AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene030212

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene030212.t1 MTR_4g124380 98.198 111 2 0 1 111 59 169 2.09e-79 231
MS.gene030212.t1 MTR_4g124390 83.784 111 9 1 1 111 45 146 1.36e-62 187
MS.gene030212.t1 MTR_5g010100 38.272 81 44 1 1 81 61 135 1.31e-15 67.8
MS.gene030212.t1 MTR_7g078150 37.838 74 40 1 1 74 70 137 4.64e-15 67.4
MS.gene030212.t1 MTR_8g098770 40.541 74 34 2 1 74 70 133 7.23e-15 66.6
MS.gene030212.t1 MTR_2g044570 44.872 78 35 2 2 78 63 133 3.69e-13 63.9
MS.gene030212.t1 MTR_8g028815 40.789 76 33 3 1 74 74 139 6.16e-13 61.6
MS.gene030212.t1 MTR_8g009190 44.872 78 35 2 2 78 85 155 7.12e-13 63.2
MS.gene030212.t1 MTR_3g082510 41.667 72 36 1 3 74 81 146 7.73e-13 61.2
MS.gene030212.t1 MTR_5g064990 46.296 54 22 1 21 74 143 189 2.00e-12 62.4
MS.gene030212.t1 MTR_3g099650 50.000 54 20 2 21 74 136 182 3.46e-12 61.6
MS.gene030212.t1 MTR_1g082550 48.148 54 21 1 21 74 127 173 5.89e-12 60.8
MS.gene030212.t1 MTR_2g436100 44.444 72 31 3 2 73 102 164 6.63e-11 57.8
MS.gene030212.t1 MTR_0010s0050 43.103 58 28 2 16 73 69 121 8.19e-11 55.8
MS.gene030212.t1 MTR_7g116210 48.148 54 21 1 18 71 32 78 8.39e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene030212.t1 AT3G43430 52.212 113 42 4 2 110 63 167 1.99e-34 117
MS.gene030212.t1 AT5G20885 52.542 118 40 5 2 108 62 174 7.86e-33 113
MS.gene030212.t1 AT3G61460 40.541 74 38 1 1 74 74 141 2.60e-16 70.5
MS.gene030212.t1 AT4G00305 41.558 77 38 2 1 77 52 121 2.62e-15 67.0
MS.gene030212.t1 AT5G41400 40.260 77 38 3 1 75 84 154 6.83e-15 67.0
MS.gene030212.t1 AT1G63840 45.333 75 31 4 1 74 72 137 1.84e-14 65.9
MS.gene030212.t1 AT3G60220 44.872 78 35 2 2 78 97 167 3.23e-13 64.3
MS.gene030212.t1 AT2G01150 53.704 54 18 2 21 74 74 120 6.65e-13 61.2
MS.gene030212.t1 AT2G01150 53.704 54 18 2 21 74 100 146 8.66e-13 61.6
MS.gene030212.t1 AT2G01150 53.704 54 18 2 21 74 123 169 1.34e-12 61.2
MS.gene030212.t1 AT3G05200 39.726 73 36 2 2 73 108 173 3.92e-12 61.6
MS.gene030212.t1 AT1G15100 46.269 67 29 2 21 87 86 145 3.81e-11 57.0
MS.gene030212.t1 AT2G28920 43.636 55 24 1 19 73 91 138 7.77e-11 55.8

