AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065901

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065901.t1 MTR_4g077970 97.183 71 2 0 1 71 1 71 2.35e-44 148
MS.gene065901.t1 MTR_5g029680 70.492 61 18 0 11 71 31 91 3.01e-26 99.4
MS.gene065901.t1 MTR_1g102860 67.213 61 20 0 11 71 39 99 4.43e-25 94.7
MS.gene065901.t1 MTR_2g017890 60.294 68 27 0 4 71 7 74 6.30e-25 95.1
MS.gene065901.t1 MTR_8g087540 62.903 62 23 0 10 71 10 71 7.41e-25 95.1
MS.gene065901.t1 MTR_3g104550 67.213 61 20 0 11 71 45 105 1.55e-24 94.0
MS.gene065901.t1 MTR_7g095680 62.295 61 23 0 11 71 48 108 4.33e-24 92.4
MS.gene065901.t1 MTR_6g043060 57.971 69 29 0 3 71 13 81 4.61e-24 92.0
MS.gene065901.t1 MTR_3g101870 65.079 63 22 0 9 71 21 83 5.96e-24 92.4
MS.gene065901.t1 MTR_0020s0020 63.333 60 22 0 12 71 33 92 7.23e-24 91.7
MS.gene065901.t1 MTR_5g010680 61.667 60 23 0 12 71 24 83 1.29e-23 91.3
MS.gene065901.t1 MTR_1g071360 62.121 66 24 1 7 71 23 88 1.90e-23 90.9
MS.gene065901.t1 MTR_1g071360 65.000 60 21 0 12 71 32 91 4.51e-23 89.7
MS.gene065901.t1 MTR_8g083100 66.102 59 20 0 13 71 23 81 8.14e-23 89.7
MS.gene065901.t1 MTR_1g061170 62.903 62 23 0 10 71 47 108 8.39e-23 89.7
MS.gene065901.t1 MTR_5g017470 63.333 60 22 0 12 71 9 68 8.89e-23 88.2
MS.gene065901.t1 MTR_2g100680 61.667 60 23 0 12 71 31 90 4.22e-22 87.8
MS.gene065901.t1 MTR_6g086805 53.846 65 30 0 7 71 6 70 8.48e-22 86.3
MS.gene065901.t1 MTR_2g100670 63.333 60 22 0 12 71 33 92 1.33e-21 85.1
MS.gene065901.t1 MTR_5g089170 61.667 60 23 0 12 71 25 84 1.93e-21 84.0
MS.gene065901.t1 MTR_1g100777 60.000 60 24 0 12 71 18 77 1.98e-21 84.7
MS.gene065901.t1 MTR_2g100670 63.333 60 22 0 12 71 141 200 2.54e-21 85.5
MS.gene065901.t1 MTR_4g045757 58.333 60 25 0 10 69 12 71 2.99e-20 76.6
MS.gene065901.t1 MTR_8g105780 62.295 61 22 1 12 71 22 82 4.31e-20 81.6
MS.gene065901.t1 MTR_7g091370 55.000 60 27 0 12 71 22 81 1.53e-19 78.6
MS.gene065901.t1 MTR_4g088900 57.812 64 23 1 12 71 33 96 7.13e-19 76.3
MS.gene065901.t1 MTR_5g047190 56.818 44 19 0 20 63 1 44 3.57e-12 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065901.t1 AT3G02990 70.968 62 18 0 10 71 21 82 5.02e-27 101
MS.gene065901.t1 AT4G17750 66.667 66 22 0 6 71 46 111 8.06e-27 101
MS.gene065901.t1 AT5G16820 70.968 62 18 0 10 71 25 86 3.23e-26 99.4
MS.gene065901.t1 AT5G16820 70.968 62 18 0 10 71 25 86 3.23e-26 99.4
MS.gene065901.t1 AT1G32330 62.857 70 26 0 2 71 27 96 1.28e-25 97.8
MS.gene065901.t1 AT1G32330 62.857 70 26 0 2 71 27 96 1.30e-25 97.8
MS.gene065901.t1 AT1G46264 59.155 71 29 0 1 71 23 93 4.65e-25 95.1
MS.gene065901.t1 AT2G26150 62.295 61 23 0 11 71 43 103 2.93e-24 92.8
MS.gene065901.t1 AT2G26150 62.295 61 23 0 11 71 43 103 2.93e-24 92.8
MS.gene065901.t1 AT4G13980 69.492 59 18 0 13 71 24 82 5.76e-24 93.2
MS.gene065901.t1 AT3G22830 63.934 61 22 0 11 71 60 120 7.02e-24 92.4
MS.gene065901.t1 AT3G24520 61.905 63 24 0 9 71 14 76 7.25e-24 91.7
MS.gene065901.t1 AT4G36990 58.904 73 28 1 1 71 1 73 1.76e-23 89.7
MS.gene065901.t1 AT5G62020 61.667 60 23 0 12 71 23 82 4.18e-23 89.0
MS.gene065901.t1 AT3G51910 54.412 68 31 0 4 71 21 88 1.11e-22 87.4
MS.gene065901.t1 AT1G67970 63.492 63 22 1 10 71 17 79 1.93e-22 88.2
MS.gene065901.t1 AT4G11660 56.667 60 26 0 12 71 59 118 3.80e-22 87.4
MS.gene065901.t1 AT3G63350 63.333 60 22 0 12 71 28 87 5.15e-22 85.9
MS.gene065901.t1 AT5G03720 59.677 62 25 0 10 71 53 114 6.71e-22 87.0
MS.gene065901.t1 AT5G03720 59.677 62 25 0 10 71 53 114 6.71e-22 87.0
MS.gene065901.t1 AT5G43840 60.317 63 23 1 11 71 16 78 9.76e-22 85.1
MS.gene065901.t1 AT5G54070 52.381 63 30 0 9 71 68 130 1.27e-21 85.5
MS.gene065901.t1 AT2G41690 54.098 61 28 0 11 71 39 99 4.07e-19 77.8
MS.gene065901.t1 AT5G45710 62.903 62 23 0 10 71 11 72 7.07e-19 78.2
MS.gene065901.t1 AT5G45710 62.903 62 23 0 10 71 11 72 7.07e-19 78.2
MS.gene065901.t1 AT4G18880 61.765 68 26 0 4 71 7 74 1.54e-18 77.8

