 13268789 ID=MsG0580025049.01.T01:cds;Parent=MsG0580025049.01.T01
Chr5 CDS 13268436 13268552 13268436 ID=MsG0580025049.01.T01:cds;Parent=MsG0580025049.01.T01
Chr5 CDS 13268256 13268309 13268256 ID=MsG0580025049.01.T01:cds;Parent=MsG0580025049.01.T01
Chr5 CDS 13268091 13268162 13268091 ID=MsG0580025049.01.T01:cds;Parent=MsG0580025049.01.T01
Chr5 CDS 13267649 13267879 13267649 ID=MsG0580025049.01.T01:cds;Parent=MsG0580025049.01.T01
Gene Sequence

>MsG0580025049.01.T01

ATGCTTCCTGAAATTGGCAGTATATTCTTGCAGGACTCTTTAAATGTAAAGCTTAATAGAACAAAAACTGACAATCCCTGGTTCGTATTTGGTGTTTCATACCCTGGAGCTCTCAGTGCATGGTTCCGTCTTAAGTTTCCACATTTAACATGTGGAAGTCTTGCAAGTTCTGCAGTTGTTCTTGCTGTTTACAACTTCACAGAATTTGATCAGCAGATTGGTGAGTCGGCAGGTGTTGAATGTAAGGCAGCATTACAAGAAACCACTCAACTTATTGATCGAAAACTTGCAACTAATGGAAAGGCATTGAAGGCTTCTTTTAATGCAGCTGATCTTGAAATTGACGGTGATTTCTTGTATTTCTTGGCTGATGCTGCTGTTACAGCGTTTCAATACGGGAATCCTGATATATTATGCAAGCCTCTTGTTAAAGCGAAGAAGGACGGCGAGGATTTGGTGGATGCTTATGCCAAATTTATCAAAGAGTTTTACCTTGGAACTGAAGGTGAAAGTACACAAGATTATAACCAAAAGAACTTGAAGAACACTGCTATCACTGAAAACAGTTCTGGTAGACTGTGGTGGTTTCAAGTTTGTACTGAGGTTGCATACTTTCAGGTGGCTCCCTCAAATGACAGTATACGCTCCTCAAAAGTTGACACAAGGCAATATCCTTATTTCCATTGTTAA

Protein sequence

>MsG0580025049.01.T01

MLPEIGSIFLQDSLNVKLNRTKTDNPWFVFGVSYPGALSAWFRLKFPHLTCGSLASSAVVLAVYNFTEFDQQIGESAGVECKAALQETTQLIDRKLATNGKALKASFNAADLEIDGDFLYFLADAAVTAFQYGNPDILCKPLVKAKKDGEDLVDAYAKFIKEFYLGTEGESTQDYNQKNLKNTAITENSSGRLWWFQVCTEVAYFQVAPSNDSIRSSKVDTRQYPYFHC*