AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene043442


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043442.t1 MTR_2g090295 98.381 247 4 0 1 247 1 247 0.0 509
MS.gene043442.t1 MTR_8g465910 57.647 255 89 7 1 247 1 244 2.29e-100 292
MS.gene043442.t1 MTR_2g013550 41.346 208 100 5 37 232 24 221 6.18e-44 148
MS.gene043442.t1 MTR_2g090330 64.545 110 29 2 37 146 30 129 7.36e-44 145
MS.gene043442.t1 MTR_2g090330 64.545 110 29 2 37 146 27 126 9.20e-44 145
MS.gene043442.t1 MTR_2g090325 61.538 130 33 5 25 150 1 117 2.52e-41 140
MS.gene043442.t1 MTR_4g088875 40.196 204 97 7 38 232 29 216 2.64e-33 120
MS.gene043442.t1 MTR_4g088870 36.134 238 100 10 18 247 6 199 5.59e-32 116
MS.gene043442.t1 MTR_1g021895 52.128 94 33 3 37 128 27 110 9.94e-27 103
MS.gene043442.t1 MTR_5g019300 50.562 89 36 2 40 128 35 115 8.44e-26 101
MS.gene043442.t1 MTR_1g054260 33.803 142 90 4 14 152 60 200 1.06e-22 92.4
MS.gene043442.t1 MTR_7g093390 46.392 97 40 4 32 126 160 246 1.64e-22 95.9
MS.gene043442.t1 MTR_4g029440 38.462 130 65 4 8 129 86 208 1.58e-21 92.8
MS.gene043442.t1 MTR_4g029440 38.462 130 65 4 8 129 92 214 1.69e-21 92.8
MS.gene043442.t1 MTR_1g054280 41.176 102 51 3 27 126 61 155 2.22e-21 90.1
MS.gene043442.t1 MTR_1g054465 34.545 110 70 2 19 126 34 143 4.14e-21 87.8
MS.gene043442.t1 MTR_1g054210 46.667 75 32 2 36 108 116 184 5.65e-19 83.2
MS.gene043442.t1 MTR_2g061230 34.951 103 58 2 29 129 94 189 2.92e-16 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043442.t1 AT4G03510 46.789 218 102 5 35 247 41 249 4.96e-64 200
MS.gene043442.t1 AT4G03510 46.789 218 102 5 35 247 41 249 4.96e-64 200
MS.gene043442.t1 AT4G03510 46.789 218 102 5 35 247 41 249 4.96e-64 200
MS.gene043442.t1 AT4G03510 46.789 218 102 5 35 247 41 249 4.96e-64 200
MS.gene043442.t1 AT4G28270 40.991 222 82 8 34 247 13 193 1.98e-46 153
MS.gene043442.t1 AT4G27470 42.857 203 90 10 40 232 42 228 8.76e-40 138
MS.gene043442.t1 AT1G74990 45.370 108 47 3 32 137 9 106 1.79e-26 100
MS.gene043442.t1 AT2G23780 35.185 216 115 8 40 245 26 226 1.89e-26 102
MS.gene043442.t1 AT2G23780 35.185 216 115 8 40 245 26 226 1.89e-26 102
MS.gene043442.t1 AT2G23780 35.185 216 115 8 40 245 26 226 1.89e-26 102
MS.gene043442.t1 AT1G19310 49.438 89 37 2 40 128 21 101 3.89e-25 99.4
MS.gene043442.t1 AT3G58030 42.308 104 47 3 25 126 120 212 6.85e-23 96.7
