AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040407.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040407.01.T01 MTR_7g090410 95.769 260 10 1 4 262 1 260 1.96e-158 441
MsG0780040407.01.T01 MTR_1g048720 58.167 251 85 6 4 244 1 241 2.82e-81 244
MsG0780040407.01.T01 MTR_1g048720 57.769 251 85 7 4 244 1 240 6.70e-79 238
MsG0780040407.01.T01 MTR_1g048720 58.515 229 75 6 4 222 1 219 3.42e-75 228
MsG0780040407.01.T01 MTR_1g048710 56.855 248 84 6 4 244 1 232 1.55e-73 224
MsG0780040407.01.T01 MTR_1g048720 58.079 229 75 7 4 222 1 218 1.07e-72 222
MsG0780040407.01.T01 MTR_1g048750 56.444 225 76 5 4 221 1 210 7.68e-72 221
MsG0780040407.01.T01 MTR_0007s0330 33.758 157 95 4 69 223 6 155 2.09e-12 63.9
MsG0780040407.01.T01 MTR_0007s0330 34.211 152 91 4 69 218 18 162 1.93e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040407.01.T01 AT3G56970 42.412 257 127 9 4 246 1 250 1.39e-52 171
MsG0780040407.01.T01 AT3G56980 41.445 263 132 7 4 249 1 258 1.09e-46 157
MsG0780040407.01.T01 AT2G41240 40.726 248 127 7 4 243 1 236 4.34e-43 147
MsG0780040407.01.T01 AT2G41240 40.323 248 127 8 4 243 1 235 1.27e-40 140
MsG0780040407.01.T01 AT5G04150 44.048 168 85 3 59 222 76 238 8.34e-37 130
MsG0780040407.01.T01 AT5G04150 43.017 179 95 3 59 234 76 250 1.88e-36 130

Find 38 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCTCTTTATGACTAATTA+AGG 0.218000 7:+77099033 None:intergenic
AGCTTCTTAGCCATAAGTTT+AGG 0.275147 7:+77098926 None:intergenic
TCACTTCGTTCACTTCTTCC+TGG 0.286326 7:-77098848 MsG0780040407.01.T01:CDS
GCTTCTTAGCCATAAGTTTA+GGG 0.291086 7:+77098927 None:intergenic
AAATAATCATTTGGGCACTA+TGG 0.310932 7:-77097406 MsG0780040407.01.T01:CDS
TCTTCTTCTTCTAAAACCTT+TGG 0.334379 7:-77097758 MsG0780040407.01.T01:CDS
AAGACACGTGAAATTGTTAC+AGG 0.334795 7:+77098049 None:intergenic
GCCACAATCCCCTAAACTTA+TGG 0.343588 7:-77098936 MsG0780040407.01.T01:CDS
TCAATCTCAACATGTTCCTT+TGG 0.352411 7:+77098962 None:intergenic
TTGATGTGTTTAGAAAATAA+TGG 0.374175 7:-77097797 MsG0780040407.01.T01:CDS
AAACATGGGATGGCTCTTAG+AGG 0.417919 7:-77099071 MsG0780040407.01.T01:CDS
GGTGAAGAGAATTGATGATA+AGG 0.444850 7:+77098983 None:intergenic
ATTGTAAGAAATCCACATCA+TGG 0.465510 7:-77099125 None:intergenic
GGGATGGCTCTTAGAGGAGT+TGG 0.478368 7:-77099065 MsG0780040407.01.T01:CDS
CTCAGATAGAGGAATCTTGT+AGG 0.481665 7:+77097823 None:intergenic
TCTTCTTCTAAAACCTTTGG+AGG 0.482465 7:-77097755 MsG0780040407.01.T01:CDS
CACATCAAGATCTCAGATAG+AGG 0.501569 7:+77097812 None:intergenic
