AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680035804.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035804.01.T01 MTR_6g090030 100.000 133 0 0 1 133 1 133 6.10e-97 275
MsG0680035804.01.T01 MTR_8g102330 84.211 133 21 0 1 133 1 133 6.14e-84 242
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035804.01.T01 AT2G19770 85.821 134 18 1 1 133 1 134 1.05e-83 241
MsG0680035804.01.T01 AT4G29340 84.328 134 20 1 1 133 1 134 4.50e-81 234
MsG0680035804.01.T01 AT2G19760 75.940 133 30 1 1 133 1 131 2.49e-70 207
MsG0680035804.01.T01 AT5G56600 75.188 133 31 1 1 133 1 131 3.69e-70 207
MsG0680035804.01.T01 AT4G29350 74.436 133 32 1 1 133 1 131 5.24e-70 206
MsG0680035804.01.T01 AT5G56600 74.157 89 21 1 1 89 1 87 1.01e-42 137

Find 41 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCTACTGGCATGCACCTT+GGG 0.264392 6:-112541558 MsG0680035804.01.T01:CDS
CGGCCATGATGGTTCTGTTT+GGG 0.280905 6:-112542311 MsG0680035804.01.T01:CDS
GGTATAACAATAAAGAAAAC+TGG 0.309896 6:-112540914 MsG0680035804.01.T01:CDS
TCGGCCATGATGGTTCTGTT+TGG 0.319324 6:-112542312 MsG0680035804.01.T01:CDS
TTTAAGCCTGATGAGATTAC+TGG 0.346384 6:-112541616 MsG0680035804.01.T01:CDS
TTGCACTGTCCAGGAGTAAC+AGG 0.384688 6:+112540860 None:intergenic
CTCACCGCGGCTGCCATTCT+CGG 0.400197 6:-112542331 MsG0680035804.01.T01:CDS
GCACCTACTGGCATGCACCT+TGG 0.404817 6:-112541559 MsG0680035804.01.T01:CDS
ATGATACCAGTAATCTCATC+AGG 0.449971 6:+112541610 None:intergenic
TGGCAGCCGCGGTGAGGTGA+TGG 0.471524 6:+112542338 None:intergenic
ATGGTTATTCAAGGAGAGCC+TGG 0.489756 6:-112541523 MsG0680035804.01.T01:CDS
CCAGTAGGTGCAAGATGTCC+TGG 0.492937 6:+112541571 None:intergenic
TTCCCACGAATGACAGCTCC+AGG 0.493516 6:+112541505 None:intergenic
ATCAAGTACATGGTTATTCA+AGG 0.494643 6:-112541532 MsG0680035804.01.T01:CDS
GAGCCTGGAGCTGTCATTCG+TGG 0.499016 6:-112541508 MsG0680035804.01.T01:CDS
CCAGGACATCTTGCACCTAC+TGG 0.499382 6:-112541571 MsG0680035804.01.T01:CDS
ACAACCATGTTGCACTGTCC+AGG 0.502009 6:+112540851 None:intergenic
AGAACCATCATGGCCGAGAA+TGG 0.507647 6:+112542318 None:intergenic
CAACATGGTTGTTGAGAGGT+TGG 0.513380 6:-112540840 MsG0680035804.01.T01:CDS
TATGAAGAACCTGTTACTCC+TGG 0.524464 6:-112540869 MsG0680035804.01.T01:CDS
GCTGCCATTCTCGGCCATGA+TGG 0.527639 6:-112542322 MsG0680035804.01.T01:CDS
TCAGAGCACTTCATTCCCTC+AGG 0.534445 6:-112542287 MsG0680035804.01.T01:intron
AGCTGTCATTCGTGGGAAGA+AGG 0.534608 6:-112541500 MsG0680035804.01.T01:intron
AACATGGTTGTTGAGAGGTT+GGG 0.543922 6:-112540839 MsG0680035804.01.T01:CDS
CCTTGGGGAAATCAAGTACA+TGG 0.573528 6:-112541542 MsG0680035804.01.T01:CDS
GAGCCCAAACAGAACCATCA+TGG 0.578204 6:+112542308 None:intergenic
ATGAAAGATTTCGACGAACC+AGG 0.589514 6:-112541589 MsG0680035804.01.T01:CDS
GGAGATTACCTCGCTGAACA+AGG 0.592995 6:-112540818 MsG0680035804.01.T01:CDS
AGCCTGGAGCTGTCATTCGT+GGG 0.597292 6:-112541507 MsG0680035804.01.T01:CDS
ATGGCCGAGAATGGCAGCCG+CGG 0.600377 6:+112542327 None:intergenic
