AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010523.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010523.01.T01 MTR_2g086590 91.985 262 20 1 1 262 1 261 1.32e-169 469
MsG0280010523.01.T01 MTR_4g052880 38.961 231 114 8 1 220 1 215 1.75e-33 122
MsG0280010523.01.T01 MTR_7g113950 38.406 138 78 3 112 247 106 238 4.93e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010523.01.T01 AT5G22390 33.621 232 93 7 1 221 1 182 1.81e-21 89.7
MsG0280010523.01.T01 AT1G54740 33.043 115 74 2 106 219 33 145 7.32e-12 64.7

Find 69 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTCCTGATGATGAGTTTC+TGG 0.094474 2:+70926953 MsG0280010523.01.T01:CDS
GGAAGCCTTGGGTTTATTTC+AGG 0.176058 2:+70926823 MsG0280010523.01.T01:CDS
TTCAGGTCTATTAGGAATAA+TGG 0.250900 2:+70926840 MsG0280010523.01.T01:CDS
TCTTCAAGACATCATTCTTA+TGG 0.257835 2:+70926738 MsG0280010523.01.T01:CDS
GGGTTTATTTCAGGTCTATT+AGG 0.260287 2:+70926832 MsG0280010523.01.T01:CDS
TCCTCCTTTACTGAGATATT+TGG 0.276616 2:+70926408 MsG0280010523.01.T01:CDS
AAGAAGCTGAAGATGGAGTT+TGG 0.330013 2:-70926518 None:intergenic
GATGAAGGAGAGAATGATAT+AGG 0.348515 2:+70926984 MsG0280010523.01.T01:CDS
GAAATAAACCCAAGGCTTCC+CGG 0.351372 2:-70926820 None:intergenic
AGTAAAGGAGGAGGACTCTA+TGG 0.362243 2:-70926397 None:intergenic
CATCTTTGCACCGAAGGTCT+TGG 0.374924 2:+70926621 MsG0280010523.01.T01:CDS
GGTCCTCCCTATGCTTGAAA+TGG 0.394454 2:-70926799 None:intergenic
TAGGGAGGACCGGGAAGCCT+TGG 0.399372 2:+70926811 MsG0280010523.01.T01:CDS
CTGTTGGTATGCCTTGCTAT+TGG 0.401166 2:-70926552 None:intergenic
TATAAGCACGCAGGACCTCC+TGG 0.403062 2:-70926896 None:intergenic
AGGGAGGACCGGGAAGCCTT+GGG 0.431578 2:+70926812 MsG0280010523.01.T01:CDS
TTGATGATGATTCCTTGAAA+TGG 0.433133 2:-70926437 None:intergenic
TCTTCCAGAAACTCATCATC+AGG 0.449345 2:-70926957 None:intergenic
GAAAGGGATTGAAGCAGTGT+TGG 0.454932 2:-70926348 None:intergenic
ATTTGGTGAACTCCATTTCA+AGG 0.460735 2:+70926425 MsG0280010523.01.T01:CDS
TTCAGAATTCAGCCATGAAA+AGG 0.472686 2:-70926592 None:intergenic
AAGACTCAGACTCTTTGATC+TGG 0.478220 2:-70926485 None:intergenic
CAATAGCAAGGCATACCAAC+AGG 0.489567 2:+70926553 MsG0280010523.01.T01:CDS
GTCCTCCCTATGCTTGAAAT+GGG 0.492965 2:-70926798 None:intergenic
CTCCTCCCATTTCAAGCATA+GGG 0.493217 2:+70926793 MsG0280010523.01.T01:CDS
GGGTGTCAAAGATGTGTTGT+AGG 0.504528 2:-70926311 None:intergenic
TAGGCTGTCACAGGTTGCCA+TGG 0.514804 2:-70926292 None:intergenic
CCTCCTCCCATTTCAAGCAT+AGG 0.517066 2:+70926792 MsG0280010523.01.T01:CDS
TCGGTATCCTTACCTCTTCG+AGG 0.517417 2:-70926872 None:intergenic
ATGGAGAATGTAGGAGGTCA+AGG 0.523495 2:+70926757 MsG0280010523.01.T01:CDS
