AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012043


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012043.t1 MTR_8g076830 100.000 160 0 0 1 160 1 160 1.21e-117 329
MS.gene012043.t1 MTR_4g116410 97.500 160 4 0 1 160 1 160 6.73e-115 322
MS.gene012043.t1 MTR_1g017780 93.168 161 10 1 1 160 1 161 2.44e-99 283
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012043.t1 AT3G48930 91.250 160 14 0 1 160 1 160 6.64e-98 279
MS.gene012043.t1 AT5G23740 90.000 160 15 1 1 160 1 159 4.99e-96 274
MS.gene012043.t1 AT4G30800 90.625 160 14 1 1 160 1 159 4.19e-94 270

Find 0 sgRNAs with CRISPR-Local

Find 121 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTGAAAAATAATATCAA+TGG - 57561:1131-1150 MS.gene012043:intergenic 10.0%
!! ATAAAAAAAAAAACAGAAAT+TGG - 57561:1225-1244 MS.gene012043:intergenic 10.0%
!! TAAAAAAAAAAACAGAAATT+GGG - 57561:1224-1243 MS.gene012043:intergenic 10.0%
!! TAAAAAAAAAATGTAGTCTT+TGG + 57561:1588-1607 MS.gene012043:intron 15.0%
!! TGTTTGTAAATAAATAATAG+TGG + 57561:1921-1940 MS.gene012043:intron 15.0%
!!! AAAGACTACATTTTTTTTTT+AGG - 57561:1589-1608 MS.gene012043:intergenic 15.0%
!! TAAAGCAAAATTGAGTTAAA+TGG + 57561:1642-1661 MS.gene012043:intron 20.0%
!! TAAGTGTGCAAATAAAAAAT+GGG - 57561:2671-2690 MS.gene012043:intergenic 20.0%
!! TATTTATTTACAAACACAAC+AGG - 57561:1917-1936 MS.gene012043:intergenic 20.0%
!! TGTCTGTTTATATGATAAAT+TGG + 57561:1887-1906 MS.gene012043:intron 20.0%
!!! ATTTATGTATGTTTTGATAC+TGG + 57561:1764-1783 MS.gene012043:intron 20.0%
!!! GAAGGTAATGTTTAATTTTA+GGG + 57561:1394-1413 MS.gene012043:intron 20.0%
!!! GGCATTTTTTTTTATAAAAC+AGG + 57561:2474-2493 MS.gene012043:intron 20.0%
!!! TATGTTCTAAACTTACATAT+AGG + 57561:1429-1448 MS.gene012043:intron 20.0%
!!! TGAAGGTAATGTTTAATTTT+AGG + 57561:1393-1412 MS.gene012043:intron 20.0%
! AAACTTACATATAGGAATGT+AGG + 57561:1437-1456 MS.gene012043:intron 25.0%
! AAATTAAACATTACCTTCAG+TGG - 57561:1392-1411 MS.gene012043:intergenic 25.0%
! AACTAAAACAAATACACTCA+AGG - 57561:1481-1500 MS.gene012043:intergenic 25.0%
! AACTTACATATAGGAATGTA+GGG + 57561:1438-1457 MS.gene012043:intron 25.0%
! AAGTGTGCAAATAAAAAATG+GGG - 57561:2670-2689 MS.gene012043:intergenic 25.0%
! AATTTCACTTTCAAAGTAAC+TGG - 57561:2218-2237 MS.gene012043:intergenic 25.0%
! ATTGAATTCCTTTCATACTA+TGG + 57561:2643-2662 MS.gene012043:intron 25.0%
! CTAAGTGTGCAAATAAAAAA+TGG - 57561:2672-2691 MS.gene012043:intergenic 25.0%
! GTTATGGTTATGTTATGTTA+CGG + 57561:2072-2091 MS.gene012043:intron 25.0%
! TTAGATAAGGATAGAAACAT+TGG + 57561:1682-1701 MS.gene012043:intron 25.0%
! TTCTATAGAAAGCAAAAGAA+AGG - 57561:2849-2868 MS.gene012043:intergenic 25.0%
!! GCAATACTTATTCTAGTTAT+TGG + 57561:1965-1984 MS.gene012043:intron 25.0%
!! GTATTGAGACATGTAATTTT+TGG + 57561:2050-2069 MS.gene012043:intron 25.0%
!!! ACTTTATTAAGAAGTATCAG+AGG + 57561:2619-2638 MS.gene012043:CDS 25.0%
!!! AGACATGTAATTTTTGGTTA+TGG + 57561:2056-2075 MS.gene012043:intron 25.0%
!!! ATTTTAGTCCTCAAATGTAT+TGG + 57561:1505-1524 MS.gene012043:intron 25.0%
!!! TTCTGTTTCTAATACAGAAA+TGG + 57561:2453-2472 MS.gene012043:intron 25.0%
ACACTTGCAAGACATAATAT+AGG - 57561:2145-2164 MS.gene012043:intergenic 30.0%