ATGTGTGATATCGATGGCAC+TGG 0.601789 6:-112542361 MsG0680035804.01.T01:CDS
GTATAACAATAAAGAAAACT+GGG 0.606508 6:-112540913 MsG0680035804.01.T01:CDS
CGAGAATGGCAGCCGCGGTG+AGG 0.611389 6:+112542332 None:intergenic
ACCTACTGGCATGCACCTTG+GGG 0.622362 6:-112541557 MsG0680035804.01.T01:CDS
CCATGTACTTGATTTCCCCA+AGG 0.634909 6:+112541542 None:intergenic
TCCCCAAGGTGCATGCCAGT+AGG 0.652608 6:+112541556 None:intergenic
TACTCCTGGACAGTGCAACA+TGG 0.654920 6:-112540855 MsG0680035804.01.T01:CDS
AGTGCAACATGGTTGTTGAG+AGG 0.689429 6:-112540844 MsG0680035804.01.T01:CDS
CATTTGATGTGTGATATCGA+TGG 0.707103 6:-112542367 MsG0680035804.01.T01:CDS
TCTAGAGACCTTGTTCAGCG+AGG 0.724066 6:+112540810 None:intergenic
CACTGGCCATCACCTCACCG+CGG 0.759051 6:-112542344 MsG0680035804.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACAAAAATATATAGGTT+TGG + Chr6:112541916-112541935 None:intergenic 15.0%
!! GAAAATGAAAAATATATTGT+AGG - Chr6:112541885-112541904 MsG0680035804.01.T01:intron 15.0%
!! TTGTGAAAACAAAAATATAT+AGG + Chr6:112541921-112541940 None:intergenic 15.0%
!! ATAATATGTTTATCCAAACA+TGG + Chr6:112541402-112541421 None:intergenic 20.0%
!! GTATAACAATAAAGAAAACT+GGG - Chr6:112542292-112542311 MsG0680035804.01.T01:CDS 20.0%
!!! ATAAATTGATTTGAATTGAG+TGG + Chr6:112540950-112540969 None:intergenic 20.0%
! GGTATAACAATAAAGAAAAC+TGG - Chr6:112542291-112542310 MsG0680035804.01.T01:CDS 25.0%
! TGAATATATGATCAATATGC+CGG - Chr6:112542201-112542220 MsG0680035804.01.T01:intron 25.0%
! TGCGTTTAGAAGAATTTATT+TGG - Chr6:112541823-112541842 MsG0680035804.01.T01:intron 25.0%
!! TCAAGAACATTGTATCTTTT+AGG - Chr6:112541482-112541501 MsG0680035804.01.T01:intron 25.0%
ACTTAGACAAATTGTGCTAT+AGG - Chr6:112541290-112541309 MsG0680035804.01.T01:intron 30.0%
AGGTAACTTGATATACTCAT+AGG - Chr6:112541725-112541744 MsG0680035804.01.T01:intron 30.0%
ATCAAGTACATGGTTATTCA+AGG - Chr6:112541673-112541692 MsG0680035804.01.T01:intron 30.0%
ATTTGAGAAGCTATGAGATT+AGG - Chr6:112541375-112541394 MsG0680035804.01.T01:intron 30.0%
GGTAACTTGATATACTCATA+GGG - Chr6:112541726-112541745 MsG0680035804.01.T01:intron 30.0%
TGTCTGTGTTAGTATTCAAA+TGG + Chr6:112542120-112542139 None:intergenic 30.0%
TTTGAGAAGCTATGAGATTA+GGG - Chr6:112541376-112541395 MsG0680035804.01.T01:intron 30.0%
! TAATTCACATTTGAGACATG+TGG - Chr6:112541124-112541143 MsG0680035804.01.T01:intron 30.0%
AACTTGATATACTCATAGGG+TGG - Chr6:112541729-112541748 MsG0680035804.01.T01:intron 35.0%
AATTGAGTGGATATTACCTG+AGG + Chr6:112540937-112540956 None:intergenic 35.0%
ACTCAATGTGAAGACTTTCA+AGG + Chr6:112541982-112542001 None:intergenic 35.0%
ACTTGATATACTCATAGGGT+GGG - Chr6:112541730-112541749 MsG0680035804.01.T01:intron 35.0%
ATGATACCAGTAATCTCATC+AGG + Chr6:112541598-112541617 None:intergenic 35.0%
ATTGAGTGGATATTACCTGA+GGG + Chr6:112540936-112540955 None:intergenic 35.0%
CAAAACAAATGCAGATGCAA+AGG + Chr6:112542259-112542278 None:intergenic 35.0%
CATTTGATGTGTGATATCGA+TGG - Chr6:112540838-112540857 MsG0680035804.01.T01:CDS 35.0%