GCCATAAGTTTAGGGGATTG+TGG 0.507590 7:+77098935 None:intergenic
CTTCTAAAACCTTTGGAGGG+AGG 0.546758 7:-77097751 MsG0780040407.01.T01:CDS
ACGTGTCTTAAAATACATAC+CGG 0.551566 7:-77098035 MsG0780040407.01.T01:CDS
TCTTCCTGGTGAAGATCAAA+CGG 0.553586 7:-77098834 MsG0780040407.01.T01:intron
ACAAAAGCAGAATTGTAACT+TGG 0.558897 7:+77097905 None:intergenic
CTTCTTAGCCATAAGTTTAG+GGG 0.566289 7:+77098928 None:intergenic
CTTCTTCTAAAACCTTTGGA+GGG 0.566421 7:-77097754 MsG0780040407.01.T01:CDS
ATAGAAGAGCCTCCCTCCAA+AGG 0.569392 7:+77097742 None:intergenic
TCATCAATTCTCTTCACCAA+AGG 0.579398 7:-77098978 MsG0780040407.01.T01:CDS
GAGTTCTCATACTCAAACAT+GGG 0.591739 7:-77099085 MsG0780040407.01.T01:CDS
TCTCATACTCAAACATGGGA+TGG 0.596383 7:-77099081 MsG0780040407.01.T01:CDS
TGAGTTCTCATACTCAAACA+TGG 0.598383 7:-77099086 MsG0780040407.01.T01:CDS
GGCAGAATGCAACCATGATG+TGG 0.608142 7:+77099113 None:intergenic
GATTTACAAAAGCAAGTGCA+AGG 0.608962 7:-77098013 MsG0780040407.01.T01:CDS
TTTGAGTATGAGAACTCAGG+TGG 0.609689 7:+77099091 None:intergenic
ATGTTTGAGTATGAGAACTC+AGG 0.624831 7:+77099088 None:intergenic
AGACACGTGAAATTGTTACA+GGG 0.628066 7:+77098050 None:intergenic
ATTACCGTTTGATCTTCACC+AGG 0.645561 7:+77098830 None:intergenic
CAGTTAACAAAGAATCGCAA+AGG 0.655004 7:-77097937 MsG0780040407.01.T01:CDS
GATCACGTTCACTAGCATTG+TGG 0.694395 7:+77098900 None:intergenic
TTGAGTATGAGAACTCAGGT+GGG 0.707297 7:+77099092 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGGAATAATATATATATTAA+TGG + Chr7:77098391-77098410 None:intergenic 10.0%
!!! AATTTTTTTTTCAAATAGAT+TGG + Chr7:77098022-77098041 None:intergenic 10.0%
!! CATACCAAATTAAATAAAAT+TGG + Chr7:77097702-77097721 None:intergenic 15.0%
!!! CAATTTTATTTAATTTGGTA+TGG - Chr7:77097700-77097719 MsG0780040407.01.T01:intron 15.0%
!! AAGCAGAAAAATAATCATTT+GGG - Chr7:77099075-77099094 MsG0780040407.01.T01:CDS 20.0%
!! CCAAATTAAATAAAATTGGA+AGG + Chr7:77097698-77097717 None:intergenic 20.0%
!! TTGATGTGTTTAGAAAATAA+TGG - Chr7:77098692-77098711 MsG0780040407.01.T01:intron 20.0%
!!! AAGCTATTTTTTAAAATGAC+AGG - Chr7:77097777-77097796 MsG0780040407.01.T01:CDS 20.0%
!!! ATAGATTGGTTAGTTTTTTT+TGG + Chr7:77098008-77098027 None:intergenic 20.0%
!!! CCTTCCAATTTTATTTAATT+TGG - Chr7:77097695-77097714 MsG0780040407.01.T01:intron 20.0%
!!! TAACCTACTTTAAGAAAAAA+GGG - Chr7:77098184-77098203 MsG0780040407.01.T01:intron 20.0%
! ACCCTAATTGTTTACTATTA+AGG - Chr7:77098909-77098928 MsG0780040407.01.T01:CDS 25.0%
! ATAGCTAATCGTTCTTTAAA+AGG - Chr7:77098139-77098158 MsG0780040407.01.T01:intron 25.0%