MS.gene043442.t1 AT3G58030 42.308 104 47 3 25 126 120 212 6.85e-23 96.7
MS.gene043442.t1 AT3G58030 42.308 104 47 3 25 126 120 212 6.85e-23 96.7
MS.gene043442.t1 AT3G58030 42.308 104 47 3 25 126 120 212 6.85e-23 96.7
MS.gene043442.t1 AT2G42030 43.519 108 45 4 36 138 133 229 2.76e-20 89.4
MS.gene043442.t1 AT2G44410 39.560 91 40 2 40 126 123 202 1.78e-17 81.3

Find 66 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGTAAGATTGTATGAATT+TGG 0.196085 2.2:+8922607 None:intergenic
AAAGGCAATGATCACCAATT+AGG 0.249482 2.2:-8922886 MS.gene043442:CDS
TTTCTTCCAAGGAATCAATT+TGG 0.278134 2.2:+8923184 None:intergenic
CTTTGGAAGGCGGCGTAGTT+TGG 0.290827 2.2:+8922905 None:intergenic
GCAAGTGCTGAAGCAATTTC+AGG 0.293695 2.2:-8923135 MS.gene043442:CDS
ATGATATATGCAAGGATCTT+TGG 0.299279 2.2:-8922658 MS.gene043442:CDS
CCAAATTCATACAATCTTAC+AGG 0.303928 2.2:-8922607 MS.gene043442:CDS
GTTGAGAATGATTCAGATAA+TGG 0.311611 2.2:+8922758 None:intergenic
ATTAAGCCATTTGTAAATAC+AGG 0.324784 2.2:+8923029 None:intergenic
GAGATTTCTGATTTGCATAC+TGG 0.331060 2.2:+8922961 None:intergenic
TATGGAATAGCATTCAAAAT+AGG 0.331156 2.2:+8922485 None:intergenic
CTGTAAGATTGTATGAATTT+GGG 0.342103 2.2:+8922608 None:intergenic
GATACAAGTTATGGTGTCTT+TGG 0.352630 2.2:-8922685 MS.gene043442:CDS
CTAGACCGCTTGGTCCTTCA+TGG 0.359817 2.2:-8922849 MS.gene043442:CDS
TATGAACCAAATTGATTCCT+TGG 0.361311 2.2:-8923190 MS.gene043442:CDS
TTGAGAATGATTCAGATAAT+GGG 0.365252 2.2:+8922759 None:intergenic
AAGGCAATGATCACCAATTA+GGG 0.391729 2.2:-8922885 MS.gene043442:CDS
GTGGTATGACACTCCCTAAT+TGG 0.404265 2.2:+8922872 None:intergenic
TTTGCAGCATCAAGTGATCT+TGG 0.413846 2.2:+8922814 None:intergenic
CATGAAGGACCAAGCGGTCT+AGG 0.421483 2.2:+8922850 None:intergenic
ATGTTTCACAACATAATTCT+CGG 0.424790 2.2:-8922792 MS.gene043442:CDS
ATCAAATGCCTTCTGATCCT+TGG 0.432608 2.2:+8922574 None:intergenic
GATCCAGTGGTCACTCTTTG+TGG 0.447780 2.2:-8923069 MS.gene043442:CDS
TAATTGGTGATCATTGCCTT+TGG 0.448612 2.2:+8922888 None:intergenic
GCTGGCCCTGTATTTACAAA+TGG 0.461498 2.2:-8923035 MS.gene043442:CDS
CTCCTCAAAATACTGATTGA+AGG 0.463468 2.2:+8923215 None:intergenic
AATCCATTGGATACAAGTTA+TGG 0.470449 2.2:-8922694 MS.gene043442:CDS
TTTGTGGTCATCTCTACTGC+TGG 0.480977 2.2:-8923053 MS.gene043442:CDS
ATAACTTGTATCCAATGGAT+TGG 0.488161 2.2:+8922696 None:intergenic