TAGTGTCTATGTGTGAGTAT+CGG + Chr6:112542155-112542174 None:intergenic 35.0%
TGAAATAATCGCTACTAGCA+CGG + Chr6:112541245-112541264 None:intergenic 35.0%
TTCTAAACGCACAACTCATA+CGG + Chr6:112541814-112541833 None:intergenic 35.0%
TTTAAGCCTGATGAGATTAC+TGG - Chr6:112541589-112541608 MsG0680035804.01.T01:CDS 35.0%
!! CAGAGACATTTGCTATGTTA+GGG + Chr6:112541781-112541800 None:intergenic 35.0%
!!! GCATCTGCATTTGTTTTGTA+GGG - Chr6:112542261-112542280 MsG0680035804.01.T01:intron 35.0%
!!! TGCATCTGCATTTGTTTTGT+AGG - Chr6:112542260-112542279 MsG0680035804.01.T01:intron 35.0%
AACATGGTTGTTGAGAGGTT+GGG - Chr6:112542366-112542385 MsG0680035804.01.T01:CDS 40.0%
ATGAAAGATTTCGACGAACC+AGG - Chr6:112541616-112541635 MsG0680035804.01.T01:CDS 40.0%
CAAATTGTGCTATAGGAGTC+AGG - Chr6:112541297-112541316 MsG0680035804.01.T01:intron 40.0%
GTGTGTTAGTGTCTGATATG+TGG + Chr6:112542237-112542256 None:intergenic 40.0%
TATGAAGAACCTGTTACTCC+TGG - Chr6:112542336-112542355 MsG0680035804.01.T01:CDS 40.0%
TATGAGATTAGGGCCATGTT+TGG - Chr6:112541386-112541405 MsG0680035804.01.T01:intron 40.0%
TGTTAGTGTCTGATATGTGG+CGG + Chr6:112542234-112542253 None:intergenic 40.0%
!! ACATTTGCTATGTTAGGGTG+CGG + Chr6:112541776-112541795 None:intergenic 40.0%
!! GCAGAGACATTTGCTATGTT+AGG + Chr6:112541782-112541801 None:intergenic 40.0%
!!! GCATTTGTTTTGTAGGGATC+TGG - Chr6:112542267-112542286 MsG0680035804.01.T01:intron 40.0%
!!! TTTGTTTTGTAGGGATCTGG+TGG - Chr6:112542270-112542289 MsG0680035804.01.T01:intron 40.0%
AGTGCAACATGGTTGTTGAG+AGG - Chr6:112542361-112542380 MsG0680035804.01.T01:CDS 45.0%
ATGGTTATTCAAGGAGAGCC+TGG - Chr6:112541682-112541701 MsG0680035804.01.T01:intron 45.0%
ATGTGTGATATCGATGGCAC+TGG - Chr6:112540844-112540863 MsG0680035804.01.T01:CDS 45.0%
CAACATGGTTGTTGAGAGGT+TGG - Chr6:112542365-112542384 MsG0680035804.01.T01:CDS 45.0%
CCATGTACTTGATTTCCCCA+AGG + Chr6:112541666-112541685 None:intergenic 45.0%
CCTTGGGGAAATCAAGTACA+TGG - Chr6:112541663-112541682 MsG0680035804.01.T01:intron 45.0%
GATATGTGGCGGTCTAATAC+CGG + Chr6:112542223-112542242 None:intergenic 45.0%
!! CATTTGCTATGTTAGGGTGC+GGG + Chr6:112541775-112541794 None:intergenic 45.0%
!!! ACTGGGCAAGCTCTAGTTTT+TGG - Chr6:112542309-112542328 MsG0680035804.01.T01:CDS 45.0%
ACAACCATGTTGCACTGTCC+AGG + Chr6:112542357-112542376 None:intergenic 50.0%
AGAACCATCATGGCCGAGAA+TGG + Chr6:112540890-112540909 None:intergenic 50.0%
AGCTGTCATTCGTGGGAAGA+AGG - Chr6:112541705-112541724 MsG0680035804.01.T01:intron 50.0%
ATAGGGTGGGATTGAATCGC+TGG - Chr6:112541743-112541762 MsG0680035804.01.T01:intron 50.0%
GAGCCCAAACAGAACCATCA+TGG + Chr6:112540900-112540919 None:intergenic 50.0%
GGAGATTACCTCGCTGAACA+AGG - Chr6:112542387-112542406 MsG0680035804.01.T01:CDS 50.0%
TACTCCTGGACAGTGCAACA+TGG - Chr6:112542350-112542369 MsG0680035804.01.T01:CDS 50.0%
TTGCACTGTCCAGGAGTAAC+AGG + Chr6:112542348-112542367 None:intergenic 50.0%
! CGGCCATGATGGTTCTGTTT+GGG - Chr6:112540894-112540913 MsG0680035804.01.T01:CDS 50.0%