Find 18 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCACATGTTTCTTCTGTTTC+TGG 0.111435 8.2:+9202727 None:intergenic
GAGAGACTTCTTTATCTCTT+TGG 0.276051 8.2:-9202478 MS.gene030212:CDS
ATGCTACCTTTGACAAGTTT+CGG 0.327811 8.2:-9202769 MS.gene030212:CDS
TTCTTCTCCTCAACCTAGTT+GGG 0.344519 8.2:-9202506 MS.gene030212:CDS
TTGTTTGAACAAGCTGAAAA+TGG 0.363273 8.2:-9202701 MS.gene030212:CDS
TTTCTTCTCCTCAACCTAGT+TGG 0.373720 8.2:-9202507 MS.gene030212:CDS
CTCTACAAAGTGGACAAGTT+TGG 0.375846 8.2:+9202581 None:intergenic
GACAAGTTTCGGAGAAATCA+AGG 0.419612 8.2:-9202758 MS.gene030212:CDS
ATAAGGAATGCATAGATAAG+TGG 0.495925 8.2:-9202636 MS.gene030212:CDS
CTGTGATCATGTGTTTCATA+AGG 0.517073 8.2:-9202653 MS.gene030212:CDS
AGTCTCTCAACAGCCCAACT+AGG 0.548383 8.2:+9202493 None:intergenic
TCAACAGCCCAACTAGGTTG+AGG 0.559804 8.2:+9202499 None:intergenic
TCATCTGAGATTTCAAGCTG+TGG 0.568106 8.2:-9202532 MS.gene030212:CDS
TAACTAATTATTAATTAACA+AGG 0.588753 8.2:+9202442 None:intergenic
ATTTCTCCGAAACTTGTCAA+AGG 0.593001 8.2:+9202763 None:intergenic
AGTGAATAAGAATTAATCAA+AGG 0.595804 8.2:+9202556 None:intergenic
ATCAAAGGAGCTCTACAAAG+TGG 0.596806 8.2:+9202571 None:intergenic
ATAGATAAGTGGTTAGAACA+TGG 0.680848 8.2:-9202625 MS.gene030212:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTGAATAAGAATTAATCAA+AGG + chr8.2:9202672-9202691 None:intergenic 20.0%
ATAAGGAATGCATAGATAAG+TGG - chr8.2:9202589-9202608 MS.gene030212:CDS 30.0%
ATAGATAAGTGGTTAGAACA+TGG - chr8.2:9202600-9202619 MS.gene030212:CDS 30.0%
TTGTTTGAACAAGCTGAAAA+TGG - chr8.2:9202524-9202543 MS.gene030212:CDS 30.0%
ATGCTACCTTTGACAAGTTT+CGG - chr8.2:9202456-9202475 MS.gene030212:CDS 35.0%
ATTTCTCCGAAACTTGTCAA+AGG + chr8.2:9202465-9202484 None:intergenic 35.0%
CTGTGATCATGTGTTTCATA+AGG - chr8.2:9202572-9202591 MS.gene030212:CDS 35.0%
GAGAGACTTCTTTATCTCTT+TGG - chr8.2:9202747-9202766 MS.gene030212:CDS 35.0%
ATCAAAGGAGCTCTACAAAG+TGG + chr8.2:9202657-9202676 None:intergenic 40.0%
CTCTACAAAGTGGACAAGTT+TGG + chr8.2:9202647-9202666 None:intergenic 40.0%
GACAAGTTTCGGAGAAATCA+AGG - chr8.2:9202467-9202486 MS.gene030212:CDS 40.0%
GCACATGTTTCTTCTGTTTC+TGG + chr8.2:9202501-9202520 None:intergenic 40.0%
TTCTTCTCCTCAACCTAGTT+GGG - chr8.2:9202719-9202738 MS.gene030212:CDS 40.0%
TTTCTTCTCCTCAACCTAGT+TGG - chr8.2:9202718-9202737 MS.gene030212:CDS 40.0%
! TCATCTGAGATTTCAAGCTG+TGG - chr8.2:9202693-9202712 MS.gene030212:CDS 40.0%
AGTCTCTCAACAGCCCAACT+AGG + chr8.2:9202735-9202754 None:intergenic 50.0%
TCAACAGCCCAACTAGGTTG+AGG + chr8.2:9202729-9202748 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 9202456 9202791 9202456 ID=MS.gene030212
chr8.2 mRNA 9202456 9202791 9202456 ID=MS.gene030212.t1;Parent=MS.gene030212
chr8.2 exon 9202456 9202791 9202456 ID=MS.gene030212.t1.exon1;Parent=MS.gene030212.t1
chr8.2 CDS 9202456 9202791 9202456 ID=cds.MS.gene030212.t1;Parent=MS.gene030212.t1
Gene Sequence

>MS.gene030212

ATGCTACCTTTGACAAGTTTCGGAGAAATCAAGGAAAGACATCCAGAAACAGAAGAAACATGTGCTGTTTGTTTGAACAAGCTGAAAATGGAAGATGAAGTTAGAGAATTGATGAACTGTGATCATGTGTTTCATAAGGAATGCATAGATAAGTGGTTAGAACATGGTCATGAAAATGAAAATCATAACCAAACTTGTCCACTTTGTAGAGCTCCTTTGATTAATTCTTATTCACTTTCATCTGAGATTTCAAGCTGTGGATTTTCTTCTCCTCAACCTAGTTGGGCTGTTGAGAGACTTCTTTATCTCTTTGGTGATGATCTCTTGCCTTGTTAA
Protein sequence

>MS.gene030212.t1

MLPLTSFGEIKERHPETEETCAVCLNKLKMEDEVRELMNCDHVFHKECIDKWLEHGHENENHNQTCPLCRAPLINSYSLSSEISSCGFSSPQPSWAVERLLYLFGDDLLPC