ATTTCAAGCATAGGGAGGAC+CGG 0.525710 2:+70926801 MsG0280010523.01.T01:CDS
TTCACCAAATATCTCAGTAA+AGG 0.527789 2:-70926412 None:intergenic
AGCATGCATCTTTGCACCGA+AGG 0.535589 2:+70926615 MsG0280010523.01.T01:CDS
GAGGACTCTATGGATTTCAC+TGG 0.537192 2:-70926387 None:intergenic
CCTATGCTTGAAATGGGAGG+AGG 0.541240 2:-70926792 None:intergenic
CTGCGTGCTTATAGAGAGGA+TGG 0.545087 2:+70926906 MsG0280010523.01.T01:CDS
GATTTGTCCTCGAAGAGGTA+AGG 0.546648 2:+70926865 MsG0280010523.01.T01:CDS
ATAAGCACGCAGGACCTCCT+GGG 0.552052 2:-70926895 None:intergenic
ACTCTCAAAACCAAGACCTT+CGG 0.553557 2:-70926631 None:intergenic
AGAGGTAAGGATACCGACCC+AGG 0.560235 2:+70926878 MsG0280010523.01.T01:CDS
TTTCAATTACACCAATAGCA+AGG 0.571241 2:+70926541 MsG0280010523.01.T01:CDS
ACCAAATATCTCAGTAAAGG+AGG 0.572346 2:-70926409 None:intergenic
AGAAGACATGGCAAAAGAAG+AGG 0.576952 2:+70927025 MsG0280010523.01.T01:CDS
TGATCTGGTTGAAGTTTGTG+TGG 0.577238 2:-70926470 None:intergenic
ATCATTCTTATGGAGAATGT+AGG 0.580254 2:+70926748 MsG0280010523.01.T01:CDS
TGAGAGTTCAGACGATGTCG+AGG 0.585948 2:+70926647 MsG0280010523.01.T01:CDS
TTTCAAGCATAGGGAGGACC+GGG 0.586404 2:+70926802 MsG0280010523.01.T01:CDS
AAATATCTCAGTAAAGGAGG+AGG 0.599938 2:-70926406 None:intergenic
CTATGCTTGAAATGGGAGGA+GGG 0.601586 2:-70926791 None:intergenic
TTTCTGGAAGATGAGGATGA+AGG 0.603701 2:+70926969 MsG0280010523.01.T01:CDS
AGCTGAGGAAGGAGAAGACA+TGG 0.613301 2:+70927013 MsG0280010523.01.T01:CDS
TCCAGAAACTCATCATCAGG+AGG 0.618671 2:-70926954 None:intergenic
TGGAGAATGTAGGAGGTCAA+GGG 0.619517 2:+70926758 MsG0280010523.01.T01:CDS
GATGTGTTGTAGGCTGTCAC+AGG 0.621992 2:-70926301 None:intergenic
CTCCCTATGCTTGAAATGGG+AGG 0.622171 2:-70926795 None:intergenic
GATGTCGAGGACTCAAAGAG+TGG 0.622521 2:+70926660 MsG0280010523.01.T01:CDS
ATAGGATGCATAGCTGAGGA+AGG 0.625542 2:+70927002 MsG0280010523.01.T01:CDS
ATTCTTATGGAGAATGTAGG+AGG 0.629147 2:+70926751 MsG0280010523.01.T01:CDS
GCACGCAGGACCTCCTGGGT+CGG 0.641235 2:-70926891 None:intergenic
ATAGACCTGAAATAAACCCA+AGG 0.650033 2:-70926828 None:intergenic
TGGAAGATTTGTCCTCGAAG+AGG 0.651915 2:+70926860 MsG0280010523.01.T01:CDS
GTGCTTATAGAGAGGATGGA+AGG 0.652178 2:+70926910 MsG0280010523.01.T01:CDS
CCAGAAACTCATCATCAGGA+GGG 0.654723 2:-70926953 None:intergenic
GGTCCTGCGTGCTTATAGAG+AGG 0.655010 2:+70926902 MsG0280010523.01.T01:CDS
TGATGAGTTTCTGGAAGATG+AGG 0.656575 2:+70926962 MsG0280010523.01.T01:CDS
CTCCCATTTCAAGCATAGGG+AGG 0.670101 2:+70926796 MsG0280010523.01.T01:CDS
TGATATAGGATGCATAGCTG+AGG 0.671509 2:+70926998 MsG0280010523.01.T01:CDS
CATCCTCTCTATAAGCACGC+AGG 0.674324 2:-70926905 None:intergenic