ACAGAGGAGTAACAAAAAAA+GGG - 57561:2712-2731 MS.gene012043:intergenic 30.0%
ACATACCATAGAAACACTTT+GGG - 57561:1189-1208 MS.gene012043:intergenic 30.0%
ATGCAAAGCACAATTAGATA+AGG + 57561:1669-1688 MS.gene012043:intron 30.0%
ATGTTATTATTGGACAATGC+AGG + 57561:2804-2823 MS.gene012043:CDS 30.0%
TACATACCATAGAAACACTT+TGG - 57561:1190-1209 MS.gene012043:intergenic 30.0%
TAGAGTAGTTGCACAAATAA+AGG - 57561:2926-2945 MS.gene012043:intergenic 30.0%
TATAGACCAATTCTTTCAAG+CGG - 57561:2101-2120 MS.gene012043:intergenic 30.0%
TCCTCAAATGTATTGGATTT+GGG + 57561:1512-1531 MS.gene012043:intron 30.0%
TGAATAGGACTATTATTGTC+AGG + 57561:2583-2602 MS.gene012043:CDS 30.0%
TGCATTGTCCAATAATAACA+TGG - 57561:2805-2824 MS.gene012043:intergenic 30.0%
TTTATTTGTGCAACTACTCT+AGG + 57561:2925-2944 MS.gene012043:intron 30.0%
! ATTGTTAATAGCTCTGTGTA+TGG + 57561:2259-2278 MS.gene012043:intron 30.0%
AAGATACAGAGATAGAACGA+AGG - 57561:1100-1119 MS.gene012042:intergenic 35.0%
AGTTCGAAGAAATCTGGTAA+GGG + 57561:1295-1314 MS.gene012043:intron 35.0%
ATAGGACTATTATTGTCAGG+AGG + 57561:2586-2605 MS.gene012043:CDS 35.0%
CCTCAAATGTATTGGATTTG+GGG + 57561:1513-1532 MS.gene012043:intron 35.0%
GAAGGAGACCATGTTATTAT+TGG + 57561:2794-2813 MS.gene012043:CDS 35.0%
GACAGAGGAGTAACAAAAAA+AGG - 57561:2713-2732 MS.gene012043:intergenic 35.0%
GTCCTCAAATGTATTGGATT+TGG + 57561:1511-1530 MS.gene012043:intron 35.0%
TCGTTCTATCTCTGTATCTT+TGG + 57561:1100-1119 MS.gene012043:intron 35.0%
TTCTTTGTTACAGACTGAGA+AGG + 57561:1149-1168 MS.gene012043:intron 35.0%
! AATAGCTCTGTGTATGGTTA+CGG + 57561:2265-2284 MS.gene012043:intron 35.0%
! AATCGTTTCTGGAAATCAGT+TGG + 57561:1340-1359 MS.gene012043:CDS 35.0%
! TATGTCTTGCAAGTGTTGTT+GGG + 57561:2149-2168 MS.gene012043:intron 35.0%
! TGTAGGGATAAACAGCATTT+TGG + 57561:1454-1473 MS.gene012043:intron 35.0%
! TTATGTCTTGCAAGTGTTGT+TGG + 57561:2148-2167 MS.gene012043:intron 35.0%
! TTTTTGTTACTCCTCTGTCT+AGG + 57561:2714-2733 MS.gene012043:intron 35.0%
!!! ACGCTATTTCTTTTGCATAG+TGG + 57561:1721-1740 MS.gene012043:intron 35.0%
AATGGGGACCATAGTATGAA+AGG - 57561:2654-2673 MS.gene012043:intergenic 40.0%
AGATTCCTCTTGGCAATATC+AGG + 57561:1822-1841 MS.gene012043:intron 40.0%
CAATGCAGGTGAGACTTTAT+AGG + 57561:2818-2837 MS.gene012043:intron 40.0%
CAGTTCGAAGAAATCTGGTA+AGG + 57561:1294-1313 MS.gene012043:intron 40.0%
CCCCAAATCCAATACATTTG+AGG - 57561:1516-1535 MS.gene012043:intergenic 40.0%
GAAAAGGTGGAAATCGTTTC+TGG + 57561:1329-1348 MS.gene012043:CDS 40.0%
GTTCGAAGAAATCTGGTAAG+GGG + 57561:1296-1315 MS.gene012043:intron 40.0%
TAATAGAGCCTCACATTCGA+GGG + 57561:1547-1566 MS.gene012043:intron 40.0%
TCCTATTCATCTTAGCACTG+TGG - 57561:2572-2591 MS.gene012043:intergenic 40.0%
TGGACACTTCTTGTCAATGT+AGG - 57561:2502-2521 MS.gene012043:intergenic 40.0%
TGTTGCAGTTCGAAGAAATC+TGG + 57561:1289-1308 MS.gene012043:intron 40.0%
! AAACGATTTCCACCTTTTCC+AGG - 57561:1328-1347 MS.gene012043:intergenic 40.0%
! AGCAACCCAAAGTGTTTCTA+TGG + 57561:1181-1200 MS.gene012043:CDS 40.0%
! TGTTTGTCTGAGATTCCTCT+TGG + 57561:1812-1831 MS.gene012043:intron 40.0%
! TTCTGGAAATCAGTTGGTCT+TGG + 57561:1346-1365 MS.gene012043:CDS 40.0%
AGAAATCTGGTAAGGGGAAG+AGG + 57561:1302-1321 MS.gene012043:CDS 45.0%