! ATGTGCAAAAAAATTAGTGA+TGG - Chr7:77098091-77098110 MsG0780040407.01.T01:intron 25.0%
! CCCTAATTGTTTACTATTAA+GGG - Chr7:77098910-77098929 MsG0780040407.01.T01:CDS 25.0%
! CCCTTAATAGTAAACAATTA+GGG + Chr7:77098913-77098932 None:intergenic 25.0%
! CTTCTCTTTATGACTAATTA+AGG + Chr7:77097459-77097478 None:intergenic 25.0%
! GAAGCAGAAAAATAATCATT+TGG - Chr7:77099074-77099093 MsG0780040407.01.T01:CDS 25.0%
! TCCCTTAATAGTAAACAATT+AGG + Chr7:77098914-77098933 None:intergenic 25.0%
!! GTAACCTACTTTAAGAAAAA+AGG - Chr7:77098183-77098202 MsG0780040407.01.T01:intron 25.0%
!!! ATTTATTTTGCAATGTTTGC+AGG - Chr7:77098990-77099009 MsG0780040407.01.T01:CDS 25.0%
!!! TTTAGCTTTATATAACTCCA+TGG - Chr7:77097806-77097825 MsG0780040407.01.T01:CDS 25.0%
AAATAATCATTTGGGCACTA+TGG - Chr7:77099083-77099102 MsG0780040407.01.T01:CDS 30.0%
ACAAAAGCAGAATTGTAACT+TGG + Chr7:77098587-77098606 None:intergenic 30.0%
ACGTGTCTTAAAATACATAC+CGG - Chr7:77098454-77098473 MsG0780040407.01.T01:intron 30.0%
CCAATAATTGATTAATCCAG+AGG + Chr7:77097962-77097981 None:intergenic 30.0%
CCTCTGGATTAATCAATTAT+TGG - Chr7:77097959-77097978 MsG0780040407.01.T01:CDS 30.0%
CTAGAGATAAGCATAATCAT+AGG + Chr7:77097857-77097876 None:intergenic 30.0%
CTATGATTATGCTTATCTCT+AGG - Chr7:77097855-77097874 MsG0780040407.01.T01:CDS 30.0%
TGACGTATTCATGATATGAA+TGG - Chr7:77098314-77098333 MsG0780040407.01.T01:intron 30.0%
! CTGTTTGTTTCGTAATGTTT+TGG - Chr7:77098238-77098257 MsG0780040407.01.T01:intron 30.0%
!! AAGAGTTTTGATCTGACTAT+TGG - Chr7:77097906-77097925 MsG0780040407.01.T01:CDS 30.0%
!! CTTCTATAACTTGCATTTTC+AGG - Chr7:77098763-77098782 MsG0780040407.01.T01:intron 30.0%
!! TCTTCTTCTTCTAAAACCTT+TGG - Chr7:77098731-77098750 MsG0780040407.01.T01:intron 30.0%
!!! ACACCCTTTTTTCTTAAAGT+AGG + Chr7:77098190-77098209 None:intergenic 30.0%
!!! TTTTTTCTGCAACATCAACA+TGG + Chr7:77098411-77098430 None:intergenic 30.0%
AAGACACGTGAAATTGTTAC+AGG + Chr7:77098443-77098462 None:intergenic 35.0%
AGACACGTGAAATTGTTACA+GGG + Chr7:77098442-77098461 None:intergenic 35.0%
AGCTTCTTAGCCATAAGTTT+AGG + Chr7:77097566-77097585 None:intergenic 35.0%
ATGTTTGAGTATGAGAACTC+AGG + Chr7:77097404-77097423 None:intergenic 35.0%
CAGTTAACAAAGAATCGCAA+AGG - Chr7:77098552-77098571 MsG0780040407.01.T01:intron 35.0%
CTTCTTAGCCATAAGTTTAG+GGG + Chr7:77097564-77097583 None:intergenic 35.0%
GAGTTCTCATACTCAAACAT+GGG - Chr7:77097404-77097423 MsG0780040407.01.T01:CDS 35.0%
GATTTACAAAAGCAAGTGCA+AGG - Chr7:77098476-77098495 MsG0780040407.01.T01:intron 35.0%