GGTAAGGATACCGACCCAGG+AGG 0.739295 2:+70926881 MsG0280010523.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAATTTTGTTAAATGAAA+GGG - Chr2:70926367-70926386 None:intergenic 10.0%
!!! GTTTAATTTTGTTAAATGAA+AGG - Chr2:70926368-70926387 None:intergenic 15.0%
ATCATTCTTATGGAGAATGT+AGG + Chr2:70926748-70926767 MsG0280010523.01.T01:CDS 30.0%
ATTGAAAAAGAAGCTGAAGA+TGG - Chr2:70926528-70926547 None:intergenic 30.0%
TCTTCAAGACATCATTCTTA+TGG + Chr2:70926738-70926757 MsG0280010523.01.T01:CDS 30.0%
TTCACCAAATATCTCAGTAA+AGG - Chr2:70926415-70926434 None:intergenic 30.0%
TTCAGGTCTATTAGGAATAA+TGG + Chr2:70926840-70926859 MsG0280010523.01.T01:CDS 30.0%
TTTCAATTACACCAATAGCA+AGG + Chr2:70926541-70926560 MsG0280010523.01.T01:CDS 30.0%
!! TTGATGATGATTCCTTGAAA+TGG - Chr2:70926440-70926459 None:intergenic 30.0%
!!! GCAATCTCTTTTTTGTCATT+TGG - Chr2:70927071-70927090 None:intergenic 30.0%
AAATATCTCAGTAAAGGAGG+AGG - Chr2:70926409-70926428 None:intergenic 35.0%
ACCAAATATCTCAGTAAAGG+AGG - Chr2:70926412-70926431 None:intergenic 35.0%
ATAGACCTGAAATAAACCCA+AGG - Chr2:70926831-70926850 None:intergenic 35.0%
ATTCTTATGGAGAATGTAGG+AGG + Chr2:70926751-70926770 MsG0280010523.01.T01:CDS 35.0%
GATGAAGGAGAGAATGATAT+AGG + Chr2:70926984-70927003 MsG0280010523.01.T01:CDS 35.0%
TCCTCCTTTACTGAGATATT+TGG + Chr2:70926408-70926427 MsG0280010523.01.T01:CDS 35.0%
TTCAGAATTCAGCCATGAAA+AGG - Chr2:70926595-70926614 None:intergenic 35.0%
! ATTTGGTGAACTCCATTTCA+AGG + Chr2:70926425-70926444 MsG0280010523.01.T01:CDS 35.0%
! GGGTTTATTTCAGGTCTATT+AGG + Chr2:70926832-70926851 MsG0280010523.01.T01:CDS 35.0%
!! TGTTGGATTTTCTGGCAATA+GGG - Chr2:70926334-70926353 None:intergenic 35.0%
AAGAAGCTGAAGATGGAGTT+TGG - Chr2:70926521-70926540 None:intergenic 40.0%
AAGACTCAGACTCTTTGATC+TGG - Chr2:70926488-70926507 None:intergenic 40.0%
ACTCTCAAAACCAAGACCTT+CGG - Chr2:70926634-70926653 None:intergenic 40.0%
AGAAGACATGGCAAAAGAAG+AGG + Chr2:70927025-70927044 MsG0280010523.01.T01:CDS 40.0%
TCTTCCAGAAACTCATCATC+AGG - Chr2:70926960-70926979 None:intergenic 40.0%
TGATATAGGATGCATAGCTG+AGG + Chr2:70926998-70927017 MsG0280010523.01.T01:CDS 40.0%
TGATCTGGTTGAAGTTTGTG+TGG - Chr2:70926473-70926492 None:intergenic 40.0%
! AAAGCAGTGACACCTTTTCA+TGG + Chr2:70926580-70926599 MsG0280010523.01.T01:CDS 40.0%
! TGATGAGTTTCTGGAAGATG+AGG + Chr2:70926962-70926981 MsG0280010523.01.T01:CDS 40.0%
! TTTCTGGAAGATGAGGATGA+AGG + Chr2:70926969-70926988 MsG0280010523.01.T01:CDS 40.0%
!! GTGTTGGATTTTCTGGCAAT+AGG - Chr2:70926335-70926354 None:intergenic 40.0%
!! TGAAGCAGTGTTGGATTTTC+TGG - Chr2:70926342-70926361 None:intergenic 40.0%