ATCACCTTGCTTCCGTGTTA+AGG + 57561:2772-2791 MS.gene012043:CDS 45.0%
ATCTAGTGGTGCAGGAAAGA+AGG + 57561:3001-3020 MS.gene012043:CDS 45.0%
ATGGAAACATTGCCGGTGAA+TGG - 57561:2522-2541 MS.gene012043:intergenic 45.0%
ATTACCTTCAGTGGCTTCTC+TGG - 57561:1383-1402 MS.gene012043:intergenic 45.0%
CATGGTCTCCTTCCTTAACA+CGG - 57561:2787-2806 MS.gene012043:intergenic 45.0%
CGGTATCCGCTTGAAAGAAT+TGG + 57561:2092-2111 MS.gene012043:intron 45.0%
CTCTGTCTAGGTATGAGAAG+AGG + 57561:2726-2745 MS.gene012043:intron 45.0%
CTCTTCTCATACCTAGACAG+AGG - 57561:2728-2747 MS.gene012043:intergenic 45.0%
GCCACAGTGCTAAGATGAAT+AGG + 57561:2568-2587 MS.gene012043:CDS 45.0%
GTAATAGAGCCTCACATTCG+AGG + 57561:1546-1565 MS.gene012043:intron 45.0%
TTACCTTCAGTGGCTTCTCT+GGG - 57561:1382-1401 MS.gene012043:intergenic 45.0%
TTCCTCTTGGCAATATCAGG+TGG + 57561:1825-1844 MS.gene012043:intron 45.0%
! GCAGGAAAGAAGGCTTTTAC+TGG + 57561:3011-3030 MS.gene012043:CDS 45.0%
! TCTTGCAAGTGTTGTTGGGA+AGG + 57561:2153-2172 MS.gene012043:intron 45.0%
!! CTGAGCGTCTAGCTTTGTAT+TGG + 57561:1787-1806 MS.gene012043:intron 45.0%
!! GACAAGAAGTGTCCATTCAC+CGG + 57561:2507-2526 MS.gene012043:CDS 45.0%
AACCTCACAGTCTTGGAGAG+TGG - 57561:2951-2970 MS.gene012042:intergenic 50.0%
AAGCAAGGTGATACGTGAGC+GGG - 57561:2764-2783 MS.gene012042:intergenic 50.0%
AGCCACCTGATATTGCCAAG+AGG - 57561:1830-1849 MS.gene012043:intergenic 50.0%
ATCCCAGCTGGATCATCTAG+TGG + 57561:2987-3006 MS.gene012043:CDS 50.0%
CACCACTAGATGATCCAGCT+GGG - 57561:2992-3011 MS.gene012043:intergenic 50.0%
CACGTTGAACCTCACAGTCT+TGG - 57561:2958-2977 MS.gene012043:intergenic 50.0%
CCTTCCTTAACACGGAAGCA+AGG - 57561:2779-2798 MS.gene012043:intergenic 50.0%
CCTTGCTTCCGTGTTAAGGA+AGG + 57561:2776-2795 MS.gene012043:CDS 50.0%
CTTAGCACTGTGGCAAGTTC+CGG - 57561:2562-2581 MS.gene012043:intergenic 50.0%
GAAGCAAGGTGATACGTGAG+CGG - 57561:2765-2784 MS.gene012043:intergenic 50.0%
GTGTTGAAAGTGATCCCAGC+TGG + 57561:2975-2994 MS.gene012043:CDS 50.0%
GTTATGCTCCCTCGAATGTG+AGG - 57561:1558-1577 MS.gene012043:intergenic 50.0%
TACCTTCAGTGGCTTCTCTG+GGG - 57561:1381-1400 MS.gene012043:intergenic 50.0%
TCACCGGCAATGTTTCCATC+CGG + 57561:2523-2542 MS.gene012043:CDS 50.0%
AAGGGGAAGAGGCCTGGAAA+AGG + 57561:1313-1332 MS.gene012043:CDS 55.0%
ACCCCGGATGGAAACATTGC+CGG - 57561:2529-2548 MS.gene012043:intergenic 55.0%
ACCGGCAATGTTTCCATCCG+GGG + 57561:2525-2544 MS.gene012043:CDS 55.0%
ACCTTCAGTGGCTTCTCTGG+GGG - 57561:1380-1399 MS.gene012043:intergenic 55.0%
ATCCGGGGTCGTATCTTAGC+CGG + 57561:2540-2559 MS.gene012043:CDS 55.0%
CACCGGCAATGTTTCCATCC+GGG + 57561:2524-2543 MS.gene012043:CDS 55.0%
GCACCACTAGATGATCCAGC+TGG - 57561:2993-3012 MS.gene012043:intergenic 55.0%
GCTGGATCATCTAGTGGTGC+AGG + 57561:2993-3012 MS.gene012043:CDS 55.0%
TTCCGGCTAAGATACGACCC+CGG - 57561:2545-2564 MS.gene012043:intergenic 55.0%
ACCCCCAGAGAAGCCACTGA+AGG + 57561:1376-1395 MS.gene012043:CDS 60.0%
GGCCACTCTCCAAGACTGTG+AGG + 57561:2946-2965 MS.gene012043:intron 60.0%
GGCTAAGATACGACCCCGGA+TGG - 57561:2541-2560 MS.gene012043:intergenic 60.0%
GGGAAGAGGCCTGGAAAAGG+TGG + 57561:1316-1335 MS.gene012043:CDS 60.0%
TCTGGTAAGGGGAAGAGGCC+TGG + 57561:1307-1326 MS.gene012043:CDS 60.0%


