AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene44503


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene44503.t1 MTR_4g095310 100.000 270 0 0 1 270 1 270 0.0 558
MS.gene44503.t1 MTR_5g016150 80.224 268 53 0 1 268 1 268 5.72e-170 472
MS.gene44503.t1 MTR_1g018320 57.430 249 104 2 6 253 8 255 1.01e-107 313
MS.gene44503.t1 MTR_3g045440 40.408 245 144 2 9 252 13 256 3.25e-69 215
MS.gene44503.t1 MTR_6g086560 40.157 254 149 3 9 260 22 274 2.18e-66 208
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene44503.t1 AT4G37470 78.810 269 57 0 1 269 1 269 4.62e-166 461
MS.gene44503.t1 AT3G03990 57.661 248 104 1 6 253 8 254 2.86e-108 314
MS.gene44503.t1 AT3G24420 43.548 248 137 3 7 252 13 259 3.02e-76 233

Find 58 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTCACAACGTGAAAGTTT+TGG 0.271854 8.1:+25939604 MS.gene44503:CDS
AGGATTTGAGCAAGAAGATT+TGG 0.309415 8.1:+25940849 MS.gene44503:CDS
CTCGCCGGACGTTGTTATTC+CGG 0.318614 8.1:+25941206 MS.gene44503:CDS
CGCTCAAAATCAAAGTAATC+TGG 0.326618 8.1:-25939761 None:intergenic
CATTCTGTTTCTGCTATGAT+TGG 0.327046 8.1:+25939866 MS.gene44503:CDS
GAGCGTTATTCAACCTTAGA+AGG 0.329474 8.1:+25939779 MS.gene44503:CDS
AATTACAAATCATGGTGTTC+TGG 0.329664 8.1:+25940898 MS.gene44503:CDS
GTTGATTCATGTATCTTTGT+TGG 0.344178 8.1:+25939842 MS.gene44503:CDS
AAATTGTTTGTAACACGCTT+AGG 0.357437 8.1:-25941011 None:intergenic
ATCATAAGCATAACCTTCTA+AGG 0.361019 8.1:-25939792 None:intergenic
TATGAAGGATCTAGCGGTTC+CGG 0.394091 8.1:+25941095 MS.gene44503:CDS
ATAGTTCTAGCTCACGGGTT+TGG 0.396140 8.1:+25939644 MS.gene44503:CDS
AATTGTTTGTAACACGCTTA+GGG 0.419608 8.1:-25941010 None:intergenic
TGGCATCAAATTACAAATCA+TGG 0.445032 8.1:+25940890 MS.gene44503:CDS
AGCGGTTCCGGTCGTGGTCG+CGG 0.451096 8.1:+25941107 MS.gene44503:CDS
AACGACAGGGACTACTTTGG+AGG 0.459003 8.1:+25940829 MS.gene44503:CDS
GGATCTAGCGGTTCCGGTCG+TGG 0.461437 8.1:+25941101 MS.gene44503:CDS
GGATTTGCTCCAATGGCAGT+TGG 0.462285 8.1:+25940919 MS.gene44503:CDS
ATGTCCCCTCCAACTGCCAT+TGG 0.469708 8.1:-25940928 None:intergenic
GGATCAACTATTCGATGCTA+TGG 0.479394 8.1:+25940870 MS.gene44503:CDS
TTGAACGACAGGGACTACTT+TGG 0.492694 8.1:+25940826 MS.gene44503:CDS
GGGGAAGGTATTTGAACGAC+AGG 0.494683 8.1:+25940815 MS.gene44503:intron
TGCTCCAATGGCAGTTGGAG+GGG 0.510556 8.1:+25940924 MS.gene44503:CDS
CCTTCATACTTTGTATAATG+TGG 0.518604 8.1:-25941080 None:intergenic