TAACTTGTATCCAATGGATT+GGG 0.491781 2.2:+8922697 None:intergenic
ATGTATATATGTTTGTCACT+TGG 0.494265 2.2:+8922632 None:intergenic
CTTTGACTGCAACATATGCT+TGG 0.503274 2.2:-8923103 MS.gene043442:CDS
GTTTGGCCGCGGCCGTAGAG+TGG 0.505416 2.2:+8922922 None:intergenic
TGGTGATCATTGCCTTTGGA+AGG 0.521075 2.2:+8922892 None:intergenic
TCATCCCTTGTTCCACTCTA+CGG 0.525770 2.2:-8922934 MS.gene043442:CDS
GGCACAAAACTGTGCAGCAA+AGG 0.530934 2.2:+8922512 None:intergenic
AAGGCGGCGTAGTTTGGCCG+CGG 0.530973 2.2:+8922911 None:intergenic
TGGTTCACTTCCCAATCCAT+TGG 0.531511 2.2:-8922707 MS.gene043442:CDS
CGCGGCCGTAGAGTGGAACA+AGG 0.543163 2.2:+8922929 None:intergenic
GAAGCAATTTCAGGTTCTAG+TGG 0.551396 2.2:-8923126 MS.gene043442:CDS
CAAATTCATACAATCTTACA+GGG 0.556632 2.2:-8922606 MS.gene043442:CDS
GTCATACCACCTAGACCGCT+TGG 0.564556 2.2:-8922859 MS.gene043442:CDS
ACAAAACTGTGCAGCAAAGG+AGG 0.566903 2.2:+8922515 None:intergenic
TCACCAATGCTTAACACAAG+TGG 0.571713 2.2:-8922727 MS.gene043442:CDS
CAAACTACGCCGCCTTCCAA+AGG 0.572732 2.2:-8922904 MS.gene043442:CDS
GGTAAGTTCGTCATCCATGA+AGG 0.573904 2.2:+8922835 None:intergenic
ACACCATAACTTGTATCCAA+TGG 0.574386 2.2:+8922691 None:intergenic
TGATCATTGCCTTTGGAAGG+CGG 0.577497 2.2:+8922895 None:intergenic
ATAGCATTCAAAATAGGAGA+AGG 0.585660 2.2:+8922491 None:intergenic
TCAGTAATCCAAGGATCAGA+AGG 0.591994 2.2:-8922582 MS.gene043442:CDS
TGACCACAAAGAGTGACCAC+TGG 0.593140 2.2:+8923066 None:intergenic
GATTTGCATACTGGACATTG+TGG 0.605821 2.2:+8922970 None:intergenic
AAATCAAGAGAAGCAGAAGG+AGG 0.609520 2.2:-8922995 MS.gene043442:CDS
GAACCACTTGTGTTAAGCAT+TGG 0.612710 2.2:+8922724 None:intergenic
ATGCGAGCTGATAAGTCGCT+CGG 0.619945 2.2:-8922553 MS.gene043442:CDS
TTAAGCCATTTGTAAATACA+GGG 0.625086 2.2:+8923030 None:intergenic
TTACAGGGATCAGTAATCCA+AGG 0.633705 2.2:-8922591 MS.gene043442:CDS
CGAAAATCAAGAGAAGCAGA+AGG 0.635468 2.2:-8922998 MS.gene043442:CDS
TTGGTGAGATGATATATGCA+AGG 0.649382 2.2:-8922666 MS.gene043442:CDS
TGAGAATGATTCAGATAATG+GGG 0.649487 2.2:+8922760 None:intergenic
CTTGTGTTAAGCATTGGTGA+AGG 0.649700 2.2:+8922730 None:intergenic
GAAGGACCAAGCGGTCTAGG+TGG 0.660331 2.2:+8922853 None:intergenic
GGAGTGTGTGCAAGATCCAG+TGG 0.671005 2.2:-8923082 MS.gene043442:CDS
CTTGTTCCACTCTACGGCCG+CGG 0.675004 2.2:-8922928 MS.gene043442:CDS