Chromosome Type Strat End Strand Name
57561 gene 1065 3040 1065 ID=MS.gene012043
57561 mRNA 1065 3040 1065 ID=MS.gene012043.t1;Parent=MS.gene012043
57561 exon 1065 1076 1065 ID=MS.gene012043.t1.exon1;Parent=MS.gene012043.t1
57561 CDS 1065 1076 1065 ID=cds.MS.gene012043.t1;Parent=MS.gene012043.t1
57561 exon 1162 1202 1162 ID=MS.gene012043.t1.exon2;Parent=MS.gene012043.t1
57561 CDS 1162 1202 1162 ID=cds.MS.gene012043.t1;Parent=MS.gene012043.t1
57561 exon 1297 1397 1297 ID=MS.gene012043.t1.exon3;Parent=MS.gene012043.t1
57561 CDS 1297 1397 1297 ID=cds.MS.gene012043.t1;Parent=MS.gene012043.t1
57561 exon 2496 2640 2496 ID=MS.gene012043.t1.exon4;Parent=MS.gene012043.t1
57561 CDS 2496 2640 2496 ID=cds.MS.gene012043.t1;Parent=MS.gene012043.t1
57561 exon 2736 2825 2736 ID=MS.gene012043.t1.exon5;Parent=MS.gene012043.t1
57561 CDS 2736 2825 2736 ID=cds.MS.gene012043.t1;Parent=MS.gene012043.t1
57561 exon 2947 3040 2947 ID=MS.gene012043.t1.exon6;Parent=MS.gene012043.t1
57561 CDS 2947 3040 2947 ID=cds.MS.gene012043.t1;Parent=MS.gene012043.t1
Gene Sequence