TACTTTGTATAATGTGGCAT+GGG 0.519899 8.1:-25941074 None:intergenic
AATGGCAGTTGGAGGGGACA+TGG 0.527300 8.1:+25940930 MS.gene44503:CDS
AGATATTCCGCGACCACGAC+CGG 0.529415 8.1:-25941114 None:intergenic
GTGTTCTGGATTTGCTCCAA+TGG 0.532527 8.1:+25940912 MS.gene44503:CDS
GGTTCATAGTTCTAGCTCAC+GGG 0.534969 8.1:+25939639 MS.gene44503:CDS
TTGGCACAGATCAATCTGTA+TGG 0.535156 8.1:+25939663 MS.gene44503:CDS
ATCACCGGAATAACAACGTC+CGG 0.537857 8.1:-25941210 None:intergenic
CCACATTATACAAAGTATGA+AGG 0.538729 8.1:+25941080 MS.gene44503:CDS
TTTGCTCCAATGGCAGTTGG+AGG 0.538790 8.1:+25940922 MS.gene44503:CDS
ATACTTTGTATAATGTGGCA+TGG 0.539342 8.1:-25941075 None:intergenic
CTTTATGACAACATGGGAGC+TGG 0.543266 8.1:+25939728 MS.gene44503:CDS
TTGCTCCAATGGCAGTTGGA+GGG 0.545271 8.1:+25940923 MS.gene44503:CDS
CGAATGTGTTTGAGTATCAC+CGG 0.546328 8.1:-25941225 None:intergenic
CGGTTCATAGTTCTAGCTCA+CGG 0.558590 8.1:+25939638 MS.gene44503:CDS
AACACGCTTAGGGCTATGTC+TGG 0.562881 8.1:-25941000 None:intergenic
ACTCGCTACCAACATGTTGG+TGG 0.576429 8.1:-25941137 None:intergenic
ACACATTCGTCATGATATTG+CGG 0.602861 8.1:+25941239 MS.gene44503:CDS
GAATATCTCCACCAACATGT+TGG 0.605480 8.1:+25941129 MS.gene44503:CDS
TTTGCCGCAGTTAAGCTCGC+CGG 0.607162 8.1:+25941191 MS.gene44503:CDS
TGGACTCGCTACCAACATGT+TGG 0.613943 8.1:-25941140 None:intergenic
CATGAGACAAATATTATGCA+TGG 0.615267 8.1:+25941044 MS.gene44503:CDS
TGTCATACTTTATGACAACA+TGG 0.621368 8.1:+25939721 MS.gene44503:CDS
CATCGTGGAGGTTATGTCGA+CGG 0.640034 8.1:+25941161 MS.gene44503:CDS
CGTGGAGGTTATGTCGACGG+AGG 0.645516 8.1:+25941164 MS.gene44503:CDS
CGAAACTCATCTAAGAGATG+AGG 0.649391 8.1:-25939698 None:intergenic
ACAAAGTATGAAGGATCTAG+CGG 0.659829 8.1:+25941089 MS.gene44503:CDS
GTGGAGGTTATGTCGACGGA+GGG 0.661408 8.1:+25941165 MS.gene44503:CDS
GGGAAGGTATTTGAACGACA+GGG 0.664911 8.1:+25940816 MS.gene44503:intron
GTCATACTTTATGACAACAT+GGG 0.668133 8.1:+25939722 MS.gene44503:CDS
CATCTAAGAGATGAGGTACG+AGG 0.688542 8.1:-25939691 None:intergenic
TGTTGGTAGCGAGTCCATCG+TGG 0.709388 8.1:+25941146 MS.gene44503:CDS
ACGTCCGGCGAGCTTAACTG+CGG 0.714820 8.1:-25941195 None:intergenic
TGGTAGCGAGTCCATCGTGG+AGG 0.724029 8.1:+25941149 MS.gene44503:CDS
CGTCGACATAACCTCCACGA+TGG 0.726009 8.1:-25941160 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTAGTCCAATATTTA+TGG - chr8.1:25940141-25940160 None:intergenic 15.0%
!! ATTATTAATGATGTAAATGA+TGG + chr8.1:25940784-25940803 MS.gene44503:intron 15.0%
