AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012004

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012004.t1 MTR_8g077380 98.611 72 1 0 1 72 1 72 1.34e-49 150
MS.gene012004.t1 MTR_8g077390 98.611 72 1 0 1 72 1 72 1.34e-49 150
MS.gene012004.t1 MTR_8g077360 97.222 72 2 0 1 72 1 72 4.24e-49 149
MS.gene012004.t1 MTR_5g020540 82.258 62 11 0 3 64 2 63 1.34e-35 114
MS.gene012004.t1 MTR_8g077420 68.571 70 21 1 1 70 1 69 3.92e-32 106
MS.gene012004.t1 MTR_3g116720 64.615 65 22 1 5 68 16 80 1.42e-27 95.1
MS.gene012004.t1 MTR_1g022290 55.224 67 29 1 2 67 4 70 7.77e-26 91.3
MS.gene012004.t1 MTR_6g004250 57.576 66 27 1 2 66 7 72 3.45e-25 89.0
MS.gene012004.t1 MTR_5g020170 54.688 64 28 1 5 67 19 82 1.74e-24 87.8
MS.gene012004.t1 MTR_3g111880 55.072 69 30 1 2 69 4 72 8.08e-24 85.9
MS.gene012004.t1 MTR_3g013440 55.072 69 29 1 2 68 7 75 1.07e-22 83.2
MS.gene012004.t1 MTR_7g089210 59.016 61 24 1 8 67 15 75 4.94e-22 81.3
MS.gene012004.t1 MTR_5g069710 54.930 71 31 1 1 70 25 95 9.73e-21 82.8
MS.gene012004.t1 MTR_3g111920 52.174 69 32 1 4 71 2 70 6.41e-20 75.9
MS.gene012004.t1 MTR_3g462790 54.412 68 30 1 2 68 40 107 1.10e-19 80.1
MS.gene012004.t1 MTR_7g067080 51.429 70 33 1 2 70 32 101 9.05e-18 75.1
MS.gene012004.t1 MTR_8g063870 43.836 73 40 1 1 72 4 76 6.94e-17 72.0
MS.gene012004.t1 MTR_5g081860 50.769 65 31 1 3 66 25 89 6.53e-16 69.7
MS.gene012004.t1 MTR_1g033600 38.571 70 42 1 2 70 9 78 2.48e-15 65.9
MS.gene012004.t1 MTR_1g086180 47.143 70 35 1 3 70 9 78 4.18e-15 63.9
MS.gene012004.t1 MTR_7g110580 50.820 61 28 1 3 61 6 66 1.52e-14 62.4
MS.gene012004.t1 MTR_8g063600 39.130 69 41 1 5 72 10 78 2.78e-12 59.7
MS.gene012004.t1 MTR_1g111830 40.000 65 38 1 3 66 22 86 1.68e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012004.t1 AT4G39250 66.154 65 21 1 5 68 14 78 1.35e-28 98.2
MS.gene012004.t1 AT1G75250 62.687 67 24 1 3 68 10 76 4.57e-27 94.4
MS.gene012004.t1 AT1G75250 64.615 65 22 1 5 68 12 76 6.32e-27 94.7
MS.gene012004.t1 AT2G21650 56.522 69 29 1 5 72 14 82 8.07e-26 91.3
MS.gene012004.t1 AT1G19510 61.290 62 23 1 8 68 15 76 7.06e-24 86.3
MS.gene012004.t1 AT2G18328 55.385 65 27 2 8 71 14 77 9.95e-19 72.8
MS.gene012004.t1 AT2G38090 51.429 70 33 1 2 70 26 95 3.10e-18 76.3
MS.gene012004.t1 AT5G58900 52.174 69 32 1 2 69 31 99 1.28e-17 74.3
MS.gene012004.t1 AT4G36570 65.909 44 14 1 5 47 12 55 6.57e-16 65.1
MS.gene012004.t1 AT5G05790 45.714 70 37 1 2 70 28 97 8.90e-16 69.3
MS.gene012004.t1 AT5G05790 45.714 70 37 1 2 70 28 97 8.90e-16 69.3
MS.gene012004.t1 AT3G11280 49.206 63 31 1 5 66 33 95 2.32e-15 68.2
MS.gene012004.t1 AT3G11280 49.206 63 31 1 5 66 33 95 2.32e-15 68.2
MS.gene012004.t1 AT5G08520 47.826 69 35 1 5 72 12 80 3.48e-14 65.1
MS.gene012004.t1 AT5G04760 43.284 67 37 1 1 66 1 67 3.16e-13 61.6
MS.gene012004.t1 AT5G01200 45.070 71 37 2 4 72 29 99 1.55e-12 60.5
MS.gene012004.t1 AT1G49010 41.429 70 37 2 1 66 4 73 5.25e-12 59.3