>MS.gene012043

ATGGCTGAACAAGTAAGCAACTTCTTCACACTCCTTCGTTCTATCTCTGTATCTTTGGATCTTCCATTGATATTATTTTTCAATTTCTTTGTTACAGACTGAGAAGGCTTTTCTCAAGCAACCCAAAGTGTTTCTATGGTATGTATATTCAATGCTCCCAATTTCTGTTTTTTTTTTTATTGTGATTTTGATGAATGATTGTTGATGCATATTTTGTTCAATGTTGTTGCAGTTCGAAGAAATCTGGTAAGGGGAAGAGGCCTGGAAAAGGTGGAAATCGTTTCTGGAAATCAGTTGGTCTTGGATTCAAGACCCCCAGAGAAGCCACTGAAGGTAATGTTTAATTTTAGGGTGTTTTGCAAATTATGTTCTAAACTTACATATAGGAATGTAGGGATAAACAGCATTTTGGTCCTTGAGTGTATTTGTTTTAGTTAGTCATTTTAGTCCTCAAATGTATTGGATTTGGGGATATGCGTTTGTAATAGAGCCTCACATTCGAGGGAGCATAACAGTTGTTACCTAAAAAAAAAATGTAGTCTTTGGAATGAGACGAGATGACATATGCACTTTTTTTTAAAGCAAAATTGAGTTAAATGGCACTATGCAAAGCACAATTAGATAAGGATAGAAACATTGGAGAAGAATACTATAAGACGCTATTTCTTTTGCATAGTGGATTGCTAGTTACAATCATATATTTATGTATGTTTTGATACTGGCTGAGCGTCTAGCTTTGTATTGGTGTGTTTGTCTGAGATTCCTCTTGGCAATATCAGGTGGCTATGATGTGTTTAAATTCACAATACTTATTCTACTTAGTGTCTGTTTATATGATAAATTGGAGTGCCTGTTGTGTTTGTAAATAAATAATAGTGGTTATGATGTGTTTAAAGATTCGCAATACTTATTCTAGTTATTGGCTGTCATATGATTAATTGAAGTGTCTATTGTGTTCATAGATAAGCTTTTCTAATTCGTATCAGTATTGAGACATGTAATTTTTGGTTATGGTTATGTTATGTTACGGTATCCGCTTGAAAGAATTGGTCTATATAATGTACAAATGTAAATGCTCCTATATTATGTCTTGCAAGTGTTGTTGGGAAGGAAATACTTGTAAATTGCAAACAGTATAATGTTCTCGAGTCCAGTTACTTTGAAAGTGAAATTTTTATCAGCTAGAAGTAGAGCATTGTTAATAGCTCTGTGTATGGTTACGGTGTAAATGCTCCTATATTATGTCTTGCAAGTGTTGTTGGGAAGGAAATACTTGTAAATTGCAAACAGTATAATGTTCTCGAGTCCAGTTACTTTGAAAGTGAAATTTTTATCAGCTAGAAGTAGAGCATTGTTAATAGCTCTGTGTATGGTTACGGTTATTTTATTTCTGTTTCTAATACAGAAATGGCATTTTTTTTTATAAAACAGGAACCTACATTGACAAGAAGTGTCCATTCACCGGCAATGTTTCCATCCGGGGTCGTATCTTAGCCGGAACTTGCCACAGTGCTAAGATGAATAGGACTATTATTGTCAGGAGGAATTATCTTCACTTTATTAAGAAGTATCAGAGGTATTGAATTCCTTTCATACTATGGTCCCCATTTTTTATTTGCACACTTAGAAACATAATTTTTAATTCCCTTTTTTTGTTACTCCTCTGTCTAGGTATGAGAAGAGGCATTCAAACATTCCCGCTCACGTATCACCTTGCTTCCGTGTTAAGGAAGGAGACCATGTTATTATTGGACAATGCAGGTGAGACTTTATAGGAGTATCCTTTCTTTTGCTTTCTATAGAAGATACTGTTATTTTAGTATATTATAGATATTGATATCTATGTCTGTCTAAATTGCCTTTATTTGTGCAACTACTCTAGGCCACTCTCCAAGACTGTGAGGTTCAACGTGTTGAAAGTGATCCCAGCTGGATCATCTAGTGGTGCAGGAAAGAAGGCTTTTACTGGAATGTGA

Protein sequence

>MS.gene012043.t1

MAEQTEKAFLKQPKVFLCSKKSGKGKRPGKGGNRFWKSVGLGFKTPREATEGTYIDKKCPFTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPAHVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAGKKAFTGM