AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58667

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58667.t1 MTR_2g035580 91.139 158 14 0 1 158 1 158 2.63e-93 267
MS.gene58667.t1 MTR_3g466980 46.203 158 85 0 1 158 1 158 2.70e-46 150
MS.gene58667.t1 MTR_3g467080 49.351 154 77 1 1 153 1 154 5.89e-46 147
MS.gene58667.t1 MTR_4g063790 46.753 154 81 1 1 153 1 154 5.33e-43 140
MS.gene58667.t1 MTR_3g065100 44.156 154 86 0 1 154 1 154 5.25e-38 130
MS.gene58667.t1 MTR_3g031100 42.138 159 91 1 1 158 1 159 7.59e-37 127
MS.gene58667.t1 MTR_4g032620 37.662 154 95 1 1 153 1 154 8.58e-35 121
MS.gene58667.t1 MTR_3g465410 47.541 122 63 1 30 150 2 123 1.36e-33 115
MS.gene58667.t1 MTR_2g016210 38.750 160 93 2 1 157 1 158 6.85e-33 117
MS.gene58667.t1 MTR_3g466830 39.597 149 90 0 4 152 3 151 8.01e-33 114
MS.gene58667.t1 MTR_3g031240 38.462 156 95 1 1 155 1 156 5.24e-31 110
MS.gene58667.t1 MTR_5g075380 33.333 153 102 0 1 153 1 153 1.46e-30 108
MS.gene58667.t1 MTR_4g031910 37.179 156 97 1 1 155 1 156 2.69e-29 107
MS.gene58667.t1 MTR_8g036130 37.975 158 95 2 1 155 1 158 3.05e-29 107
MS.gene58667.t1 MTR_1g090783 33.333 153 101 1 6 158 5 156 1.79e-28 103
MS.gene58667.t1 MTR_5g047580 34.194 155 101 1 1 155 1 154 4.95e-28 102
MS.gene58667.t1 MTR_4g032260 36.943 157 98 1 1 156 1 157 2.64e-27 100
MS.gene58667.t1 MTR_1g077390 33.987 153 100 1 1 153 1 152 5.48e-27 99.4
MS.gene58667.t1 MTR_3g466890 35.417 144 93 0 6 149 5 148 2.82e-26 97.8
MS.gene58667.t1 MTR_1g090697 30.968 155 106 1 1 155 1 154 1.18e-23 90.9
MS.gene58667.t1 MTR_2g035610 36.752 117 74 0 1 117 1 117 2.34e-23 89.0
MS.gene58667.t1 MTR_4g032290 35.032 157 101 1 1 156 1 157 1.08e-22 90.1
MS.gene58667.t1 MTR_4g028720 35.897 156 97 3 1 155 1 154 5.85e-22 86.7
MS.gene58667.t1 MTR_3g466930 36.885 122 77 0 32 153 2 123 1.05e-21 85.1
MS.gene58667.t1 MTR_1g090710 31.210 157 104 3 1 155 1 155 1.18e-21 85.9
MS.gene58667.t1 MTR_7g011950 32.903 155 103 1 1 155 1 154 1.60e-21 85.5
MS.gene58667.t1 MTR_1g084950 34.194 155 101 1 1 155 1 154 2.90e-21 84.7
MS.gene58667.t1 MTR_3g466900 35.246 122 79 0 32 153 2 123 1.01e-20 82.8
MS.gene58667.t1 MTR_1g077320 30.323 155 107 1 1 155 1 154 6.20e-20 81.3
MS.gene58667.t1 MTR_1g077300 36.129 155 92 4 1 153 1 150 5.37e-18 76.3
MS.gene58667.t1 MTR_4g028800 41.096 73 41 1 1 73 1 71 7.90e-18 73.6
MS.gene58667.t1 MTR_5g047560 25.806 155 98 2 1 155 1 138 1.13e-13 64.7
MS.gene58667.t1 MTR_4g019670 28.814 118 80 1 11 128 14 127 5.26e-11 60.1
MS.gene58667.t1 MTR_7g106510 27.273 121 78 2 11 128 14 127 6.76e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58667.t1 AT5G48670 41.667 156 87 2 1 154 1 154 6.84e-32 116
MS.gene58667.t1 AT3G05860 36.913 149 94 0 1 149 1 149 2.48e-29 107