Find 13 sgRNAs with CRISPR-Local

Find 14 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAACATTGTGCCATCTTTC+AGG 0.193556 8.2:+28199254 None:intergenic
TGTAACGAGGAAAAGGGATA+TGG 0.417505 8.2:+28199150 None:intergenic
TACGTTGAACATCTTCTTTG+AGG 0.435409 8.2:+28199183 None:intergenic
ATCAACAAATGGCAACCTCT+TGG 0.450563 8.2:-28199334 None:intergenic
CAAACTGTTTGAACAAGCAT+TGG 0.467435 8.2:-28199297 MS.gene012004:CDS
CACAATGTTGCCAAAGTGGT+TGG 0.534351 8.2:-28199242 MS.gene012004:CDS
TGGCAACCTCTTGGACTGCA+AGG 0.539984 8.2:-28199325 MS.gene012004:CDS
ATAGAGAAACTCCTGAAAGA+TGG 0.546752 8.2:-28199265 MS.gene012004:CDS
AAAACTAACACCAACTCCTA+AGG 0.547909 8.2:-28199128 None:intergenic
ATATATTATACCTTAGGAGT+TGG 0.560505 8.2:+28199118 None:intergenic
GTTCTGCCTTGCAGTCCAAG+AGG 0.596751 8.2:+28199319 None:intergenic
ATGGCACAATGTTGCCAAAG+TGG 0.642850 8.2:-28199246 MS.gene012004:CDS
GATGTTCAACGTATTGAGCG+TGG 0.669371 8.2:-28199173 MS.gene012004:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAGTTTTGTAACGAGGAAAA+GGG + chr8.2:28199315-28199334 None:intergenic 30.0%
!!! TTAGTTTTGTAACGAGGAAA+AGG + chr8.2:28199316-28199335 None:intergenic 30.0%
ATAGAGAAACTCCTGAAAGA+TGG - chr8.2:28199191-28199210 MS.gene012004:CDS 35.0%
CAAACTGTTTGAACAAGCAT+TGG - chr8.2:28199159-28199178 MS.gene012004:CDS 35.0%
TACGTTGAACATCTTCTTTG+AGG + chr8.2:28199276-28199295 None:intergenic 35.0%
!! AACTGATTTTCCAACCACTT+TGG + chr8.2:28199227-28199246 None:intergenic 35.0%
!!! TTGGTGTTAGTTTTGTAACG+AGG + chr8.2:28199322-28199341 None:intergenic 35.0%
TGTAACGAGGAAAAGGGATA+TGG + chr8.2:28199309-28199328 None:intergenic 40.0%
ATGGCACAATGTTGCCAAAG+TGG - chr8.2:28199210-28199229 MS.gene012004:CDS 45.0%
CACAATGTTGCCAAAGTGGT+TGG - chr8.2:28199214-28199233 MS.gene012004:CDS 45.0%
GATGTTCAACGTATTGAGCG+TGG - chr8.2:28199283-28199302 MS.gene012004:CDS 45.0%
GCAACATTGTGCCATCTTTC+AGG + chr8.2:28199205-28199224 None:intergenic 45.0%
GTTCTGCCTTGCAGTCCAAG+AGG + chr8.2:28199140-28199159 None:intergenic 55.0%
TGGCAACCTCTTGGACTGCA+AGG - chr8.2:28199131-28199150 MS.gene012004:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 28199130 28199348 28199130 ID=MS.gene012004
chr8.2 mRNA 28199130 28199348 28199130 ID=MS.gene012004.t1;Parent=MS.gene012004
chr8.2 exon 28199130 28199348 28199130 ID=MS.gene012004.t1.exon1;Parent=MS.gene012004.t1
chr8.2 CDS 28199130 28199348 28199130 ID=cds.MS.gene012004.t1;Parent=MS.gene012004.t1
Gene Sequence

>MS.gene012004

ATGGCAACCTCTTGGACTGCAAGGCAGAACAAACTGTTTGAACAAGCATTGGCTTTATATGATAGAGAAACTCCTGAAAGATGGCACAATGTTGCCAAAGTGGTTGGAAAATCAGTTGAAGATGTTAAAAGTCACTATGAGATCCTCAAAGAAGATGTTCAACGTATTGAGCGTGGCCATATCCCTTTTCCTCGTTACAAAACTAACACCAACTCCTAA
Protein sequence

>MS.gene012004.t1

MATSWTARQNKLFEQALALYDRETPERWHNVAKVVGKSVEDVKSHYEILKEDVQRIERGHIPFPRYKTNTNS