AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76906

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76906.t1 MTR_7g007120 91.026 78 7 0 11 88 104 181 3.74e-51 158
MS.gene76906.t1 MTR_7g007120 89.744 78 8 0 11 88 104 181 2.13e-50 156
MS.gene76906.t1 MTR_7g007200 89.744 78 8 0 11 88 104 181 2.18e-50 156
MS.gene76906.t1 MTR_7g007120 89.744 78 8 0 11 88 104 181 2.27e-50 156
MS.gene76906.t1 MTR_7g007220 89.744 78 8 0 11 88 104 181 3.60e-50 156
MS.gene76906.t1 MTR_6g018310 87.179 78 10 0 11 88 103 180 7.18e-50 155
MS.gene76906.t1 MTR_6g018300 87.179 78 10 0 11 88 100 177 1.59e-49 154
MS.gene76906.t1 MTR_7g007230 88.462 78 9 0 11 88 104 181 8.29e-49 152
MS.gene76906.t1 MTR_7g007210 88.525 61 7 0 11 71 104 164 5.80e-37 123
MS.gene76906.t1 MTR_4g127870 51.316 76 37 0 12 87 94 169 2.01e-28 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76906.t1 AT1G67090 73.077 78 21 0 11 88 101 178 1.76e-40 131
MS.gene76906.t1 AT5G38410 71.795 78 22 0 11 88 101 178 1.04e-39 129
MS.gene76906.t1 AT5G38430 71.795 78 22 0 11 88 101 178 1.12e-39 129
MS.gene76906.t1 AT5G38430 71.795 78 22 0 11 88 101 178 1.12e-39 129
MS.gene76906.t1 AT5G38420 71.795 78 22 0 11 88 101 178 1.17e-39 129
MS.gene76906.t1 AT5G38410 70.513 78 23 0 11 88 106 183 5.92e-39 127
MS.gene76906.t1 AT5G38410 71.429 70 20 0 19 88 102 171 6.68e-35 117