GTCATCCATGAAGGACCAAG+CGG 0.707584 2.2:+8922844 None:intergenic
GCGGCCGTAGAGTGGAACAA+GGG 0.719279 2.2:+8922930 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTATATATGTTTGTCACT+TGG + chr2.2:8923088-8923107 None:intergenic 25.0%
! ATGTTTCACAACATAATTCT+CGG - chr2.2:8922925-8922944 MS.gene043442:CDS 25.0%
! ATTAAGCCATTTGTAAATAC+AGG + chr2.2:8922691-8922710 None:intergenic 25.0%
! CAAATTCATACAATCTTACA+GGG - chr2.2:8923111-8923130 MS.gene043442:CDS 25.0%
! CTGTAAGATTGTATGAATTT+GGG + chr2.2:8923112-8923131 None:intergenic 25.0%
! TTAAGCCATTTGTAAATACA+GGG + chr2.2:8922690-8922709 None:intergenic 25.0%
! TTGAGAATGATTCAGATAAT+GGG + chr2.2:8922961-8922980 None:intergenic 25.0%
AATCCATTGGATACAAGTTA+TGG - chr2.2:8923023-8923042 MS.gene043442:CDS 30.0%
ATGATATATGCAAGGATCTT+TGG - chr2.2:8923059-8923078 MS.gene043442:CDS 30.0%
CCAAATTCATACAATCTTAC+AGG - chr2.2:8923110-8923129 MS.gene043442:CDS 30.0%
CCTGTAAGATTGTATGAATT+TGG + chr2.2:8923113-8923132 None:intergenic 30.0%
GTTGAGAATGATTCAGATAA+TGG + chr2.2:8922962-8922981 None:intergenic 30.0%
TGAGAATGATTCAGATAATG+GGG + chr2.2:8922960-8922979 None:intergenic 30.0%
TTTCTTCCAAGGAATCAATT+TGG + chr2.2:8922536-8922555 None:intergenic 30.0%
! ATAACTTGTATCCAATGGAT+TGG + chr2.2:8923024-8923043 None:intergenic 30.0%
! TAACTTGTATCCAATGGATT+GGG + chr2.2:8923023-8923042 None:intergenic 30.0%
! TATGAACCAAATTGATTCCT+TGG - chr2.2:8922527-8922546 MS.gene043442:CDS 30.0%
!! TTCAATCAGTATTTTGAGGA+GGG - chr2.2:8922504-8922523 MS.gene043442:CDS 30.0%
AAAAATCATCTCAGGAGATG+TGG - chr2.2:8922553-8922572 MS.gene043442:CDS 35.0%
AAAGGCAATGATCACCAATT+AGG - chr2.2:8922831-8922850 MS.gene043442:CDS 35.0%
AAGGCAATGATCACCAATTA+GGG - chr2.2:8922832-8922851 MS.gene043442:CDS 35.0%
CTTGGAAGAAAAATCATCTC+AGG - chr2.2:8922545-8922564 MS.gene043442:CDS 35.0%
GATACAAGTTATGGTGTCTT+TGG - chr2.2:8923032-8923051 MS.gene043442:CDS 35.0%
TTGGTGAGATGATATATGCA+AGG - chr2.2:8923051-8923070 MS.gene043442:CDS 35.0%
! ACACCATAACTTGTATCCAA+TGG + chr2.2:8923029-8923048 None:intergenic 35.0%
! CTCCTCAAAATACTGATTGA+AGG + chr2.2:8922505-8922524 None:intergenic 35.0%
! CTGAGATGATTTTTCTTCCA+AGG + chr2.2:8922547-8922566 None:intergenic 35.0%
! CTTCTGCTTCTCTTGATTTT+CGG + chr2.2:8922721-8922740 None:intergenic 35.0%
! GAGATTTCTGATTTGCATAC+TGG + chr2.2:8922759-8922778 None:intergenic 35.0%