!! TAATGTATCAATAGTTAATA+AGG + chr8.1:25940556-25940575 MS.gene44503:intron 15.0%
!! TTATTAATGATGTAAATGAT+GGG + chr8.1:25940785-25940804 MS.gene44503:intron 15.0%
!!! TAAATATCATATATTTTGAG+TGG + chr8.1:25940369-25940388 MS.gene44503:intron 15.0%
!!! TTTTGATCATTATATTATGT+AGG + chr8.1:25940431-25940450 MS.gene44503:intron 15.0%
!! ATTATATTATGTAGGCATAT+TGG + chr8.1:25940439-25940458 MS.gene44503:intron 20.0%
!! GATAAAAATTATCTCTTGAA+AGG - chr8.1:25940285-25940304 None:intergenic 20.0%
!! GATCAAAATAAAAACTACAT+AGG - chr8.1:25940419-25940438 None:intergenic 20.0%
!! GATTAATCATTGTACAATAA+TGG + chr8.1:25940033-25940052 MS.gene44503:intron 20.0%
!! TATTAATGATGTAAATGATG+GGG + chr8.1:25940786-25940805 MS.gene44503:intron 20.0%
!!! ATAATTTTGTTGAATAGATC+AGG - chr8.1:25939914-25939933 None:intergenic 20.0%
!!! TATTGCATCCTTTTTTTTAA+AGG - chr8.1:25940587-25940606 None:intergenic 20.0%
!!! TTTTTTCTTTCTTTCATCTT+TGG + chr8.1:25940619-25940638 MS.gene44503:intron 20.0%
!!! TTTTTTGTCTCCATAAATAT+TGG + chr8.1:25940128-25940147 MS.gene44503:intron 20.0%
! ATTAATGATGTAAATGATGG+GGG + chr8.1:25940787-25940806 MS.gene44503:intron 25.0%
!! TCAACAAAGTCTTATATTTG+AGG - chr8.1:25940231-25940250 None:intergenic 25.0%
!!! TTTAATTTGACCATATACCT+TGG - chr8.1:25939953-25939972 None:intergenic 25.0%
AAATTGTTTGTAACACGCTT+AGG - chr8.1:25941014-25941033 None:intergenic 30.0%
AATTACAAATCATGGTGTTC+TGG + chr8.1:25940898-25940917 MS.gene44503:CDS 30.0%
AATTGTTTGTAACACGCTTA+GGG - chr8.1:25941013-25941032 None:intergenic 30.0%
ATACTTTGTATAATGTGGCA+TGG - chr8.1:25941078-25941097 None:intergenic 30.0%
ATCATAAGCATAACCTTCTA+AGG - chr8.1:25939795-25939814 None:intergenic 30.0%
CATGAGACAAATATTATGCA+TGG + chr8.1:25941044-25941063 MS.gene44503:CDS 30.0%
CCACATTATACAAAGTATGA+AGG + chr8.1:25941080-25941099 MS.gene44503:CDS 30.0%
CCTTCATACTTTGTATAATG+TGG - chr8.1:25941083-25941102 None:intergenic 30.0%
GTCATACTTTATGACAACAT+GGG + chr8.1:25939722-25939741 MS.gene44503:CDS 30.0%
TACTTTGTATAATGTGGCAT+GGG - chr8.1:25941077-25941096 None:intergenic 30.0%
TGGCATCAAATTACAAATCA+TGG + chr8.1:25940890-25940909 MS.gene44503:CDS 30.0%
TGTCATACTTTATGACAACA+TGG + chr8.1:25939721-25939740 MS.gene44503:CDS 30.0%
! AGGATGCACCTTTAAAAAAA+AGG + chr8.1:25940576-25940595 MS.gene44503:intron 30.0%
! GTTGATTCATGTATCTTTGT+TGG + chr8.1:25939842-25939861 MS.gene44503:CDS 30.0%
