AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene018651


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene018651.t1 MTR_7g098290 98.571 140 2 0 1 140 1 140 3.93e-98 278
MS.gene018651.t1 MTR_1g069585 98.571 140 2 0 1 140 1 140 3.93e-98 278
MS.gene018651.t1 MTR_7g098290 98.400 125 2 0 16 140 1 125 8.58e-87 249
MS.gene018651.t1 MTR_1g026090 81.481 135 10 1 2 136 42 161 3.07e-71 212
MS.gene018651.t1 MTR_5g054560 68.800 125 15 1 16 140 1 101 1.78e-53 164
MS.gene018651.t1 MTR_5g464620 89.796 49 5 0 14 62 16 64 3.73e-25 91.7
MS.gene018651.t1 MTR_2g070580 92.683 41 3 0 100 140 87 127 2.62e-21 83.2
MS.gene018651.t1 MTR_1779s0020 36.522 115 65 3 26 136 8 118 3.65e-16 70.1
MS.gene018651.t1 MTR_4g051390 36.522 115 65 3 26 136 8 118 4.98e-16 69.7
MS.gene018651.t1 MTR_2g087550 36.792 106 60 2 26 128 8 109 1.55e-14 67.8
MS.gene018651.t1 MTR_0002s0780 34.426 122 73 3 23 140 132 250 1.92e-14 68.2
MS.gene018651.t1 MTR_4g017930 80.556 36 5 1 104 139 13 46 1.09e-11 58.5
MS.gene018651.t1 MTR_4g066540 72.500 40 7 1 100 139 54 89 7.28e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene018651.t1 AT3G04400 98.571 140 2 0 1 140 1 140 1.65e-98 279
MS.gene018651.t1 AT2G33370 98.571 140 2 0 1 140 1 140 1.65e-98 279
MS.gene018651.t1 AT1G04480 98.571 140 2 0 1 140 1 140 1.65e-98 279
MS.gene018651.t1 AT3G04400 100.000 125 0 0 16 140 1 125 4.64e-88 252
MS.gene018651.t1 AT2G33370 100.000 125 0 0 16 140 1 125 4.64e-88 252
MS.gene018651.t1 ATCG00780 34.783 115 67 3 26 136 8 118 4.97e-15 67.0

Find 51 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTACCTTTCATTTCTCCTT+TGG 0.232028 7.1:-10333963 None:intergenic
TTACCTTTCATTTCTCCTTT+GGG 0.290146 7.1:-10333962 None:intergenic
ATTCTTAGCTCCGGTGTTAT+CGG 0.357276 7.1:-10333613 None:intergenic
ACATGAAAACACCGTCCTTT+CGG 0.371684 7.1:-10333794 None:intergenic
GATCCGCGGGTAACAAGTTC+AGG 0.386005 7.1:+10333550 MS.gene018651:CDS
GGAAGGAGTGTGCTGATCTA+TGG 0.394494 7.1:+10334389 MS.gene018651:CDS
CCTTCCTTTGATACCTTTGA+CGG 0.396996 7.1:-10333649 None:intergenic
AGCACCTTCTTACGGAGATC+AGG 0.422915 7.1:-10333735 None:intergenic
TTCTGCTTGCGTTGGTGACA+TGG 0.443666 7.1:+10333686 MS.gene018651:CDS
CAATTCACCGTCGCCGCCAC+TGG 0.459295 7.1:-10333588 None:intergenic
TTAGCAGCACTTGCAATCCT+AGG 0.471348 7.1:-10334412 None:intergenic
CTCTACATCATTTCCGTCAA+AGG 0.478393 7.1:+10333636 MS.gene018651:CDS
GGTGATGGCCACCGTGAAGA+AGG 0.480460 7.1:+10333707 MS.gene018651:CDS
CGTTTGCCTTCTGCTTGCGT+TGG 0.482632 7.1:+10333678 MS.gene018651:CDS
TCTGCTATCACTGGTCCAAT+CGG 0.485775 7.1:+10334367 MS.gene018651:CDS
