AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017423.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017423.01.T01 MTR_3g107380 96.703 182 4 1 4 185 29 208 4.99e-130 363
MsG0380017423.01.T01 MTR_4g114570 53.005 183 75 4 4 185 28 200 2.43e-52 167
MsG0380017423.01.T01 MTR_4g010640 52.381 189 71 3 4 176 28 213 3.43e-50 161
MsG0380017423.01.T01 MTR_1g012470 57.803 173 68 3 4 174 28 197 1.13e-49 159
MsG0380017423.01.T01 MTR_2g103700 51.724 174 57 4 4 176 28 175 5.36e-48 154
MsG0380017423.01.T01 MTR_4g008860 45.977 87 28 2 4 90 29 96 7.11e-12 61.6
MsG0380017423.01.T01 MTR_3g106290 70.000 40 12 0 4 43 29 68 1.01e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017423.01.T01 AT5G25390 56.000 175 56 3 4 178 28 181 1.64e-57 179
MsG0380017423.01.T01 AT5G25390 55.233 172 56 3 7 178 28 178 3.53e-55 173
MsG0380017423.01.T01 AT1G15360 54.913 173 77 1 4 176 28 199 1.32e-50 162
MsG0380017423.01.T01 AT1G15360 54.913 173 77 1 4 176 28 199 1.32e-50 162
MsG0380017423.01.T01 AT5G11190 54.023 174 67 3 4 176 28 189 1.98e-49 159
MsG0380017423.01.T01 AT5G43410 67.442 43 14 0 6 48 39 81 8.16e-12 60.1
MsG0380017423.01.T01 AT5G25190 70.000 40 12 0 4 43 29 68 1.12e-11 60.8

Find 42 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACCACATTCTGATTCTAAT+TGG 0.168182 3:+96124400 MsG0380017423.01.T01:CDS
CTACCACTACCACCATTATA+AGG 0.252274 3:-96124228 None:intergenic
ACTATTGATGGTGGTAATAA+TGG 0.301168 3:+96124492 MsG0380017423.01.T01:CDS
CTCCATCACTTACTTGTTTG+AGG 0.311570 3:+96124331 MsG0380017423.01.T01:CDS
TGATTGAAGAGTTACTTAAT+TGG 0.312912 3:+96124574 MsG0380017423.01.T01:CDS
TACCACTACCACCATTATAA+GGG 0.385987 3:-96124227 None:intergenic
GTAATGCTGATAATGAAAAT+AGG 0.388971 3:+96124514 MsG0380017423.01.T01:CDS
GCTAGTGACACCCCTTATAA+TGG 0.412119 3:+96124216 MsG0380017423.01.T01:CDS
AGTAGCTCAGAGAGTGCCTT+GGG 0.425168 3:-96124273 None:intergenic
ACTATAGAGTCAGAAGAGAT+AGG 0.438321 3:+96124456 MsG0380017423.01.T01:CDS
ACCACATTCTGATTCTAATT+GGG 0.444505 3:+96124401 MsG0380017423.01.T01:CDS
TCAAAACAACACACTATTGA+TGG 0.448013 3:+96124480 MsG0380017423.01.T01:CDS
AATTAGAATGGGCAATGAAC+CGG 0.460212 3:+96122976 None:intergenic
TGATTCTTTCTTGTCTCCCA+AGG 0.481277 3:+96124257 MsG0380017423.01.T01:CDS
TCACCTTGATTCTTTGACAC+AGG 0.481740 3:-96124186 None:intergenic
TTTCCTGTGTCAAAGAATCA+AGG 0.490960 3:+96124183 MsG0380017423.01.T01:CDS
AGAAAGAGAAGGGTGTGGTT+AGG 0.501728 3:+96124078 MsG0380017423.01.T01:intron
CTGATTCTAATTGGGTCATG+AGG 0.507349 3:+96124409 MsG0380017423.01.T01:CDS
TAGGTTGGTAGTAGAAGAAG+AGG 0.515176 3:+96124533 MsG0380017423.01.T01:CDS
ACCCCTTATAATGGTGGTAG+TGG 0.519879 3:+96124225 MsG0380017423.01.T01:CDS
ATTAATGTTGCAGAAAGAGA+AGG 0.522866 3:+96124067 MsG0380017423.01.T01:intron