! TTAATGATGTAAATGATGGG+GGG + chr8.1:25940788-25940807 MS.gene44503:intron 30.0%
ACAAAGTATGAAGGATCTAG+CGG + chr8.1:25941089-25941108 MS.gene44503:CDS 35.0%
ACACATTCGTCATGATATTG+CGG + chr8.1:25941239-25941258 MS.gene44503:CDS 35.0%
AGGATTTGAGCAAGAAGATT+TGG + chr8.1:25940849-25940868 MS.gene44503:CDS 35.0%
CGCTCAAAATCAAAGTAATC+TGG - chr8.1:25939764-25939783 None:intergenic 35.0%
! TTTTGATATCAGCTTCTCCA+AGG + chr8.1:25939933-25939952 MS.gene44503:CDS 35.0%
!! CATTCTGTTTCTGCTATGAT+TGG + chr8.1:25939866-25939885 MS.gene44503:CDS 35.0%
ATCAGCTTCTCCAAGGTATA+TGG + chr8.1:25939940-25939959 MS.gene44503:intron 40.0%
CGAAACTCATCTAAGAGATG+AGG - chr8.1:25939701-25939720 None:intergenic 40.0%
CGAATGTGTTTGAGTATCAC+CGG - chr8.1:25941228-25941247 None:intergenic 40.0%
GAAGTGAGTGTGTGTGTATA+TGG + chr8.1:25940696-25940715 MS.gene44503:intron 40.0%
GAATATCTCCACCAACATGT+TGG + chr8.1:25941129-25941148 MS.gene44503:CDS 40.0%
GAGCGTTATTCAACCTTAGA+AGG + chr8.1:25939779-25939798 MS.gene44503:CDS 40.0%
GGATCAACTATTCGATGCTA+TGG + chr8.1:25940870-25940889 MS.gene44503:CDS 40.0%
TTGGCACAGATCAATCTGTA+TGG + chr8.1:25939663-25939682 MS.gene44503:CDS 40.0%
! AGCTCACAACGTGAAAGTTT+TGG + chr8.1:25939604-25939623 MS.gene44503:CDS 40.0%
! ATGTAAATGATGGGGGGATT+TGG + chr8.1:25940794-25940813 MS.gene44503:intron 40.0%
! GCTCACAACGTGAAAGTTTT+GGG + chr8.1:25939605-25939624 MS.gene44503:CDS 40.0%
! TGTAAATGATGGGGGGATTT+GGG + chr8.1:25940795-25940814 MS.gene44503:intron 40.0%
!!! AACGTGAAAGTTTTGGGTTC+AGG + chr8.1:25939611-25939630 MS.gene44503:CDS 40.0%
!!! ACGTGAAAGTTTTGGGTTCA+GGG + chr8.1:25939612-25939631 MS.gene44503:CDS 40.0%
ATCACCGGAATAACAACGTC+CGG - chr8.1:25941213-25941232 None:intergenic 45.0%
CATCTAAGAGATGAGGTACG+AGG - chr8.1:25939694-25939713 None:intergenic 45.0%
CTTTATGACAACATGGGAGC+TGG + chr8.1:25939728-25939747 MS.gene44503:CDS 45.0%
TATGAAGGATCTAGCGGTTC+CGG + chr8.1:25941095-25941114 MS.gene44503:CDS 45.0%
TTGAACGACAGGGACTACTT+TGG + chr8.1:25940826-25940845 MS.gene44503:CDS 45.0%
! GTAAATGATGGGGGGATTTG+GGG + chr8.1:25940796-25940815 MS.gene44503:intron 45.0%
! GTGTTCTGGATTTGCTCCAA+TGG + chr8.1:25940912-25940931 MS.gene44503:CDS 45.0%
!! ATAGTTCTAGCTCACGGGTT+TGG + chr8.1:25939644-25939663 MS.gene44503:CDS 45.0%
!! CGGTTCATAGTTCTAGCTCA+CGG + chr8.1:25939638-25939657 MS.gene44503:CDS 45.0%
!! GGGAAGGTATTTGAACGACA+GGG + chr8.1:25940816-25940835 MS.gene44503:intron 45.0%