Find 20 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATACTATGACGGACGTTAC+TGG 0.345500 7.2:-91235007 MS.gene76906:CDS
TGATGCTTCTCAAGTGTTGA+AGG 0.410018 7.2:-91234952 MS.gene76906:CDS
ATGTGGAAGTTGCCTTTGTT+TGG 0.411503 7.2:-91234981 MS.gene76906:CDS
ATGATACGGACAAAGGCATC+AGG 0.443523 7.2:+91234903 None:intergenic
AAGGGCAGGTTTATCGTTGT+AGG 0.452282 7.2:-91235576 MS.gene76906:CDS
GATGCCTTTGTCCGTATCAT+CGG 0.484184 7.2:-91234900 MS.gene76906:CDS
TATCGTTGTAGGCGTGGTAG+AGG 0.519971 7.2:-91235565 MS.gene76906:intron
GCAGGAGGTTCATGAAGGGC+AGG 0.521656 7.2:-91235590 None:intergenic
CATAGTATCCTGGTGAATTG+TGG 0.547121 7.2:+91235021 None:intergenic
ACTAAAACTTAGTAAACTGC+TGG 0.552400 7.2:+91234828 None:intergenic
TAACGTCCGTCATAGTATCC+TGG 0.560465 7.2:+91235011 None:intergenic
CATTGTCGAATCCGATGATA+CGG 0.577226 7.2:+91234889 None:intergenic
CGTGAGAACCACAATTCACC+AGG 0.581057 7.2:-91235029 MS.gene76906:CDS
CAGGTTTATCGTTGTAGGCG+TGG 0.585771 7.2:-91235571 MS.gene76906:CDS
GCATCAGTTGCTCCAAACAA+AGG 0.598394 7.2:+91234969 None:intergenic
CTGGTGAATTGTGGTTCTCA+CGG 0.605652 7.2:+91235030 None:intergenic
TGATACGGACAAAGGCATCA+GGG 0.656050 7.2:+91234904 None:intergenic
AATTCACCAGGATACTATGA+CGG 0.657839 7.2:-91235017 MS.gene76906:CDS
GAATCCGATGATACGGACAA+AGG 0.687909 7.2:+91234896 None:intergenic
ACGGACGTTACTGGACAATG+TGG 0.708236 7.2:-91234998 MS.gene76906:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAAAACAAAATATTTGT+AGG + chr7.2:91234937-91234956 None:intergenic 10.0%
!!! GTAATAGTATTTTAAATATT+TGG - chr7.2:91234904-91234923 MS.gene76906:CDS 10.0%
!! TTACGAAGAAAAAAATTTCT+CGG - chr7.2:91235257-91235276 MS.gene76906:intron 20.0%
! AAGTAAGAAGAACTTAATTG+TGG + chr7.2:91235323-91235342 None:intergenic 25.0%
! ATAGAACATCCAAAATATCA+AGG - chr7.2:91235285-91235304 MS.gene76906:intron 25.0%
! GGTTAAAAAAACGCATATTT+CGG + chr7.2:91235124-91235143 None:intergenic 25.0%
ATTACAAGACCATAACACTA+CGG + chr7.2:91234889-91234908 None:intergenic 30.0%
CGAATGCATGTTTATATCAA+AGG - chr7.2:91235019-91235038 MS.gene76906:CDS 30.0%
TAAGAAGAACTTAATTGTGG+AGG + chr7.2:91235320-91235339 None:intergenic 30.0%
AAGAACTTAATTGTGGAGGT+AGG + chr7.2:91235316-91235335 None:intergenic 35.0%
AATTCACCAGGATACTATGA+CGG - chr7.2:91235398-91235417 MS.gene76906:intron 35.0%
AGAACTTAATTGTGGAGGTA+GGG + chr7.2:91235315-91235334 None:intergenic 35.0%
TCCTTTCTGCAAGTTATCAA+AGG + chr7.2:91235357-91235376 None:intergenic 35.0%
TTACAAGACCATAACACTAC+GGG + chr7.2:91234888-91234907 None:intergenic 35.0%
TTTCTGCAAGTTATCAAAGG+TGG + chr7.2:91235354-91235373 None:intergenic 35.0%
! ACCTTTGATAACTTGCAGAA+AGG - chr7.2:91235353-91235372 MS.gene76906:intron 35.0%
! GAATGTTGATTGTGAAGTGA+TGG - chr7.2:91235184-91235203 MS.gene76906:intron 35.0%
! TAACCACAATTTGCCCTTTT+GGG - chr7.2:91235139-91235158 MS.gene76906:intron 35.0%
! TAGGGTTGTCCTTGATATTT+TGG + chr7.2:91235297-91235316 None:intergenic 35.0%
! TTAACCACAATTTGCCCTTT+TGG - chr7.2:91235138-91235157 MS.gene76906:intron 35.0%
ATGTGGAAGTTGCCTTTGTT+TGG - chr7.2:91235434-91235453 MS.gene76906:intron 40.0%
CATAGTATCCTGGTGAATTG+TGG + chr7.2:91235397-91235416 None:intergenic 40.0%
CATTGTCGAATCCGATGATA+CGG + chr7.2:91235529-91235548 None:intergenic 40.0%
! AACCACAATTTGCCCTTTTG+GGG - chr7.2:91235140-91235159 MS.gene76906:intron 40.0%
!! TGATGCTTCTCAAGTGTTGA+AGG - chr7.2:91235463-91235482 MS.gene76906:intron 40.0%
AAGGGCAGGTTTATCGTTGT+AGG - chr7.2:91234839-91234858 MS.gene76906:CDS 45.0%
AATGCAGCAAACACCCCAAA+AGG + chr7.2:91235156-91235175 None:intergenic 45.0%
AGGACTATCCCGTAGTGTTA+TGG - chr7.2:91234877-91234896 MS.gene76906:CDS 45.0%
ATGCAGCAAACACCCCAAAA+GGG + chr7.2:91235155-91235174 None:intergenic 45.0%
CTGGTGAATTGTGGTTCTCA+CGG + chr7.2:91235388-91235407 None:intergenic 45.0%
GAATCCGATGATACGGACAA+AGG + chr7.2:91235522-91235541 None:intergenic 45.0%
GATGCCTTTGTCCGTATCAT+CGG - chr7.2:91235515-91235534 MS.gene76906:intron 45.0%
GCATCAGTTGCTCCAAACAA+AGG + chr7.2:91235449-91235468 None:intergenic 45.0%
TAACGTCCGTCATAGTATCC+TGG + chr7.2:91235407-91235426 None:intergenic 45.0%
!! ATGATACGGACAAAGGCATC+AGG + chr7.2:91235515-91235534 None:intergenic 45.0%
!! GATACTATGACGGACGTTAC+TGG - chr7.2:91235408-91235427 MS.gene76906:intron 45.0%
!! TGATACGGACAAAGGCATCA+GGG + chr7.2:91235514-91235533 None:intergenic 45.0%
ACGGACGTTACTGGACAATG+TGG - chr7.2:91235417-91235436 MS.gene76906:intron 50.0%
CACCCCAAAAGGGCAAATTG+TGG + chr7.2:91235145-91235164 None:intergenic 50.0%
CAGGTTTATCGTTGTAGGCG+TGG - chr7.2:91234844-91234863 MS.gene76906:CDS 50.0%
CGTGAGAACCACAATTCACC+AGG - chr7.2:91235386-91235405 MS.gene76906:intron 50.0%
TATCGTTGTAGGCGTGGTAG+AGG - chr7.2:91234850-91234869 MS.gene76906:CDS 50.0%
GTAGGCGTGGTAGAGGTCTT+AGG - chr7.2:91234857-91234876 MS.gene76906:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 91234836 91235601 91234836 ID=MS.gene76906
chr7.2 mRNA 91234836 91235601 91234836 ID=MS.gene76906.t1;Parent=MS.gene76906
chr7.2 exon 91235566 91235601 91235566 ID=MS.gene76906.t1.exon1;Parent=MS.gene76906.t1
chr7.2 CDS 91235566 91235601 91235566 ID=cds.MS.gene76906.t1;Parent=MS.gene76906.t1
chr7.2 exon 91234836 91235066 91234836 ID=MS.gene76906.t1.exon2;Parent=MS.gene76906.t1
chr7.2 CDS 91234836 91235066 91234836 ID=cds.MS.gene76906.t1;Parent=MS.gene76906.t1
Gene Sequence