! TCAGAGCACTTCATTCCCTC+AGG - Chr6:112540918-112540937 MsG0680035804.01.T01:CDS 50.0%
! TCGGCCATGATGGTTCTGTT+TGG - Chr6:112540893-112540912 MsG0680035804.01.T01:CDS 50.0%
ACCTACTGGCATGCACCTTG+GGG - Chr6:112541648-112541667 MsG0680035804.01.T01:intron 55.0%
AGCCTGGAGCTGTCATTCGT+GGG - Chr6:112541698-112541717 MsG0680035804.01.T01:intron 55.0%
CACCTACTGGCATGCACCTT+GGG - Chr6:112541647-112541666 MsG0680035804.01.T01:intron 55.0%
CCAGGACATCTTGCACCTAC+TGG - Chr6:112541634-112541653 MsG0680035804.01.T01:intron 55.0%
CCAGTAGGTGCAAGATGTCC+TGG + Chr6:112541637-112541656 None:intergenic 55.0%
TTCCCACGAATGACAGCTCC+AGG + Chr6:112541703-112541722 None:intergenic 55.0%
GAGCCTGGAGCTGTCATTCG+TGG - Chr6:112541697-112541716 MsG0680035804.01.T01:intron 60.0%
GCACCTACTGGCATGCACCT+TGG - Chr6:112541646-112541665 MsG0680035804.01.T01:intron 60.0%
GCTGCCATTCTCGGCCATGA+TGG - Chr6:112540883-112540902 MsG0680035804.01.T01:CDS 60.0%
TCCCCAAGGTGCATGCCAGT+AGG + Chr6:112541652-112541671 None:intergenic 60.0%
ATGGCCGAGAATGGCAGCCG+CGG + Chr6:112540881-112540900 None:intergenic 65.0%
CACTGGCCATCACCTCACCG+CGG - Chr6:112540861-112540880 MsG0680035804.01.T01:CDS 65.0%
CTCACCGCGGCTGCCATTCT+CGG - Chr6:112540874-112540893 MsG0680035804.01.T01:CDS 65.0%
CGAGAATGGCAGCCGCGGTG+AGG + Chr6:112540876-112540895 None:intergenic 70.0%
TGGCAGCCGCGGTGAGGTGA+TGG + Chr6:112540870-112540889 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr6 gene 112540811 112542416 112540811 ID=MsG0680035804.01;Name=MsG0680035804.01
Chr6 mRNA 112540811 112542416 112540811 ID=MsG0680035804.01.T01;Parent=MsG0680035804.01;Name=MsG0680035804.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|3|0|133
Chr6 exon 112542288 112542416 112542288 ID=MsG0680035804.01.T01:exon:4851;Parent=MsG0680035804.01.T01
Chr6 exon 112541501 112541638 112541501 ID=MsG0680035804.01.T01:exon:4852;Parent=MsG0680035804.01.T01
Chr6 exon 112540811 112540945 112540811 ID=MsG0680035804.01.T01:exon:4853;Parent=MsG0680035804.01.T01
Chr6 CDS 112542288 112542416 112542288 ID=MsG0680035804.01.T01:cds;Parent=MsG0680035804.01.T01
Chr6 CDS 112541501 112541638 112541501 ID=MsG0680035804.01.T01:cds;Parent=MsG0680035804.01.T01
Chr6 CDS 112540811 112540945 112540811 ID=MsG0680035804.01.T01:cds;Parent=MsG0680035804.01.T01
Gene Sequence

>MsG0680035804.01.T01

ATGTCGTGGCAAACTTATGTTGATGAACATTTGATGTGTGATATCGATGGCACTGGCCATCACCTCACCGCGGCTGCCATTCTCGGCCATGATGGTTCTGTTTGGGCTCAGAGCACTTCATTCCCTCAGTTTAAGCCTGATGAGATTACTGGTATCATGAAAGATTTCGACGAACCAGGACATCTTGCACCTACTGGCATGCACCTTGGGGAAATCAAGTACATGGTTATTCAAGGAGAGCCTGGAGCTGTCATTCGTGGGAAGAAGGGATCTGGTGGTATAACAATAAAGAAAACTGGGCAAGCTCTAGTTTTTGGCATCTATGAAGAACCTGTTACTCCTGGACAGTGCAACATGGTTGTTGAGAGGTTGGGAGATTACCTCGCTGAACAAGGTCTCTAG
Protein sequence

>MsG0680035804.01.T01

MSWQTYVDEHLMCDIDGTGHHLTAAAILGHDGSVWAQSTSFPQFKPDEITGIMKDFDEPGHLAPTGMHLGEIKYMVIQGEPGAVIRGKKGSGGITIKKTGQALVFGIYEEPVTPGQCNMVVERLGDYLAEQGL*