TGCTGATAATGAAAATAGGT+TGG 0.525975 3:+96124518 MsG0380017423.01.T01:CDS
TTAATGTTGCAGAAAGAGAA+GGG 0.538276 3:+96124068 MsG0380017423.01.T01:intron
TGGGTCATGAGGGTTGAACT+TGG 0.546099 3:+96124420 MsG0380017423.01.T01:CDS
GAGTAGCTCAGAGAGTGCCT+TGG 0.546798 3:-96124274 None:intergenic
TATAATGGTGGTAGTGGTAG+TGG 0.550731 3:+96124231 MsG0380017423.01.T01:CDS
GTCATGAGGGTTGAACTTGG+TGG 0.552880 3:+96124423 MsG0380017423.01.T01:CDS
TGATTCTAATTGGGTCATGA+GGG 0.557657 3:+96124410 MsG0380017423.01.T01:CDS
AGCCTCAAACAAGTAAGTGA+TGG 0.562083 3:-96124333 None:intergenic
GATAATGATAATTCTCACAT+TGG 0.568198 3:+96124357 MsG0380017423.01.T01:CDS
AACAAGTAAGTGATGGAGAA+GGG 0.581544 3:-96124326 None:intergenic
TCATGAGGGTTGAACTTGGT+GGG 0.586410 3:+96124424 MsG0380017423.01.T01:CDS
AAACAAGTAAGTGATGGAGA+AGG 0.587309 3:-96124327 None:intergenic
GTTGCAGAAAGAGAAGGGTG+TGG 0.608205 3:+96124073 MsG0380017423.01.T01:intron
TTACTTGAAGTTGATCCACA+TGG 0.613395 3:-96124603 None:intergenic
AGGAACATTTGAGACAGCAG+AGG 0.634183 3:+96124098 MsG0380017423.01.T01:CDS
ACCACTACCACCATTATAAG+GGG 0.634975 3:-96124226 None:intergenic
AAACAACACACTATTGATGG+TGG 0.638087 3:+96124483 MsG0380017423.01.T01:CDS
ATAATTCTCACATTGGAGTG+TGG 0.651598 3:+96124364 MsG0380017423.01.T01:CDS
CTTAATTGGAACTATCCATG+TGG 0.667569 3:+96124588 MsG0380017423.01.T01:CDS
AGTGACACCCCTTATAATGG+TGG 0.678747 3:+96124219 MsG0380017423.01.T01:CDS
ACCCAATTAGAATCAGAATG+TGG 0.683688 3:-96124402 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGCTAAATTTATTTATTT+GGG - Chr3:96123743-96123762 None:intergenic 10.0%
!! TATTGCTAAATTTATTTATT+TGG - Chr3:96123744-96123763 None:intergenic 10.0%
!! TTAATTTAAAGGATATTATT+TGG + Chr3:96123073-96123092 MsG0380017423.01.T01:intron 10.0%
!! CATAATATAATATAAGATGT+AGG - Chr3:96124002-96124021 None:intergenic 15.0%
!!! ATATCAACTAAAATTTTGTA+CGG - Chr3:96123420-96123439 None:intergenic 15.0%
!! ATATATTATGTGTTTCATAC+CGG - Chr3:96122998-96123017 None:intergenic 20.0%
!! ATTAACTACTGAAATAAATG+AGG - Chr3:96123611-96123630 None:intergenic 20.0%
!! ATTGATATAGAGTTAAATGA+GGG - Chr3:96123962-96123981 None:intergenic 20.0%
!! CTATCACATAGTTAATTTAA+AGG + Chr3:96123062-96123081 MsG0380017423.01.T01:intron 20.0%
!! GTTAATTAATAAGTTAGCTA+TGG + Chr3:96123625-96123644 MsG0380017423.01.T01:intron 20.0%
!!! AATTTATTTATTTGGGTTGT+CGG - Chr3:96123736-96123755 None:intergenic 20.0%
!!! TAATAAAGCTTATATTTCTG+AGG - Chr3:96123827-96123846 None:intergenic 20.0%
!!! TTTTAACATTTTCACGTAAA+TGG + Chr3:96123355-96123374 MsG0380017423.01.T01:intron 20.0%
! AGTTGTCAATAAATAACATG+TGG + Chr3:96123478-96123497 MsG0380017423.01.T01:intron 25.0%
! CATTGATATAGAGTTAAATG+AGG - Chr3:96123963-96123982 None:intergenic 25.0%
! GATAATGATAATTCTCACAT+TGG + Chr3:96124357-96124376 MsG0380017423.01.T01:CDS 25.0%