AGTAAAGGAGGAGGACTCTA+TGG - Chr2:70926400-70926419 None:intergenic 45.0%
ATAGGATGCATAGCTGAGGA+AGG + Chr2:70927002-70927021 MsG0280010523.01.T01:CDS 45.0%
ATGGAGAATGTAGGAGGTCA+AGG + Chr2:70926757-70926776 MsG0280010523.01.T01:CDS 45.0%
ATTTCAAGCATAGGGAGGAC+CGG + Chr2:70926801-70926820 MsG0280010523.01.T01:CDS 45.0%
CAATAGCAAGGCATACCAAC+AGG + Chr2:70926553-70926572 MsG0280010523.01.T01:CDS 45.0%
CCAGAAACTCATCATCAGGA+GGG - Chr2:70926956-70926975 None:intergenic 45.0%
CTATGCTTGAAATGGGAGGA+GGG - Chr2:70926794-70926813 None:intergenic 45.0%
CTCCTCCCATTTCAAGCATA+GGG + Chr2:70926793-70926812 MsG0280010523.01.T01:CDS 45.0%
GAAAGGGATTGAAGCAGTGT+TGG - Chr2:70926351-70926370 None:intergenic 45.0%
GAAATAAACCCAAGGCTTCC+CGG - Chr2:70926823-70926842 None:intergenic 45.0%
GAGGACTCTATGGATTTCAC+TGG - Chr2:70926390-70926409 None:intergenic 45.0%
GATTTGTCCTCGAAGAGGTA+AGG + Chr2:70926865-70926884 MsG0280010523.01.T01:CDS 45.0%
GGAAGCCTTGGGTTTATTTC+AGG + Chr2:70926823-70926842 MsG0280010523.01.T01:CDS 45.0%
GGGTGTCAAAGATGTGTTGT+AGG - Chr2:70926314-70926333 None:intergenic 45.0%
GTCCTCCCTATGCTTGAAAT+GGG - Chr2:70926801-70926820 None:intergenic 45.0%
GTGCTTATAGAGAGGATGGA+AGG + Chr2:70926910-70926929 MsG0280010523.01.T01:CDS 45.0%
TCCAGAAACTCATCATCAGG+AGG - Chr2:70926957-70926976 None:intergenic 45.0%
TGGAAGATTTGTCCTCGAAG+AGG + Chr2:70926860-70926879 MsG0280010523.01.T01:CDS 45.0%
TGGAGAATGTAGGAGGTCAA+GGG + Chr2:70926758-70926777 MsG0280010523.01.T01:CDS 45.0%
! CTGTTGGTATGCCTTGCTAT+TGG - Chr2:70926555-70926574 None:intergenic 45.0%
AGCATGCATCTTTGCACCGA+AGG + Chr2:70926615-70926634 MsG0280010523.01.T01:CDS 50.0%
AGCTGAGGAAGGAGAAGACA+TGG + Chr2:70927013-70927032 MsG0280010523.01.T01:CDS 50.0%
CATCCTCTCTATAAGCACGC+AGG - Chr2:70926908-70926927 None:intergenic 50.0%
CATCTTTGCACCGAAGGTCT+TGG + Chr2:70926621-70926640 MsG0280010523.01.T01:CDS 50.0%
CCTATGCTTGAAATGGGAGG+AGG - Chr2:70926795-70926814 None:intergenic 50.0%
CCTCCTCCCATTTCAAGCAT+AGG + Chr2:70926792-70926811 MsG0280010523.01.T01:CDS 50.0%
CTCCCATTTCAAGCATAGGG+AGG + Chr2:70926796-70926815 MsG0280010523.01.T01:CDS 50.0%
CTCCCTATGCTTGAAATGGG+AGG - Chr2:70926798-70926817 None:intergenic 50.0%
CTGCGTGCTTATAGAGAGGA+TGG + Chr2:70926906-70926925 MsG0280010523.01.T01:CDS 50.0%
GATGTCGAGGACTCAAAGAG+TGG + Chr2:70926660-70926679 MsG0280010523.01.T01:CDS 50.0%
GATGTGTTGTAGGCTGTCAC+AGG - Chr2:70926304-70926323 None:intergenic 50.0%
GGTCCTCCCTATGCTTGAAA+TGG - Chr2:70926802-70926821 None:intergenic 50.0%
TCGGTATCCTTACCTCTTCG+AGG - Chr2:70926875-70926894 None:intergenic 50.0%