!! GGTTCATAGTTCTAGCTCAC+GGG + chr8.1:25939639-25939658 MS.gene44503:CDS 45.0%
!!! AAGTTTTGGGTTCAGGGTCA+CGG + chr8.1:25939618-25939637 MS.gene44503:CDS 45.0%
!!! AAATATTAATTTTATTCTTA+AGG + chr8.1:25940503-25940522 MS.gene44503:intron 5.0%
!!! TAAATTATAATATTGATTTT+AGG + chr8.1:25940166-25940185 MS.gene44503:intron 5.0%
AACACGCTTAGGGCTATGTC+TGG - chr8.1:25941003-25941022 None:intergenic 50.0%
AACGACAGGGACTACTTTGG+AGG + chr8.1:25940829-25940848 MS.gene44503:CDS 50.0%
ACTCGCTACCAACATGTTGG+TGG - chr8.1:25941140-25941159 None:intergenic 50.0%
CATCGTGGAGGTTATGTCGA+CGG + chr8.1:25941161-25941180 MS.gene44503:CDS 50.0%
TGGACTCGCTACCAACATGT+TGG - chr8.1:25941143-25941162 None:intergenic 50.0%
TTGCTCCAATGGCAGTTGGA+GGG + chr8.1:25940923-25940942 MS.gene44503:CDS 50.0%
TTTGCTCCAATGGCAGTTGG+AGG + chr8.1:25940922-25940941 MS.gene44503:CDS 50.0%
! GGATTTGCTCCAATGGCAGT+TGG + chr8.1:25940919-25940938 MS.gene44503:CDS 50.0%
!! GGGGAAGGTATTTGAACGAC+AGG + chr8.1:25940815-25940834 MS.gene44503:intron 50.0%
AATGGCAGTTGGAGGGGACA+TGG + chr8.1:25940930-25940949 MS.gene44503:CDS 55.0%
AGATATTCCGCGACCACGAC+CGG - chr8.1:25941117-25941136 None:intergenic 55.0%
ATGTCCCCTCCAACTGCCAT+TGG - chr8.1:25940931-25940950 None:intergenic 55.0%
CGTCGACATAACCTCCACGA+TGG - chr8.1:25941163-25941182 None:intergenic 55.0%
GTGGAGGTTATGTCGACGGA+GGG + chr8.1:25941165-25941184 MS.gene44503:CDS 55.0%
TGCTCCAATGGCAGTTGGAG+GGG + chr8.1:25940924-25940943 MS.gene44503:CDS 55.0%
TTTGCCGCAGTTAAGCTCGC+CGG + chr8.1:25941191-25941210 MS.gene44503:CDS 55.0%
! ATGATGGGGGGATTTGGGGA+AGG + chr8.1:25940800-25940819 MS.gene44503:intron 55.0%
! CTCGCCGGACGTTGTTATTC+CGG + chr8.1:25941206-25941225 MS.gene44503:CDS 55.0%
!! TGTTGGTAGCGAGTCCATCG+TGG + chr8.1:25941146-25941165 MS.gene44503:CDS 55.0%
ACGTCCGGCGAGCTTAACTG+CGG - chr8.1:25941198-25941217 None:intergenic 60.0%
CGTGGAGGTTATGTCGACGG+AGG + chr8.1:25941164-25941183 MS.gene44503:CDS 60.0%
! TGGTAGCGAGTCCATCGTGG+AGG + chr8.1:25941149-25941168 MS.gene44503:CDS 60.0%
GGATCTAGCGGTTCCGGTCG+TGG + chr8.1:25941101-25941120 MS.gene44503:CDS 65.0%
AGCGGTTCCGGTCGTGGTCG+CGG + chr8.1:25941107-25941126 MS.gene44503:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 25939587 25941266 25939587 ID=MS.gene44503
chr8.1 mRNA 25939587 25941266 25939587 ID=MS.gene44503.t1;Parent=MS.gene44503