! TAAGCTAAAGTATAAGTGTT+TGG + Chr3:96123019-96123038 MsG0380017423.01.T01:intron 25.0%
! TGATTGAAGAGTTACTTAAT+TGG + Chr3:96124574-96124593 MsG0380017423.01.T01:CDS 25.0%
!! GTAATGCTGATAATGAAAAT+AGG + Chr3:96124514-96124533 MsG0380017423.01.T01:CDS 25.0%
!! GTTAAGAGCATAAATCTAAA+AGG - Chr3:96123175-96123194 None:intergenic 25.0%
!!! TATTTATAAGTCTCGCTTTT+AGG - Chr3:96123125-96123144 None:intergenic 25.0%
!!! TTCCATTTTTATGTTGAGAA+TGG - Chr3:96123392-96123411 None:intergenic 25.0%
AAATGAGGGAATTACAACAA+AGG - Chr3:96123948-96123967 None:intergenic 30.0%
AATGAGGGAATTACAACAAA+GGG - Chr3:96123947-96123966 None:intergenic 30.0%
ACCACATTCTGATTCTAATT+GGG + Chr3:96124401-96124420 MsG0380017423.01.T01:CDS 30.0%
ATGTACTTTACACTACAGAA+AGG + Chr3:96123282-96123301 MsG0380017423.01.T01:intron 30.0%
ATTAATGTTGCAGAAAGAGA+AGG + Chr3:96124067-96124086 MsG0380017423.01.T01:intron 30.0%
GTCCATTCTCAACATAAAAA+TGG + Chr3:96123387-96123406 MsG0380017423.01.T01:intron 30.0%
TCAAAACAACACACTATTGA+TGG + Chr3:96124480-96124499 MsG0380017423.01.T01:CDS 30.0%
TTAATGTTGCAGAAAGAGAA+GGG + Chr3:96124068-96124087 MsG0380017423.01.T01:intron 30.0%
! TGCTGATAATGAAAATAGGT+TGG + Chr3:96124518-96124537 MsG0380017423.01.T01:CDS 30.0%
!! ACTATTGATGGTGGTAATAA+TGG + Chr3:96124492-96124511 MsG0380017423.01.T01:CDS 30.0%
AAACAACACACTATTGATGG+TGG + Chr3:96124483-96124502 MsG0380017423.01.T01:CDS 35.0%
ACCCAATTAGAATCAGAATG+TGG - Chr3:96124405-96124424 None:intergenic 35.0%
ACTATAGAGTCAGAAGAGAT+AGG + Chr3:96124456-96124475 MsG0380017423.01.T01:CDS 35.0%
ATAATTCTCACATTGGAGTG+TGG + Chr3:96124364-96124383 MsG0380017423.01.T01:CDS 35.0%
ATTAATTCCCAACCAAGGAA+AGG + Chr3:96123843-96123862 MsG0380017423.01.T01:intron 35.0%
CAACAAACAAAGAAGTTCAG+AGG + Chr3:96123876-96123895 MsG0380017423.01.T01:intron 35.0%
CATATTTCCTTTCCTTGGTT+GGG - Chr3:96123853-96123872 None:intergenic 35.0%
CTTAATTGGAACTATCCATG+TGG + Chr3:96124588-96124607 MsG0380017423.01.T01:CDS 35.0%
GACCACATTCTGATTCTAAT+TGG + Chr3:96124400-96124419 MsG0380017423.01.T01:CDS 35.0%
TACCACTACCACCATTATAA+GGG - Chr3:96124230-96124249 None:intergenic 35.0%
TGAAATAAATGAGGTGTAGC+AGG - Chr3:96123602-96123621 None:intergenic 35.0%
TGATTCTAATTGGGTCATGA+GGG + Chr3:96124410-96124429 MsG0380017423.01.T01:CDS 35.0%
TGTACCATATTTCCTTTCCT+TGG - Chr3:96123858-96123877 None:intergenic 35.0%
TGTATGTTGATGTGAGTAAG+TGG - Chr3:96123770-96123789 None:intergenic 35.0%
TTTCCTGTGTCAAAGAATCA+AGG + Chr3:96124183-96124202 MsG0380017423.01.T01:CDS 35.0%
! AAACAAGTAAGTGATGGAGA+AGG - Chr3:96124330-96124349 None:intergenic 35.0%
! AACAAGTAAGTGATGGAGAA+GGG - Chr3:96124329-96124348 None:intergenic 35.0%
! ACAGAAAGGTGTATTTGTGT+TGG + Chr3:96123296-96123315 MsG0380017423.01.T01:intron 35.0%