>MS.gene76906

ATGAAGGGCAGGTTTATCGTTGTAGGCGTGGTAGAGGTCTTAGGACTATCCCGTAGTGTTATGGTCTTGTAATAGTATTTTAAATATTTGGTTTGTATCCTACAAATATTTTGTTTTTAATTTTATGTTTGAAAATTGTGTTGTTTCTTATCTTTTCATTTTAATATTTTATTTATTTATTCACGAATGCATGTTTATATCAAAGGATGATATAATCTGTTTCTGTTCTGATATCTTTCAGATTATATAATTCGAACAGTTTTATGACATTTCAGATTATATCATCCGAAATATGCGTTTTTTTAACCACAATTTGCCCTTTTGGGGTGTTTGCTGCATTTTTTCTAAGAATGTTGATTGTGAAGTGATGGACGATCAATAATTTTGCAGATATAAATGCAAAGATGATAAATTTAAATGATTACGAAGAAAAAAATTTCTCGGATCATATAGAACATCCAAAATATCAAGGACAACCCTACCTCCACAATTAAGTTCTTCTTACTTTTCATAGTCCACCTTTGATAACTTGCAGAAAGGATTTGTGTACCGTGAGAACCACAATTCACCAGGATACTATGACGGACGTTACTGGACAATGTGGAAGTTGCCTTTGTTTGGAGCAACTGATGCTTCTCAAGTGTTGAAGGAGTTTGATGAAGCTATTGCTGCTTACCCTGATGCCTTTGTCCGTATCATCGGATTCGACAATGTTCGTCAAGTTCAATGCATCAGTTTCATTGCACACACACCAGCAGTTTACTAA
Protein sequence

>MS.gene76906.t1

MKGRFIVVGVVEKGFVYRENHNSPGYYDGRYWTMWKLPLFGATDASQVLKEFDEAIAAYPDAFVRIIGFDNVRQVQCISFIAHTPAVY