TAACAAGTTCAGGATGTCAC+TGG 0.500497 7.1:+10333560 MS.gene018651:CDS
CGGCAGGAAGCACCTTCTTA+CGG 0.502055 7.1:-10333743 None:intergenic
ATCAGGCTTACCCTTCTTCA+CGG 0.504036 7.1:-10333718 None:intergenic
CTCAGGTCGCGGAGGATCCG+CGG 0.504873 7.1:+10333536 MS.gene018651:intron
CTGCTATCACTGGTCCAATC+GGG 0.511052 7.1:+10334368 MS.gene018651:CDS
TTGTATTGTGCAGACAATGC+TGG 0.531818 7.1:+10333926 MS.gene018651:intron
ATTGTAGGGTCTGCTATCAC+TGG 0.534637 7.1:+10334358 MS.gene018651:intron
CAACGCAAGCAGAAGGCAAA+CGG 0.538758 7.1:-10333677 None:intergenic
TCAGCACACTCCTTCCCGAT+TGG 0.539409 7.1:-10334382 None:intergenic
CGCTGGCGAACGATGACGGC+AGG 0.540043 7.1:-10333759 None:intergenic
ACACCGTCCTTTCGGCGCCA+TGG 0.550488 7.1:-10333786 None:intergenic
CCGTCAAAGGTATCAAAGGA+AGG 0.551618 7.1:+10333649 MS.gene018651:CDS
TCAGGTCGCGGAGGATCCGC+GGG 0.560803 7.1:+10333537 MS.gene018651:intron
AGTGTGCTGATCTATGGCCT+AGG 0.561029 7.1:+10334395 MS.gene018651:CDS
TTCGGCGCCATGGTTTACGC+TGG 0.563205 7.1:-10333776 None:intergenic
GGTGTTATTGTTAATCCCAA+AGG 0.565013 7.1:+10333947 MS.gene018651:CDS
TAAGCCTGATCTCCGTAAGA+AGG 0.569085 7.1:+10333731 MS.gene018651:CDS
ATTTCCGTCAAAGGTATCAA+AGG 0.575410 7.1:+10333645 MS.gene018651:CDS
GGGTCTACCAGTGGCGGCGA+CGG 0.576990 7.1:+10333581 MS.gene018651:CDS
GTGATGGCCACCGTGAAGAA+GGG 0.579374 7.1:+10333708 MS.gene018651:CDS
TTGCGTTGGTGACATGGTGA+TGG 0.588839 7.1:+10333692 MS.gene018651:CDS
GATGTAGAGATTCTTAGCTC+CGG 0.596136 7.1:-10333622 None:intergenic
TTTACGCTGGCGAACGATGA+CGG 0.598744 7.1:-10333763 None:intergenic
AAACCATGGCGCCGAAAGGA+CGG 0.604162 7.1:+10333783 MS.gene018651:CDS
GCGTAAACCATGGCGCCGAA+AGG 0.604166 7.1:+10333779 MS.gene018651:CDS
AACAAGTTCAGGATGTCACT+GGG 0.607031 7.1:+10333561 MS.gene018651:CDS
ATGTCACCAACGCAAGCAGA+AGG 0.609870 7.1:-10333684 None:intergenic
GTCACTGGGTCTACCAGTGG+CGG 0.621290 7.1:+10333575 MS.gene018651:CDS
GTGAATTGCGCCGATAACAC+CGG 0.624326 7.1:+10333603 MS.gene018651:CDS
AATCCCAAAGGAGAAATGAA+AGG 0.624552 7.1:+10333959 MS.gene018651:CDS
TCGTTCGCCAGCGTAAACCA+TGG 0.647146 7.1:+10333769 MS.gene018651:CDS
GCAGCAGCAATGTCGAAGAG+AGG 0.651240 7.1:+10333423 None:intergenic
GATGTCACTGGGTCTACCAG+TGG 0.653286 7.1:+10333572 MS.gene018651:CDS
TATCACTGGTCCAATCGGGA+AGG 0.675150 7.1:+10334372 MS.gene018651:CDS
CATCCTGAACTTGTTACCCG+CGG 0.683379 7.1:-10333553 None:intergenic
AGGCTTACCCTTCTTCACGG+TGG 0.718796 7.1:-10333715 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATAATCAGTATTAAAAT+TGG + chr7.1:10334236-10334255 MS.gene018651:intron 10.0%
!! TAATCAGTATTAAAATTGGT+TGG + chr7.1:10334240-10334259 MS.gene018651:intron 20.0%