! AGTTGATATTCTAGTTGAGC+TGG + Chr3:96123431-96123450 MsG0380017423.01.T01:intron 35.0%
! GCTTTATTAATTCCCAACCA+AGG + Chr3:96123838-96123857 MsG0380017423.01.T01:intron 35.0%
! GGATTTTATCAAACTTGTGC+TGG + Chr3:96123646-96123665 MsG0380017423.01.T01:intron 35.0%
! TTACTTGAAGTTGATCCACA+TGG - Chr3:96124606-96124625 None:intergenic 35.0%
!! CAAGCTGCAATTTTGATGAA+TGG + Chr3:96124141-96124160 MsG0380017423.01.T01:CDS 35.0%
AAAGTTGTGATCCACTCTCT+AGG - Chr3:96123526-96123545 None:intergenic 40.0%
ACCACTACCACCATTATAAG+GGG - Chr3:96124229-96124248 None:intergenic 40.0%
AGCCTCAAACAAGTAAGTGA+TGG - Chr3:96124336-96124355 None:intergenic 40.0%
ATAAATGAGGTGTAGCAGGT+AGG - Chr3:96123598-96123617 None:intergenic 40.0%
ATGAGCATAGGACGAAAAGT+GGG - Chr3:96123704-96123723 None:intergenic 40.0%
ATGTTGAGAATGGACACCAT+GGG - Chr3:96123382-96123401 None:intergenic 40.0%
CCAACCAAGGAAAGGAAATA+TGG + Chr3:96123851-96123870 MsG0380017423.01.T01:intron 40.0%
CCATATTTCCTTTCCTTGGT+TGG - Chr3:96123854-96123873 None:intergenic 40.0%
CTACCACTACCACCATTATA+AGG - Chr3:96124231-96124250 None:intergenic 40.0%
CTCCATCACTTACTTGTTTG+AGG + Chr3:96124331-96124350 MsG0380017423.01.T01:CDS 40.0%
CTGATTCTAATTGGGTCATG+AGG + Chr3:96124409-96124428 MsG0380017423.01.T01:CDS 40.0%
TAAATGAGGTGTAGCAGGTA+GGG - Chr3:96123597-96123616 None:intergenic 40.0%
TAAGATGTAGGTGCATTGTG+TGG - Chr3:96123990-96124009 None:intergenic 40.0%
TATGAGCATAGGACGAAAAG+TGG - Chr3:96123705-96123724 None:intergenic 40.0%
TATGTTGAGAATGGACACCA+TGG - Chr3:96123383-96123402 None:intergenic 40.0%
TCACCTTGATTCTTTGACAC+AGG - Chr3:96124189-96124208 None:intergenic 40.0%
TCTAGGCTTGACTATAGAGT+TGG - Chr3:96123509-96123528 None:intergenic 40.0%
TGATTCTTTCTTGTCTCCCA+AGG + Chr3:96124257-96124276 MsG0380017423.01.T01:CDS 40.0%
! TTTTCACGTAAATGGACCCA+TGG + Chr3:96123363-96123382 MsG0380017423.01.T01:intron 40.0%
!! ATTTATTTGGGTTGTCGGTG+TGG - Chr3:96123731-96123750 None:intergenic 40.0%
!! TAGGTTGGTAGTAGAAGAAG+AGG + Chr3:96124533-96124552 MsG0380017423.01.T01:CDS 40.0%
!! TATAATGGTGGTAGTGGTAG+TGG + Chr3:96124231-96124250 MsG0380017423.01.T01:CDS 40.0%
!!! GCAGGTAGGGTTATCTTTTT+TGG - Chr3:96123584-96123603 None:intergenic 40.0%
ACCCCTTATAATGGTGGTAG+TGG + Chr3:96124225-96124244 MsG0380017423.01.T01:CDS 45.0%
AGTGACACCCCTTATAATGG+TGG + Chr3:96124219-96124238 MsG0380017423.01.T01:CDS 45.0%
CAAAGAAGTTCAGAGGAGTC+AGG + Chr3:96123883-96123902 MsG0380017423.01.T01:intron 45.0%
CGGTGTGGAAATATGAGCAT+AGG - Chr3:96123716-96123735 None:intergenic 45.0%
CTATAGTCAAGCCTAGAGAG+TGG + Chr3:96123512-96123531 MsG0380017423.01.T01:intron 45.0%
GAGGGAATTACAACAAAGGG+TGG - Chr3:96123944-96123963 None:intergenic 45.0%
GCTAGTGACACCCCTTATAA+TGG + Chr3:96124216-96124235 MsG0380017423.01.T01:CDS 45.0%