! TAATTGGTGATCATTGCCTT+TGG + chr2.2:8922832-8922851 None:intergenic 35.0%
!! CTTCAATCAGTATTTTGAGG+AGG - chr2.2:8922503-8922522 MS.gene043442:CDS 35.0%
AAATCAAGAGAAGCAGAAGG+AGG - chr2.2:8922722-8922741 MS.gene043442:CDS 40.0%
ATCAAATGCCTTCTGATCCT+TGG + chr2.2:8923146-8923165 None:intergenic 40.0%
CGAAAATCAAGAGAAGCAGA+AGG - chr2.2:8922719-8922738 MS.gene043442:CDS 40.0%
CTTTGACTGCAACATATGCT+TGG - chr2.2:8922614-8922633 MS.gene043442:CDS 40.0%
GAACCACTTGTGTTAAGCAT+TGG + chr2.2:8922996-8923015 None:intergenic 40.0%
GATTTGCATACTGGACATTG+TGG + chr2.2:8922750-8922769 None:intergenic 40.0%
TCACCAATGCTTAACACAAG+TGG - chr2.2:8922990-8923009 MS.gene043442:CDS 40.0%
TCAGTAATCCAAGGATCAGA+AGG - chr2.2:8923135-8923154 MS.gene043442:CDS 40.0%
TTACAGGGATCAGTAATCCA+AGG - chr2.2:8923126-8923145 MS.gene043442:CDS 40.0%
TTTGCAGCATCAAGTGATCT+TGG + chr2.2:8922906-8922925 None:intergenic 40.0%
! GGCCTTCAATCAGTATTTTG+AGG - chr2.2:8922500-8922519 MS.gene043442:CDS 40.0%
!! CTTGTGTTAAGCATTGGTGA+AGG + chr2.2:8922990-8923009 None:intergenic 40.0%
!! GAAGCAATTTCAGGTTCTAG+TGG - chr2.2:8922591-8922610 MS.gene043442:CDS 40.0%
ACAAAACTGTGCAGCAAAGG+AGG + chr2.2:8923205-8923224 None:intergenic 45.0%
GCTGGCCCTGTATTTACAAA+TGG - chr2.2:8922682-8922701 MS.gene043442:CDS 45.0%
GGTAAGTTCGTCATCCATGA+AGG + chr2.2:8922885-8922904 None:intergenic 45.0%
GTGGTATGACACTCCCTAAT+TGG + chr2.2:8922848-8922867 None:intergenic 45.0%
TCATCCCTTGTTCCACTCTA+CGG - chr2.2:8922783-8922802 MS.gene043442:CDS 45.0%
TGGTGATCATTGCCTTTGGA+AGG + chr2.2:8922828-8922847 None:intergenic 45.0%
TGGTTCACTTCCCAATCCAT+TGG - chr2.2:8923010-8923029 MS.gene043442:CDS 45.0%
TTTGTGGTCATCTCTACTGC+TGG - chr2.2:8922664-8922683 MS.gene043442:CDS 45.0%
! GCTTCTCTTGATTTTCGGCA+TGG + chr2.2:8922716-8922735 None:intergenic 45.0%
! TGATCATTGCCTTTGGAAGG+CGG + chr2.2:8922825-8922844 None:intergenic 45.0%
!! GCAAGTGCTGAAGCAATTTC+AGG - chr2.2:8922582-8922601 MS.gene043442:CDS 45.0%
ATGCGAGCTGATAAGTCGCT+CGG - chr2.2:8923164-8923183 MS.gene043442:CDS 50.0%
GATCCAGTGGTCACTCTTTG+TGG - chr2.2:8922648-8922667 MS.gene043442:CDS 50.0%
GGCACAAAACTGTGCAGCAA+AGG + chr2.2:8923208-8923227 None:intergenic 50.0%
GTCATCCATGAAGGACCAAG+CGG + chr2.2:8922876-8922895 None:intergenic 50.0%
TGACCACAAAGAGTGACCAC+TGG + chr2.2:8922654-8922673 None:intergenic 50.0%