Find 14 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTGTGTTTGAAATATTT+AGG 0.323777 4.2:-31912616 None:intergenic
CAACCGAATCGATCGTTTCA+TGG 0.334490 4.2:+31912533 MS.gene065901:CDS
CCTAAGCAAAACCTACGATA+TGG 0.391487 4.2:+31912498 MS.gene065901:CDS
ATATTTAGGCAAGATGTGTT+TGG 0.394875 4.2:-31912602 None:intergenic
AACCGAATCGATCGTTTCAT+GGG 0.436953 4.2:+31912534 MS.gene065901:CDS
CAAGATGTGTTTGGAGAAAT+CGG 0.437903 4.2:-31912593 None:intergenic
GGATCGCGAATTATGACAGC+TGG 0.461443 4.2:+31912448 None:intergenic
GTTCAATTGTCTGACGAAGC+TGG 0.491130 4.2:-31912644 None:intergenic
ACCCCATGAAACGATCGATT+CGG 0.504242 4.2:-31912536 None:intergenic
AGAGTCATCAACCATATCGT+AGG 0.608336 4.2:-31912509 None:intergenic
GATCGCGAATTATGACAGCT+GGG 0.642062 4.2:+31912449 None:intergenic
ACCGAATCGATCGTTTCATG+GGG 0.677166 4.2:+31912535 MS.gene065901:CDS
GGTGGAATTGAAAACGACGA+AGG 0.715764 4.2:-31912572 None:intergenic
GATGTGTTTGGAGAAATCGG+TGG 0.725221 4.2:-31912590 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTGTTGTGTTTGAAATATTT+AGG - chr4.2:31912619-31912638 None:intergenic 20.0%
ATATTTAGGCAAGATGTGTT+TGG - chr4.2:31912605-31912624 None:intergenic 30.0%
CAAGATGTGTTTGGAGAAAT+CGG - chr4.2:31912596-31912615 None:intergenic 35.0%
AACCGAATCGATCGTTTCAT+GGG + chr4.2:31912534-31912553 MS.gene065901:CDS 40.0%
AGAGTCATCAACCATATCGT+AGG - chr4.2:31912512-31912531 None:intergenic 40.0%
CCTAAGCAAAACCTACGATA+TGG + chr4.2:31912498-31912517 MS.gene065901:CDS 40.0%
! CCATATCGTAGGTTTTGCTT+AGG - chr4.2:31912501-31912520 None:intergenic 40.0%
! TCGTAGGTTTTGCTTAGGAA+CGG - chr4.2:31912496-31912515 None:intergenic 40.0%
ACCCCATGAAACGATCGATT+CGG - chr4.2:31912539-31912558 None:intergenic 45.0%
ACCGAATCGATCGTTTCATG+GGG + chr4.2:31912535-31912554 MS.gene065901:CDS 45.0%
CAACCGAATCGATCGTTTCA+TGG + chr4.2:31912533-31912552 MS.gene065901:CDS 45.0%
GATGTGTTTGGAGAAATCGG+TGG - chr4.2:31912593-31912612 None:intergenic 45.0%
GGTGGAATTGAAAACGACGA+AGG - chr4.2:31912575-31912594 None:intergenic 45.0%
GTTCAATTGTCTGACGAAGC+TGG - chr4.2:31912647-31912666 None:intergenic 45.0%
! TAGGTTTTGCTTAGGAACGG+TGG - chr4.2:31912493-31912512 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 31912460 31912672 31912460 ID=MS.gene065901
chr4.2 mRNA 31912460 31912672 31912460 ID=MS.gene065901.t1;Parent=MS.gene065901
chr4.2 exon 31912460 31912672 31912460 ID=MS.gene065901.t1.exon1;Parent=MS.gene065901.t1
chr4.2 CDS 31912460 31912672 31912460 ID=cds.MS.gene065901.t1;Parent=MS.gene065901.t1
Gene Sequence

>MS.gene065901

ATGACAGCTGGGATCGCGAATTATGTATTACCACCGTTCCTAAGCAAAACCTACGATATGGTTGATGACTCTTCAACCGAATCGATCGTTTCATGGGGTAAAAACGACAACACCTTCGTCGTTTTCAATTCCACCGATTTCTCCAAACACATCTTGCCTAAATATTTCAAACACAACAACTTCTCCAGCTTCGTCAGACAATTGAACACCTAC
Protein sequence

>MS.gene065901.t1

MTAGIANYVLPPFLSKTYDMVDDSSTESIVSWGKNDNTFVVFNSTDFSKHILPKYFKHNNFSSFVRQLNTY