AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034556.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034556.01.T01 MTR_4g123470 89.697 165 17 0 1 165 61 225 6.51e-111 315
MsG0680034556.01.T01 MTR_7g113060 78.378 37 8 0 127 163 3 39 1.03e-14 68.6
MsG0680034556.01.T01 MTR_7g025150 27.517 149 108 0 2 150 59 207 1.34e-12 63.5
MsG0680034556.01.T01 MTR_4g085790 26.846 149 109 0 2 150 59 207 2.76e-12 62.8
MsG0680034556.01.T01 MTR_1g090753 39.437 71 43 0 2 72 76 146 8.66e-12 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 36 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCGTGATGTTTCGCTCTA+AGG 0.257904 6:+90325217 None:intergenic
GAAGTTCCTATCACTGGATA+TGG 0.296899 6:-90325389 MsG0680034556.01.T01:CDS
TAGGAACTACCTTATACTTT+TGG 0.309505 6:-90325246 MsG0680034556.01.T01:CDS
AGGAATTTGCCAAAAGTATA+AGG 0.322050 6:+90325237 None:intergenic
CGATTATTCTATGAGTTTAG+TGG 0.384313 6:-90325545 MsG0680034556.01.T01:CDS
CCCATACCAAATGTGATGTT+TGG 0.403790 6:-90325132 MsG0680034556.01.T01:CDS
TCCAAACATCACATTTGGTA+TGG 0.411232 6:+90325131 None:intergenic
ACCTTTGAAGTTCCTATCAC+TGG 0.418936 6:-90325395 MsG0680034556.01.T01:CDS
ATCTACTTCCACCAAGGTAC+TGG 0.428620 6:+90325504 None:intergenic
CCAAACATCACATTTGGTAT+GGG 0.445120 6:+90325132 None:intergenic
TGCCGCACTCATGGAATGAT+AGG 0.462626 6:+90325433 None:intergenic
TTGTGCTGCCAATGGTATTG+AGG 0.463000 6:-90325091 MsG0680034556.01.T01:CDS
GTCGATCCATATCCAGTGAT+AGG 0.476606 6:+90325383 None:intergenic
GTCAAGCGTTTATCAACGCT+TGG 0.478441 6:+90325008 None:intergenic
GCACGATGCTGCCGCACTCA+TGG 0.495354 6:+90325424 None:intergenic
TGTGCTGCCAATGGTATTGA+GGG 0.501205 6:-90325090 MsG0680034556.01.T01:CDS
TCTGTATATTTGAGTCTCAC+TGG 0.509877 6:+90325159 None:intergenic
CCAAATGTGATGTTTGGAAA+AGG 0.517256 6:-90325126 MsG0680034556.01.T01:CDS
ATTGTTGATTTCCAGTACCT+TGG 0.521581 6:-90325515 MsG0680034556.01.T01:CDS
GTTGATTTCCAGTACCTTGG+TGG 0.532128 6:-90325512 MsG0680034556.01.T01:CDS
GGCCATTGTTGACAGATGGT+TGG 0.540247 6:-90325577 MsG0680034556.01.T01:CDS
TGATAGGGTGGATAATCAGC+TGG 0.541144 6:+90325449 None:intergenic
AGTCGGCCATTGTTGACAGA+TGG 0.551046 6:-90325581 MsG0680034556.01.T01:CDS
CAAACATCACATTTGGTATG+GGG 0.563549 6:+90325133 None:intergenic
GTCTCCGCCCTCAATACCAT+TGG 0.581950 6:+90325083 None:intergenic
CACGATTACGTCATGTTGTG+CGG 0.585634 6:-90325201 MsG0680034556.01.T01:CDS
ATGTGATGTTTGGAAAAGGT+TGG 0.596904 6:-90325122 MsG0680034556.01.T01:CDS
TGTTCAACAAATCAGTTAGT+CGG 0.609582 6:-90325598 MsG0680034556.01.T01:CDS
TCCAGTGATAGGAACTTCAA+AGG 0.609722 6:+90325394 None:intergenic
GCCGCACTCATGGAATGATA+GGG 0.629158 6:+90325434 None:intergenic
ACCCTATCATTCCATGAGTG+CGG 0.640367 6:-90325435 MsG0680034556.01.T01:CDS
CTCCAACCATCTGTCAACAA+TGG 0.642320 6:+90325575 None:intergenic
GCACTCATGGAATGATAGGG+TGG 0.649652 6:+90325437 None:intergenic
TTTGAAATCTACTTCCACCA+AGG 0.681040 6:+90325498 None:intergenic
TGGATCGACGAAATCACCGA+AGG 0.700849 6:-90325369 MsG0680034556.01.T01:intron
GCTGCCAATGGTATTGAGGG+CGG 0.739556 6:-90325087 MsG0680034556.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTTATATATGCTATAATAA+AGG - Chr6:90325308-90325327 MsG0680034556.01.T01:intron 15.0%
!! AAAAAATAATAAGCAACCTT+CGG + Chr6:90325269-90325288 None:intergenic 20.0%
!!! TTTTGATGCTATTAATTTAG+AGG - Chr6:90325286-90325305 MsG0680034556.01.T01:intron 20.0%
CGATTATTCTATGAGTTTAG+TGG - Chr6:90325074-90325093 MsG0680034556.01.T01:CDS 30.0%
TGTTCAACAAATCAGTTAGT+CGG - Chr6:90325021-90325040 MsG0680034556.01.T01:CDS 30.0%
! AGGAATTTGCCAAAAGTATA+AGG + Chr6:90325385-90325404 None:intergenic 30.0%
! TAGGAACTACCTTATACTTT+TGG - Chr6:90325373-90325392 MsG0680034556.01.T01:CDS 30.0%
ATGTGATGTTTGGAAAAGGT+TGG - Chr6:90325497-90325516 MsG0680034556.01.T01:CDS 35.0%
CAAACATCACATTTGGTATG+GGG + Chr6:90325489-90325508 None:intergenic 35.0%
CCAAACATCACATTTGGTAT+GGG + Chr6:90325490-90325509 None:intergenic 35.0%
CCAAATGTGATGTTTGGAAA+AGG - Chr6:90325493-90325512 MsG0680034556.01.T01:CDS 35.0%
TCCAAACATCACATTTGGTA+TGG + Chr6:90325491-90325510 None:intergenic 35.0%
TCTGTATATTTGAGTCTCAC+TGG + Chr6:90325463-90325482 None:intergenic 35.0%
! CCTTTTCCAAACATCACATT+TGG + Chr6:90325496-90325515 None:intergenic 35.0%
! TTTGAAATCTACTTCCACCA+AGG + Chr6:90325124-90325143 None:intergenic 35.0%
!! ATTGTTGATTTCCAGTACCT+TGG - Chr6:90325104-90325123 MsG0680034556.01.T01:CDS 35.0%
AATCGTGATGTTTCGCTCTA+AGG + Chr6:90325405-90325424 None:intergenic 40.0%
CCCATACCAAATGTGATGTT+TGG - Chr6:90325487-90325506 MsG0680034556.01.T01:CDS 40.0%
GAAGTTCCTATCACTGGATA+TGG - Chr6:90325230-90325249 MsG0680034556.01.T01:CDS 40.0%
TCCAGTGATAGGAACTTCAA+AGG + Chr6:90325228-90325247 None:intergenic 40.0%
!! ACCTTTGAAGTTCCTATCAC+TGG - Chr6:90325224-90325243 MsG0680034556.01.T01:CDS 40.0%
ACCCTATCATTCCATGAGTG+CGG - Chr6:90325184-90325203 MsG0680034556.01.T01:CDS 45.0%
ATCTACTTCCACCAAGGTAC+TGG + Chr6:90325118-90325137 None:intergenic 45.0%
CACGATTACGTCATGTTGTG+CGG - Chr6:90325418-90325437 MsG0680034556.01.T01:CDS 45.0%
CTCCAACCATCTGTCAACAA+TGG + Chr6:90325047-90325066 None:intergenic 45.0%
GTCGATCCATATCCAGTGAT+AGG + Chr6:90325239-90325258 None:intergenic 45.0%
TGATAGGGTGGATAATCAGC+TGG + Chr6:90325173-90325192 None:intergenic 45.0%
TTGTGCTGCCAATGGTATTG+AGG - Chr6:90325528-90325547 MsG0680034556.01.T01:CDS 45.0%
! ACGAGTTTTTGTGCTGCCAA+TGG - Chr6:90325520-90325539 MsG0680034556.01.T01:CDS 45.0%
! GTTGATTTCCAGTACCTTGG+TGG - Chr6:90325107-90325126 MsG0680034556.01.T01:CDS 45.0%
! TGTGCTGCCAATGGTATTGA+GGG - Chr6:90325529-90325548 MsG0680034556.01.T01:CDS 45.0%
!!! TTTTTCTTTTTTTTTTTTTT+AGG - Chr6:90325354-90325373 MsG0680034556.01.T01:intron 5.0%
AGTCGGCCATTGTTGACAGA+TGG - Chr6:90325038-90325057 MsG0680034556.01.T01:CDS 50.0%
GCACTCATGGAATGATAGGG+TGG + Chr6:90325185-90325204 None:intergenic 50.0%
GCCGCACTCATGGAATGATA+GGG + Chr6:90325188-90325207 None:intergenic 50.0%
GGCCATTGTTGACAGATGGT+TGG - Chr6:90325042-90325061 MsG0680034556.01.T01:CDS 50.0%
TGCCGCACTCATGGAATGAT+AGG + Chr6:90325189-90325208 None:intergenic 50.0%
TGGATCGACGAAATCACCGA+AGG - Chr6:90325250-90325269 MsG0680034556.01.T01:intron 50.0%
GTCTCCGCCCTCAATACCAT+TGG + Chr6:90325539-90325558 None:intergenic 55.0%
! GCTGCCAATGGTATTGAGGG+CGG - Chr6:90325532-90325551 MsG0680034556.01.T01:CDS 55.0%
GCACGATGCTGCCGCACTCA+TGG + Chr6:90325198-90325217 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 90325020 90325621 90325020 ID=MsG0680034556.01;Name=MsG0680034556.01
Chr6 mRNA 90325020 90325621 90325020 ID=MsG0680034556.01.T01;Parent=MsG0680034556.01;Name=MsG0680034556.01.T01;_AED=0.12;_eAED=0.12;_QI=0|0|0|1|1|1|2|0|165
Chr6 exon 90325020 90325265 90325020 ID=MsG0680034556.01.T01:exon:35098;Parent=MsG0680034556.01.T01
Chr6 exon 90325370 90325621 90325370 ID=MsG0680034556.01.T01:exon:35097;Parent=MsG0680034556.01.T01
Chr6 CDS 90325370 90325621 90325370 ID=MsG0680034556.01.T01:cds;Parent=MsG0680034556.01.T01
Chr6 CDS 90325020 90325265 90325020 ID=MsG0680034556.01.T01:cds;Parent=MsG0680034556.01.T01
Gene Sequence

>MsG0680034556.01.T01

ATGTTCAACAAATCAGTTAGTCGGCCATTGTTGACAGATGGTTGGAGTGCATTGCGATTATTCTATGAGTTTAGTGGAAGTAAGATTGTTGATTTCCAGTACCTTGGTGGAAGTAGATTTCAAATCTTTGTTTTTGCTCATAACATTACTCCAGCTGATTATCCACCCTATCATTCCATGAGTGCGGCAGCATCGTGCTATTGTACCTTTGAAGTTCCTATCACTGGATATGGATCGACGAAATCACCGAAGGAACTACCTTATACTTTTGGCAAATTCCTTAGAGCGAAACATCACGATTACGTCATGTTGTGCGGATCTTATGACAATATCATTCCAGTGAGACTCAAATATACAGACGACCCCATACCAAATGTGATGTTTGGAAAAGGTTGGACGAGTTTTTGTGCTGCCAATGGTATTGAGGGCGGAGACGTGTTGATTTTCAAGTGCAAGTACGTCATGAACAAAAAATATATTATCATATCCAAGCGTTGA
Protein sequence

>MsG0680034556.01.T01

MFNKSVSRPLLTDGWSALRLFYEFSGSKIVDFQYLGGSRFQIFVFAHNITPADYPPYHSMSAAASCYCTFEVPITGYGSTKSPKELPYTFGKFLRAKHHDYVMLCGSYDNIIPVRLKYTDDPIPNVMFGKGWTSFCAANGIEGGDVLIFKCKYVMNKKYIIISKR*