CAAACTACGCCGCCTTCCAA+AGG - chr2.2:8922813-8922832 MS.gene043442:CDS 55.0%
CATGAAGGACCAAGCGGTCT+AGG + chr2.2:8922870-8922889 None:intergenic 55.0%
CTAGACCGCTTGGTCCTTCA+TGG - chr2.2:8922868-8922887 MS.gene043442:CDS 55.0%
GGAGTGTGTGCAAGATCCAG+TGG - chr2.2:8922635-8922654 MS.gene043442:CDS 55.0%
GTCATACCACCTAGACCGCT+TGG - chr2.2:8922858-8922877 MS.gene043442:CDS 55.0%
! CTTTGGAAGGCGGCGTAGTT+TGG + chr2.2:8922815-8922834 None:intergenic 55.0%
CTTGTTCCACTCTACGGCCG+CGG - chr2.2:8922789-8922808 MS.gene043442:CDS 60.0%
GAAGGACCAAGCGGTCTAGG+TGG + chr2.2:8922867-8922886 None:intergenic 60.0%
GCGGCCGTAGAGTGGAACAA+GGG + chr2.2:8922790-8922809 None:intergenic 60.0%
AAGGCGGCGTAGTTTGGCCG+CGG + chr2.2:8922809-8922828 None:intergenic 65.0%
CGCGGCCGTAGAGTGGAACA+AGG + chr2.2:8922791-8922810 None:intergenic 65.0%
GTTTGGCCGCGGCCGTAGAG+TGG + chr2.2:8922798-8922817 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 8922498 8923241 8922498 ID=MS.gene043442
chr2.2 mRNA 8922498 8923241 8922498 ID=MS.gene043442.t1;Parent=MS.gene043442
chr2.2 exon 8922498 8923241 8922498 ID=MS.gene043442.t1.exon1;Parent=MS.gene043442.t1
chr2.2 CDS 8922498 8923241 8922498 ID=cds.MS.gene043442.t1;Parent=MS.gene043442.t1
Gene Sequence

>MS.gene043442

ATGGCCTTCAATCAGTATTTTGAGGAGGGTATGAACCAAATTGATTCCTTGGAAGAAAAATCATCTCAGGAGATGTGGAAATATGCAAGTGCTGAAGCAATTTCAGGTTCTAGTGGCTTTGACTGCAACATATGCTTGGAGTGTGTGCAAGATCCAGTGGTCACTCTTTGTGGTCATCTCTACTGCTGGCCCTGTATTTACAAATGGCTTAATTTCCATGCCGAAAATCAAGAGAAGCAGAAGGAGGAGCCACAATGTCCAGTATGCAAATCAGAAATCTCAAAATCATCCCTTGTTCCACTCTACGGCCGCGGCCAAACTACGCCGCCTTCCAAAGGCAATGATCACCAATTAGGGAGTGTCATACCACCTAGACCGCTTGGTCCTTCATGGATGACGAACTTACCAAGATCACTTGATGCTGCAAATGTTTCACAACATAATTCTCGGACTTATCATCCCCATTATCTGAATCATTCTCAACGATATCCTTCACCAATGCTTAACACAAGTGGTTCACTTCCCAATCCATTGGATACAAGTTATGGTGTCTTTGGTGAGATGATATATGCAAGGATCTTTGGAAACCAAGTGACAAACATATATACATACCCAAATTCATACAATCTTACAGGGATCAGTAATCCAAGGATCAGAAGGCATTTGATGCGAGCTGATAAGTCGCTCGGTAGAATCTGTTTCTTCCTCCTTTGCTGCACAGTTTTGTGCCTTCTCCTATTTTGA

Protein sequence

>MS.gene043442.t1

MAFNQYFEEGMNQIDSLEEKSSQEMWKYASAEAISGSSGFDCNICLECVQDPVVTLCGHLYCWPCIYKWLNFHAENQEKQKEEPQCPVCKSEISKSSLVPLYGRGQTTPPSKGNDHQLGSVIPPRPLGPSWMTNLPRSLDAANVSQHNSRTYHPHYLNHSQRYPSPMLNTSGSLPNPLDTSYGVFGEMIYARIFGNQVTNIYTYPNSYNLTGISNPRIRRHLMRADKSLGRICFFLLCCTVLCLLLF