chr8.1 exon 25939587 25939954 25939587 ID=MS.gene44503.t1.exon1;Parent=MS.gene44503.t1
chr8.1 CDS 25939587 25939954 25939587 ID=cds.MS.gene44503.t1;Parent=MS.gene44503.t1
chr8.1 exon 25940822 25941266 25940822 ID=MS.gene44503.t1.exon2;Parent=MS.gene44503.t1
chr8.1 CDS 25940822 25941266 25940822 ID=cds.MS.gene44503.t1;Parent=MS.gene44503.t1
Gene Sequence

>MS.gene44503

ATGGGGATAGTAGAAGAAGCTCACAACGTGAAAGTTTTGGGTTCAGGGTCACGGTTCATAGTTCTAGCTCACGGGTTTGGCACAGATCAATCTGTATGGAAACACCTCGTACCTCATCTCTTAGATGAGTTTCGTGTCATACTTTATGACAACATGGGAGCTGGTACAACTAATCCAGATTACTTTGATTTTGAGCGTTATTCAACCTTAGAAGGTTATGCTTATGATTTACTTGCAATCTTAGAAGAACTTCGAGTTGATTCATGTATCTTTGTTGGTCATTCTGTTTCTGCTATGATTGGAACTGTTGCATCAATTTCTCGACCTGATCTATTCAACAAAATTATTTTGATATCAGCTTCTCCAAGGTATATGGTCAAATTAAATTTGTCTTTGATGTTTTTTGAAGTTTTTTTGTTGACAAACTTTGATGATTTCAAGTTAGAGATTAATCATTGTACAATAATGGTTAGTTTGACTTTTGTTATTCAGTGCTTCTCTATTTCAAGACACAATCAATTTTTTTATTTAAAGCATAGTTTTTTTTGTCTCCATAAATATTGGACTAATTTTTAATGTTAAATTATAATATTGATTTTAGGCATTGAAATAGAATATATTTTTTTAATAAGCATCGTGTTCCTCAAATATAAGACTTTGTTGATGAAAAGAGAGAAAACTGTTTTTCAAATTTACCTTTCAAGAGATAATTTTTATCATAATAATTTTCAATGATACTTACAAGAAAAATGTGTAAAACAATTAATACAATTAAAAATTTGTAAATATCATATATTTTGAGTGGACATATAGAAATACTGTTTTTTAACCTATGTAGTTTTTATTTTGATCATTATATTATGTAGGCATATTGGCTTTTTAATGTTGACAATATTAATTTTAATCTTTTTTGACAAAATATTAATTTTATTCTTAAGGATCACATTTTTCAAAATAATAATCATTTCTTAATGTATCAATAGTTAATAAGGATGCACCTTTAAAAAAAAGGATGCAATAGTAGAATCACATTTTTTTCTTTCTTTCATCTTTGGTATTTTCTTAATTTGTATGAAATAATCAAATGTCATACTTATTGTGCGACAGATGAAGTGAGTGTGTGTGTATATGGATATTTTTATTACTTATTTGATAATTTATTTATATGTATACAATTACATAAGAAAATAGCAATGAATTATTAATGATGTAAATGATGGGGGGATTTGGGGAAGGTATTTGAACGACAGGGACTACTTTGGAGGATTTGAGCAAGAAGATTTGGATCAACTATTCGATGCTATGGCATCAAATTACAAATCATGGTGTTCTGGATTTGCTCCAATGGCAGTTGGAGGGGACATGGAGTCAGTAGCAGTACAAGAATTCAGTCGAACTTTGTTCAACATGAGACCAGACATAGCCCTAAGCGTGTTACAAACAATTTTTAAAAGTGACATGAGACAAATATTATGCATGGTCACTGTCCCATGCCACATTATACAAAGTATGAAGGATCTAGCGGTTCCGGTCGTGGTCGCGGAATATCTCCACCAACATGTTGGTAGCGAGTCCATCGTGGAGGTTATGTCGACGGAGGGTCATTTGCCGCAGTTAAGCTCGCCGGACGTTGTTATTCCGGTGATACTCAAACACATTCGTCATGATATTGCGGCTTGA

Protein sequence

>MS.gene44503.t1

MGIVEEAHNVKVLGSGSRFIVLAHGFGTDQSVWKHLVPHLLDEFRVILYDNMGAGTTNPDYFDFERYSTLEGYAYDLLAILEELRVDSCIFVGHSVSAMIGTVASISRPDLFNKIILISASPRYLNDRDYFGGFEQEDLDQLFDAMASNYKSWCSGFAPMAVGGDMESVAVQEFSRTLFNMRPDIALSVLQTIFKSDMRQILCMVTVPCHIIQSMKDLAVPVVVAEYLHQHVGSESIVEVMSTEGHLPQLSSPDVVIPVILKHIRHDIAA