!! TGATTCTTACTTAATATTTC+TGG + chr7.1:10333902-10333921 MS.gene018651:intron 20.0%
! TGGGTAATATATGTAATGAT+TGG + chr7.1:10334054-10334073 MS.gene018651:intron 25.0%
!! AATGATTGGTGTTTAATAAG+TGG + chr7.1:10334068-10334087 MS.gene018651:intron 25.0%
!! ATTTTCATCTTCAGATTCTT+AGG + chr7.1:10333455-10333474 MS.gene018651:intron 25.0%
ATTAAAATTGGTTGGAGGAT+CGG + chr7.1:10334248-10334267 MS.gene018651:intron 30.0%
CACAACATCAAAACCAAAAA+CGG - chr7.1:10334300-10334319 None:intergenic 30.0%
TCAGTATTAAAATTGGTTGG+AGG + chr7.1:10334243-10334262 MS.gene018651:intron 30.0%
TTACCTTTCATTTCTCCTTT+GGG - chr7.1:10333965-10333984 None:intergenic 30.0%
TTTACCTTTCATTTCTCCTT+TGG - chr7.1:10333966-10333985 None:intergenic 30.0%
! TTATTAAAACGCGCTTTTGT+AGG - chr7.1:10333498-10333517 None:intergenic 30.0%
!! CGATTTTCATTTTGTTTCTC+AGG + chr7.1:10333519-10333538 MS.gene018651:intron 30.0%
!! TATGTTTTTATCGCCGTTTT+TGG + chr7.1:10334284-10334303 MS.gene018651:intron 30.0%
!! TCGTGTTGATTGTAATTGTA+GGG + chr7.1:10334344-10334363 MS.gene018651:intron 30.0%
!! TTCGTGTTGATTGTAATTGT+AGG + chr7.1:10334343-10334362 MS.gene018651:intron 30.0%
AATCCCAAAGGAGAAATGAA+AGG + chr7.1:10333959-10333978 MS.gene018651:CDS 35.0%
ACTGCTGTGTCTTCAATAAT+TGG + chr7.1:10334150-10334169 MS.gene018651:intron 35.0%
ATGATAATATCGACGTAGGT+GGG + chr7.1:10334035-10334054 MS.gene018651:intron 35.0%
TTAAAATTGGTTGGAGGATC+GGG + chr7.1:10334249-10334268 MS.gene018651:intron 35.0%
!! ATTTCCGTCAAAGGTATCAA+AGG + chr7.1:10333645-10333664 MS.gene018651:CDS 35.0%
!! GGTGTTATTGTTAATCCCAA+AGG + chr7.1:10333947-10333966 MS.gene018651:CDS 35.0%
!! GGTTTTGATGTTGTGCTTTT+AGG + chr7.1:10334305-10334324 MS.gene018651:intron 35.0%
AACAAGTTCAGGATGTCACT+GGG + chr7.1:10333561-10333580 MS.gene018651:CDS 40.0%
ACATGAAAACACCGTCCTTT+CGG - chr7.1:10333797-10333816 None:intergenic 40.0%
CACGATGATAATATCGACGT+AGG + chr7.1:10334031-10334050 MS.gene018651:intron 40.0%
CCTTCCTTTGATACCTTTGA+CGG - chr7.1:10333652-10333671 None:intergenic 40.0%
CTACGTCGATATTATCATCG+TGG - chr7.1:10334033-10334052 None:intergenic 40.0%
CTCTACATCATTTCCGTCAA+AGG + chr7.1:10333636-10333655 MS.gene018651:CDS 40.0%
GATGATAATATCGACGTAGG+TGG + chr7.1:10334034-10334053 MS.gene018651:intron 40.0%
GATGTAGAGATTCTTAGCTC+CGG - chr7.1:10333625-10333644 None:intergenic 40.0%
TAACAAGTTCAGGATGTCAC+TGG + chr7.1:10333560-10333579 MS.gene018651:CDS 40.0%
TTGTATTGTGCAGACAATGC+TGG + chr7.1:10333926-10333945 MS.gene018651:intron 40.0%
! GGTGTTTTCATGTACTTCGA+AGG + chr7.1:10333804-10333823 MS.gene018651:CDS 40.0%
!! ATTCTTAGCTCCGGTGTTAT+CGG - chr7.1:10333616-10333635 None:intergenic 40.0%