TCATGAGGGTTGAACTTGGT+GGG + Chr3:96124424-96124443 MsG0380017423.01.T01:CDS 45.0%
! AGAAAGAGAAGGGTGTGGTT+AGG + Chr3:96124078-96124097 MsG0380017423.01.T01:intron 45.0%
! AGGAACATTTGAGACAGCAG+AGG + Chr3:96124098-96124117 MsG0380017423.01.T01:CDS 45.0%
GGAGTGTGGCAAAAAAGAGC+TGG + Chr3:96124378-96124397 MsG0380017423.01.T01:CDS 50.0%
GTCATGAGGGTTGAACTTGG+TGG + Chr3:96124423-96124442 MsG0380017423.01.T01:CDS 50.0%
GTTGCAGAAAGAGAAGGGTG+TGG + Chr3:96124073-96124092 MsG0380017423.01.T01:intron 50.0%
TGGGTCATGAGGGTTGAACT+TGG + Chr3:96124420-96124439 MsG0380017423.01.T01:CDS 50.0%
!! AGTAGCTCAGAGAGTGCCTT+GGG - Chr3:96124276-96124295 None:intergenic 50.0%
!! GAGTAGCTCAGAGAGTGCCT+TGG - Chr3:96124277-96124296 None:intergenic 55.0%
AGGAGTCAGGCAGCGCCAGT+GGG + Chr3:96123896-96123915 MsG0380017423.01.T01:intron 65.0%
CTGACACCCAAGAGCCCCAC+TGG - Chr3:96123914-96123933 None:intergenic 65.0%
GAGGAGTCAGGCAGCGCCAG+TGG + Chr3:96123895-96123914 MsG0380017423.01.T01:intron 70.0%
GCAGCGCCAGTGGGGCTCTT+GGG + Chr3:96123905-96123924 MsG0380017423.01.T01:intron 70.0%
GGAGTCAGGCAGCGCCAGTG+GGG + Chr3:96123897-96123916 MsG0380017423.01.T01:intron 70.0%
GGCAGCGCCAGTGGGGCTCT+TGG + Chr3:96123904-96123923 MsG0380017423.01.T01:intron 75.0%
Chromosome Type Strat End Strand Name
Chr3 gene 96122990 96124629 96122990 ID=MsG0380017423.01;Name=MsG0380017423.01
Chr3 mRNA 96122990 96124629 96122990 ID=MsG0380017423.01.T01;Parent=MsG0380017423.01;Name=MsG0380017423.01.T01;_AED=0.35;_eAED=0.35;_QI=0|0|0|0.5|1|1|2|0|185
Chr3 exon 96122990 96122997 96122990 ID=MsG0380017423.01.T01:exon:2186;Parent=MsG0380017423.01.T01
Chr3 exon 96124080 96124629 96124080 ID=MsG0380017423.01.T01:exon:2187;Parent=MsG0380017423.01.T01
Chr3 CDS 96122990 96122997 96122990 ID=MsG0380017423.01.T01:cds;Parent=MsG0380017423.01.T01
Chr3 CDS 96124080 96124629 96124080 ID=MsG0380017423.01.T01:cds;Parent=MsG0380017423.01.T01
Gene Sequence

>MsG0380017423.01.T01

ATGAACCGAAAGAGAAGGGTGTGGTTAGGAACATTTGAGACAGCAGAGGCAGCAGCAAGAGCATATGATCAAGCTGCAATTTTGATGAATGGTCAAAGTGCAAAGACTAATTTTCCTGTGTCAAAGAATCAAGGTGAAGAAGTTGCTAGTGACACCCCTTATAATGGTGGTAGTGGTAGTGGTGATGATTCTTTCTTGTCTCCCAAGGCACTCTCTGAGCTACTCAGCACAAAGCTTAGAAAGTATTGCAAAGACCCTTCTCCATCACTTACTTGTTTGAGGCTAGATAATGATAATTCTCACATTGGAGTGTGGCAAAAAAGAGCTGGACCACATTCTGATTCTAATTGGGTCATGAGGGTTGAACTTGGTGGGAAGAAAAAGACTATAGAGTCAGAAGAGATAGGATCAAAACAACACACTATTGATGGTGGTAATAATGGTAATGCTGATAATGAAAATAGGTTGGTAGTAGAAGAAGAGGAGAGAGTTGCTTTGCAGATGATTGAAGAGTTACTTAATTGGAACTATCCATGTGGATCAACTTCAAGTAATTAA

Protein sequence

>MsG0380017423.01.T01

MNRKRRVWLGTFETAEAAARAYDQAAILMNGQSAKTNFPVSKNQGEEVASDTPYNGGSGSGDDSFLSPKALSELLSTKLRKYCKDPSPSLTCLRLDNDNSHIGVWQKRAGPHSDSNWVMRVELGGKKKTIESEEIGSKQHTIDGGNNGNADNENRLVVEEEERVALQMIEELLNWNYPCGSTSSN*