GCTTCTTAGCCATAAGTTTA+GGG + Chr7:77097565-77097584 None:intergenic 35.0%
GCTTTATATAACTCCATGGT+TGG - Chr7:77097810-77097829 MsG0780040407.01.T01:CDS 35.0%
TCAATCTCAACATGTTCCTT+TGG + Chr7:77097530-77097549 None:intergenic 35.0%
TCATCAATTCTCTTCACCAA+AGG - Chr7:77097511-77097530 MsG0780040407.01.T01:intron 35.0%
TGAGTTCTCATACTCAAACA+TGG - Chr7:77097403-77097422 MsG0780040407.01.T01:CDS 35.0%
! CTTTTGTAGTTTCGACAAGT+AGG - Chr7:77098600-77098619 MsG0780040407.01.T01:intron 35.0%
! GGTGAAGAGAATTGATGATA+AGG + Chr7:77097509-77097528 None:intergenic 35.0%
! TAGGTCTGATGATGAAAGTT+TGG - Chr7:77097874-77097893 MsG0780040407.01.T01:CDS 35.0%
! TATTTTGCAATGTTTGCAGG+TGG - Chr7:77098993-77099012 MsG0780040407.01.T01:CDS 35.0%
!! CTTCTTCTAAAACCTTTGGA+GGG - Chr7:77098735-77098754 MsG0780040407.01.T01:intron 35.0%
!! TCTTCTTCTAAAACCTTTGG+AGG - Chr7:77098734-77098753 MsG0780040407.01.T01:intron 35.0%
!! TGCACTTGCTTTTGTAAATC+CGG + Chr7:77098476-77098495 None:intergenic 35.0%
ATTACCGTTTGATCTTCACC+AGG + Chr7:77097662-77097681 None:intergenic 40.0%
CACATCAAGATCTCAGATAG+AGG + Chr7:77098680-77098699 None:intergenic 40.0%
CTCAGATAGAGGAATCTTGT+AGG + Chr7:77098669-77098688 None:intergenic 40.0%
TCTCATACTCAAACATGGGA+TGG - Chr7:77097408-77097427 MsG0780040407.01.T01:CDS 40.0%
TCTTCCTGGTGAAGATCAAA+CGG - Chr7:77097655-77097674 MsG0780040407.01.T01:intron 40.0%
TTGAGTATGAGAACTCAGGT+GGG + Chr7:77097400-77097419 None:intergenic 40.0%
TTTCATCATCAGACCAACCA+TGG + Chr7:77097826-77097845 None:intergenic 40.0%
TTTGAGTATGAGAACTCAGG+TGG + Chr7:77097401-77097420 None:intergenic 40.0%
AAACATGGGATGGCTCTTAG+AGG - Chr7:77097418-77097437 MsG0780040407.01.T01:CDS 45.0%
GATCACGTTCACTAGCATTG+TGG + Chr7:77097592-77097611 None:intergenic 45.0%
GCCACAATCCCCTAAACTTA+TGG - Chr7:77097553-77097572 MsG0780040407.01.T01:intron 45.0%
GCCATAAGTTTAGGGGATTG+TGG + Chr7:77097557-77097576 None:intergenic 45.0%
TCACTTCGTTCACTTCTTCC+TGG - Chr7:77097641-77097660 MsG0780040407.01.T01:intron 45.0%
!! CTTCTAAAACCTTTGGAGGG+AGG - Chr7:77098738-77098757 MsG0780040407.01.T01:intron 45.0%
ATAGAAGAGCCTCCCTCCAA+AGG + Chr7:77098750-77098769 None:intergenic 50.0%
GGCAGAATGCAACCATGATG+TGG + Chr7:77097379-77097398 None:intergenic 50.0%
CTATTGGACCCTCGCTAGAG+TGG - Chr7:77097922-77097941 MsG0780040407.01.T01:CDS 55.0%
GGGATGGCTCTTAGAGGAGT+TGG - Chr7:77097424-77097443 MsG0780040407.01.T01:CDS 55.0%
ACCCTCGCTAGAGTGGATGG+TGG - Chr7:77097929-77097948 MsG0780040407.01.T01:CDS 60.0%
CCCACCATCCACTCTAGCGA+GGG + Chr7:77097933-77097952 None:intergenic 60.0%