!! TCATTTTGTTTCTCAGGTCG+CGG + chr7.1:10333525-10333544 MS.gene018651:intron 40.0%
ATCAGGCTTACCCTTCTTCA+CGG - chr7.1:10333721-10333740 None:intergenic 45.0%
ATTGTAGGGTCTGCTATCAC+TGG + chr7.1:10334358-10334377 MS.gene018651:intron 45.0%
TAAGCCTGATCTCCGTAAGA+AGG + chr7.1:10333731-10333750 MS.gene018651:CDS 45.0%
TCTGCTATCACTGGTCCAAT+CGG + chr7.1:10334367-10334386 MS.gene018651:CDS 45.0%
TTAGCAGCACTTGCAATCCT+AGG - chr7.1:10334415-10334434 None:intergenic 45.0%
!! CCGTCAAAGGTATCAAAGGA+AGG + chr7.1:10333649-10333668 MS.gene018651:CDS 45.0%
AGCACCTTCTTACGGAGATC+AGG - chr7.1:10333738-10333757 None:intergenic 50.0%
ATGTCACCAACGCAAGCAGA+AGG - chr7.1:10333687-10333706 None:intergenic 50.0%
CAACGCAAGCAGAAGGCAAA+CGG - chr7.1:10333680-10333699 None:intergenic 50.0%
CTGCTATCACTGGTCCAATC+GGG + chr7.1:10334368-10334387 MS.gene018651:CDS 50.0%
TATCACTGGTCCAATCGGGA+AGG + chr7.1:10334372-10334391 MS.gene018651:CDS 50.0%
TTTACGCTGGCGAACGATGA+CGG - chr7.1:10333766-10333785 None:intergenic 50.0%
! AGTGTGCTGATCTATGGCCT+AGG + chr7.1:10334395-10334414 MS.gene018651:CDS 50.0%
! GGAAGGAGTGTGCTGATCTA+TGG + chr7.1:10334389-10334408 MS.gene018651:CDS 50.0%
! GTGAATTGCGCCGATAACAC+CGG + chr7.1:10333603-10333622 MS.gene018651:CDS 50.0%
!! CATCCTGAACTTGTTACCCG+CGG - chr7.1:10333556-10333575 None:intergenic 50.0%
!! TTCTGCTTGCGTTGGTGACA+TGG + chr7.1:10333686-10333705 MS.gene018651:CDS 50.0%
!! TTGCGTTGGTGACATGGTGA+TGG + chr7.1:10333692-10333711 MS.gene018651:CDS 50.0%
!! TTTTGTTTCTCAGGTCGCGG+AGG + chr7.1:10333528-10333547 MS.gene018651:intron 50.0%
AGGCTTACCCTTCTTCACGG+TGG - chr7.1:10333718-10333737 None:intergenic 55.0%
CGTTTGCCTTCTGCTTGCGT+TGG + chr7.1:10333678-10333697 MS.gene018651:CDS 55.0%
GATCCGCGGGTAACAAGTTC+AGG + chr7.1:10333550-10333569 MS.gene018651:CDS 55.0%
GATGTCACTGGGTCTACCAG+TGG + chr7.1:10333572-10333591 MS.gene018651:CDS 55.0%
GTGATGGCCACCGTGAAGAA+GGG + chr7.1:10333708-10333727 MS.gene018651:CDS 55.0%
TCAGCACACTCCTTCCCGAT+TGG - chr7.1:10334385-10334404 None:intergenic 55.0%
TCGTTCGCCAGCGTAAACCA+TGG + chr7.1:10333769-10333788 MS.gene018651:CDS 55.0%
! AAACCATGGCGCCGAAAGGA+CGG + chr7.1:10333783-10333802 MS.gene018651:CDS 55.0%
!! CGGCAGGAAGCACCTTCTTA+CGG - chr7.1:10333746-10333765 None:intergenic 55.0%
GTCACTGGGTCTACCAGTGG+CGG + chr7.1:10333575-10333594 MS.gene018651:CDS 60.0%
TTCGGCGCCATGGTTTACGC+TGG - chr7.1:10333779-10333798 None:intergenic 60.0%
! GCGTAAACCATGGCGCCGAA+AGG + chr7.1:10333779-10333798 MS.gene018651:CDS 60.0%
! GGTGATGGCCACCGTGAAGA+AGG + chr7.1:10333707-10333726 MS.gene018651:CDS 60.0%