TGAGAGTTCAGACGATGTCG+AGG + Chr2:70926647-70926666 MsG0280010523.01.T01:CDS 50.0%
TTTCAAGCATAGGGAGGACC+GGG + Chr2:70926802-70926821 MsG0280010523.01.T01:CDS 50.0%
! CCCTCCTGATGATGAGTTTC+TGG + Chr2:70926953-70926972 MsG0280010523.01.T01:CDS 50.0%
!! GTCACTGCTTTTGTGCCTGT+TGG - Chr2:70926571-70926590 None:intergenic 50.0%
AGAGGTAAGGATACCGACCC+AGG + Chr2:70926878-70926897 MsG0280010523.01.T01:CDS 55.0%
ATAAGCACGCAGGACCTCCT+GGG - Chr2:70926898-70926917 None:intergenic 55.0%
GGTCCTGCGTGCTTATAGAG+AGG + Chr2:70926902-70926921 MsG0280010523.01.T01:CDS 55.0%
TATAAGCACGCAGGACCTCC+TGG - Chr2:70926899-70926918 None:intergenic 55.0%
GGTAAGGATACCGACCCAGG+AGG + Chr2:70926881-70926900 MsG0280010523.01.T01:CDS 60.0%
AGGGAGGACCGGGAAGCCTT+GGG + Chr2:70926812-70926831 MsG0280010523.01.T01:CDS 65.0%
TAGGGAGGACCGGGAAGCCT+TGG + Chr2:70926811-70926830 MsG0280010523.01.T01:CDS 65.0%
GCACGCAGGACCTCCTGGGT+CGG - Chr2:70926894-70926913 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 70926294 70927094 70926294 ID=MsG0280010523.01;Name=MsG0280010523.01
Chr2 mRNA 70926294 70927094 70926294 ID=MsG0280010523.01.T01;Parent=MsG0280010523.01;Name=MsG0280010523.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|266
Chr2 exon 70926294 70927094 70926294 ID=MsG0280010523.01.T01:exon:10061;Parent=MsG0280010523.01.T01
Chr2 CDS 70926294 70927094 70926294 ID=MsG0280010523.01.T01:cds;Parent=MsG0280010523.01.T01
Gene Sequence

>MsG0280010523.01.T01

ATGGCAACCTGTGACAGCCTACAACACATCTTTGACACCCTATTGCCAGAAAATCCAACACTGCTTCAATCCCTTTCATTTAACAAAATTAAACCAGTGAAATCCATAGAGTCCTCCTCCTTTACTGAGATATTTGGTGAACTCCATTTCAAGGAATCATCATCAACAGAGATAAACCACACAAACTTCAACCAGATCAAAGAGTCTGAGTCTTTTGACACTATCCAAACTCCATCTTCAGCTTCTTTTTCAATTACACCAATAGCAAGGCATACCAACAGGCACAAAAGCAGTGACACCTTTTCATGGCTGAATTCTGAAAGCATGCATCTTTGCACCGAAGGTCTTGGTTTTGAGAGTTCAGACGATGTCGAGGACTCAAAGAGTGGAGCGAATGAATCTTTACAAATTGATCAAAATGAGAAACGTGTCGAACATCATTTATCTTCAAGACATCATTCTTATGGAGAATGTAGGAGGTCAAGGGTAAGTGAGTACCCTCCTCCCATTTCAAGCATAGGGAGGACCGGGAAGCCTTGGGTTTATTTCAGGTCTATTAGGAATAATGGAAGATTTGTCCTCGAAGAGGTAAGGATACCGACCCAGGAGGTCCTGCGTGCTTATAGAGAGGATGGAAGGCTCAAGCTGCAGTTTGTTCACCCTCCTGATGATGAGTTTCTGGAAGATGAGGATGAAGGAGAGAATGATATAGGATGCATAGCTGAGGAAGGAGAAGACATGGCAAAAGAAGAGGACGATTGTGTAACACATCATCCAAATGACAAAAAAGAGATTGCTTGA

Protein sequence

>MsG0280010523.01.T01

MATCDSLQHIFDTLLPENPTLLQSLSFNKIKPVKSIESSSFTEIFGELHFKESSSTEINHTNFNQIKESESFDTIQTPSSASFSITPIARHTNRHKSSDTFSWLNSESMHLCTEGLGFESSDDVEDSKSGANESLQIDQNEKRVEHHLSSRHHSYGECRRSRVSEYPPPISSIGRTGKPWVYFRSIRNNGRFVLEEVRIPTQEVLRAYREDGRLKLQFVHPPDDEFLEDEDEGENDIGCIAEEGEDMAKEEDDCVTHHPNDKKEIA*