CCCTCGCTAGAGTGGATGGT+GGG - Chr7:77097930-77097949 MsG0780040407.01.T01:CDS 60.0%
CCTCGCTAGAGTGGATGGTG+GGG - Chr7:77097931-77097950 MsG0780040407.01.T01:CDS 60.0%
TGGACCCTCGCTAGAGTGGA+TGG - Chr7:77097926-77097945 MsG0780040407.01.T01:CDS 60.0%
!! GCTAGAGTGGATGGTGGGGT+TGG - Chr7:77097935-77097954 MsG0780040407.01.T01:CDS 60.0%
CCCCACCATCCACTCTAGCG+AGG + Chr7:77097934-77097953 None:intergenic 65.0%
!! GGATGGTGGGGTTGGTCCTC+TGG - Chr7:77097943-77097962 MsG0780040407.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 77097374 77099137 77097374 ID=MsG0780040407.01;Name=MsG0780040407.01
Chr7 mRNA 77097374 77099137 77097374 ID=MsG0780040407.01.T01;Parent=MsG0780040407.01;Name=MsG0780040407.01.T01;_AED=0.02;_eAED=0.02;_QI=0|0|0|1|1|1|3|0|262
Chr7 exon 77098835 77099137 77098835 ID=MsG0780040407.01.T01:exon:14831;Parent=MsG0780040407.01.T01
Chr7 exon 77097727 77098086 77097727 ID=MsG0780040407.01.T01:exon:14830;Parent=MsG0780040407.01.T01
Chr7 exon 77097374 77097499 77097374 ID=MsG0780040407.01.T01:exon:14829;Parent=MsG0780040407.01.T01
Chr7 CDS 77098835 77099137 77098835 ID=MsG0780040407.01.T01:cds;Parent=MsG0780040407.01.T01
Chr7 CDS 77097727 77098086 77097727 ID=MsG0780040407.01.T01:cds;Parent=MsG0780040407.01.T01
Chr7 CDS 77097374 77097499 77097374 ID=MsG0780040407.01.T01:cds;Parent=MsG0780040407.01.T01
Gene Sequence

>MsG0780040407.01.T01

ATCCACATCATGGTTGCATTCTGCCCACCTGAGTTCTCATACTCAAACATGGGATGGCTCTTAGAGGAGTTGGAGCAAGAGTCCTTAATTAGTCATAAAGAGAAGAACTATGCATCTTTAGAGTACTCGTTACCTTATCATCAATTCTCTTCACCAAAGGAACATGTTGAGATTGAAAAGCCACAATCCCCTAAACTTATGGCTAAGAAGCTTAACCACAATGCTAGTGAACGTGATCGTCGCAAGAAGATTAATAGCTTGATTTCTTCACTTCGTTCACTTCTTCCTGGTGAAGATCAAACGAAAAAAATGAGCATCCCTGTAACAATTTCACGTGTCTTAAAATACATACCGGATTTACAAAAGCAAGTGCAAGGATTAACTAAGAAAAAAGAAGAGCTTCTATCAAGAATTTCTCGACAAGAATATGCAGTTAACAAAGAATCGCAAAGGAAGAAAATTCCAAGTTACAATTCTGCTTTTGTAGTTTCGACAAGTAGGCTTAATGATACTGAGCTTATTGTTCATATTTCATCTTATGAGACCTACAAGATTCCTCTATCTGAGATCTTGATGTGTTTAGAAAATAATGGACTTCTTCTATTAAACTCTTCTTCTTCTAAAACCTTTGGAGGGAGGCTCTTCTATAACTTGCATTTTCAGGTGGATAAAACTCAAAGATATGAGTGTGATGATCTGATTCAAAAGCTTTCGTCAATATATGAGAAGCAGAAAAATAATCATTTGGGCACTATGGATCAAACGATCAATAGTGTTCTGATATATTAA
Protein sequence

>MsG0780040407.01.T01

IHIMVAFCPPEFSYSNMGWLLEELEQESLISHKEKNYASLEYSLPYHQFSSPKEHVEIEKPQSPKLMAKKLNHNASERDRRKKINSLISSLRSLLPGEDQTKKMSIPVTISRVLKYIPDLQKQVQGLTKKKEELLSRISRQEYAVNKESQRKKIPSYNSAFVVSTSRLNDTELIVHISSYETYKIPLSEILMCLENNGLLLLNSSSSKTFGGRLFYNLHFQVDKTQRYECDDLIQKLSSIYEKQKNNHLGTMDQTINSVLIY*