ACACCGTCCTTTCGGCGCCA+TGG - chr7.1:10333789-10333808 None:intergenic 65.0%
CAATTCACCGTCGCCGCCAC+TGG - chr7.1:10333591-10333610 None:intergenic 65.0%
CTCAGGTCGCGGAGGATCCG+CGG + chr7.1:10333536-10333555 MS.gene018651:intron 70.0%
GGGTCTACCAGTGGCGGCGA+CGG + chr7.1:10333581-10333600 MS.gene018651:CDS 70.0%
TCAGGTCGCGGAGGATCCGC+GGG + chr7.1:10333537-10333556 MS.gene018651:intron 70.0%
! CGCTGGCGAACGATGACGGC+AGG - chr7.1:10333762-10333781 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 10333432 10334447 10333432 ID=MS.gene018651
chr7.1 mRNA 10333432 10334447 10333432 ID=MS.gene018651.t1;Parent=MS.gene018651
chr7.1 exon 10333432 10333444 10333432 ID=MS.gene018651.t1.exon1;Parent=MS.gene018651.t1
chr7.1 CDS 10333432 10333444 10333432 ID=cds.MS.gene018651.t1;Parent=MS.gene018651.t1
chr7.1 exon 10333541 10333825 10333541 ID=MS.gene018651.t1.exon2;Parent=MS.gene018651.t1
chr7.1 CDS 10333541 10333825 10333541 ID=cds.MS.gene018651.t1;Parent=MS.gene018651.t1
chr7.1 exon 10333939 10333980 10333939 ID=MS.gene018651.t1.exon3;Parent=MS.gene018651.t1
chr7.1 CDS 10333939 10333980 10333939 ID=cds.MS.gene018651.t1;Parent=MS.gene018651.t1
chr7.1 exon 10334365 10334447 10334365 ID=MS.gene018651.t1.exon4;Parent=MS.gene018651.t1
chr7.1 CDS 10334365 10334447 10334365 ID=cds.MS.gene018651.t1;Parent=MS.gene018651.t1
Gene Sequence

>MS.gene018651

ATGTCGAAGAGAGGTTCGTTCTCATTTTCATCTTCAGATTCTTAGGTCAATTAATCACTTTTACCTACAAAAGCGCGTTTTAATAATCGATTTTCATTTTGTTTCTCAGGTCGCGGAGGATCCGCGGGTAACAAGTTCAGGATGTCACTGGGTCTACCAGTGGCGGCGACGGTGAATTGCGCCGATAACACCGGAGCTAAGAATCTCTACATCATTTCCGTCAAAGGTATCAAAGGAAGGTTGAACCGTTTGCCTTCTGCTTGCGTTGGTGACATGGTGATGGCCACCGTGAAGAAGGGTAAGCCTGATCTCCGTAAGAAGGTGCTTCCTGCCGTCATCGTTCGCCAGCGTAAACCATGGCGCCGAAAGGACGGTGTTTTCATGTACTTCGAAGGTATATTCACATTCTTCATTTTTTTTTTGTTTCAAAATTGAGATTAATCTTAATTTGATGTATATGTTAGTGTGAATGATTCTTACTTAATATTTCTGGTTTGTATTGTGCAGACAATGCTGGTGTTATTGTTAATCCCAAAGGAGAAATGAAAGGTAAAAATTCTATATATCTCTTATTAGTTTTGATTCTATATTATTAAATCCACGATGATAATATCGACGTAGGTGGGTAATATATGTAATGATTGGTGTTTAATAAGTGGAATTAGAGCTTAGTAGCTTAGTATATTGAAATTAGAGTTAATAGTTTAGAATTAATAACACTGCTGTGTCTTCAATAATTGGAATTAGAGTTTAGTAACTTAGTGTTAAAATTGAAATTAGAGTTTAATACTTAATAGTTTAGTATTAATAATCAGTATTAAAATTGGTTGGAGGATCGGGTGAGTGTGTGACTATGTTTTTATCGCCGTTTTTGGTTTTGATGTTGTGCTTTTAGGTTCTTCTCTTGATATTTCGTGTTGATTGTAATTGTAGGGTCTGCTATCACTGGTCCAATCGGGAAGGAGTGTGCTGATCTATGGCCTAGGATTGCAAGTGCTGCTAATGCTATCGTTTAA

Protein sequence

>MS.gene018651.t1

MSKRGRGGSAGNKFRMSLGLPVAATVNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKPDLRKKVLPAVIVRQRKPWRRKDGVFMYFEDNAGVIVNPKGEMKGSAITGPIGKECADLWPRIASAANAIV