MS.gene58667.t1 AT1G65300 37.086 151 95 0 4 154 3 153 3.03e-29 108
MS.gene58667.t1 AT1G65330 39.333 150 89 2 6 154 5 153 3.43e-29 108
MS.gene58667.t1 AT3G05860 39.103 156 81 3 1 149 1 149 1.32e-28 106
MS.gene58667.t1 AT3G05860 39.103 156 81 3 1 149 1 149 1.47e-28 106
MS.gene58667.t1 AT1G31630 33.333 153 91 3 6 153 5 151 6.79e-24 95.5
MS.gene58667.t1 AT1G31640 35.915 142 90 1 11 152 10 150 1.98e-23 95.5
MS.gene58667.t1 AT5G27810 43.182 88 50 0 30 117 2 89 7.43e-23 87.8
MS.gene58667.t1 AT5G26650 32.237 152 103 0 4 155 2 153 1.68e-22 92.0
MS.gene58667.t1 AT5G27960 31.579 152 104 0 4 155 2 153 1.35e-21 89.0
MS.gene58667.t1 AT1G22590 36.111 108 69 0 11 118 11 118 5.07e-21 84.3
MS.gene58667.t1 AT2G28700 32.680 153 95 3 1 149 1 149 5.85e-20 84.7
MS.gene58667.t1 AT2G40210 32.479 117 79 0 1 117 1 117 9.34e-15 70.5
MS.gene58667.t1 AT5G26580 28.571 154 96 3 1 154 1 140 2.89e-14 69.3
MS.gene58667.t1 AT5G26630 26.623 154 113 0 1 154 1 154 3.26e-14 67.8
MS.gene58667.t1 AT5G06500 28.182 110 75 1 1 110 1 106 4.28e-13 65.1

Find 27 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGATCTATCATTGCTTAT+TGG 0.201999 2.3:-53594107 MS.gene58667:CDS
CTTCTCTTTCGATTTCATTA+TGG 0.221424 2.3:+53594235 None:intergenic
ATTCATACGGGTGAATTTGA+TGG 0.333961 2.3:-53594152 MS.gene58667:CDS
AGATGGTGTTGGACAAGTTT+AGG 0.350542 2.3:-53594319 MS.gene58667:CDS
GTTTAGGAGCTTTCCTGAAT+CGG 0.417309 2.3:-53594303 MS.gene58667:CDS
TAAACTTGTCCAACACCATC+TGG 0.418271 2.3:+53594321 None:intergenic
AGTGAAATCACCACACTTTG+TGG 0.451943 2.3:-53594416 MS.gene58667:CDS
GGAAGACAACATTCAACAAA+AGG 0.464060 2.3:-53594849 MS.gene58667:CDS
AGTTGAAGAAACAGAAGGAC+AGG 0.479430 2.3:-53594214 MS.gene58667:CDS
ATCTATGATGAAAACAATGA+TGG 0.489972 2.3:-53594374 MS.gene58667:CDS
ACTTGGTGAATTCATTCATA+CGG 0.496749 2.3:-53594165 MS.gene58667:CDS
CCTGAATCGGAACAAAGAAA+AGG 0.516491 2.3:-53594290 MS.gene58667:CDS
GGAACAAAGAAAAGGAAAGC+TGG 0.520124 2.3:-53594282 MS.gene58667:CDS
AAAAGGAAAGCTGGATCATG+AGG 0.532487 2.3:-53594273 MS.gene58667:CDS
CTTGGTGAATTCATTCATAC+GGG 0.535817 2.3:-53594164 MS.gene58667:CDS
AAGAAAATGAATGATCTACT+TGG 0.551967 2.3:-53594182 MS.gene58667:CDS
ACGGTTTATCCATCAAAAGA+AGG 0.566324 2.3:-53594347 MS.gene58667:CDS
ACATAACTGATGACTTGAAG+AGG 0.573872 2.3:-53594870 MS.gene58667:CDS
AGAAGGAGTCCAGATGGTGT+TGG 0.590630 2.3:-53594330 MS.gene58667:CDS
AGAGAAGTTGAAGAAACAGA+AGG 0.596295 2.3:-53594219 MS.gene58667:CDS
ACCGAAAAGAAGTCGATGAG+AGG 0.615793 2.3:-53594079 MS.gene58667:CDS
ATCAAAAGAAGGAGTCCAGA+TGG 0.615817 2.3:-53594336 MS.gene58667:CDS
TGCATCAATTCCACAAAGTG+TGG 0.616904 2.3:+53594406 None:intergenic
TGAAAACAATGATGGAGCAA+CGG 0.627126 2.3:-53594366 MS.gene58667:CDS
ACATTCAACAAAAGGAAGCA+TGG 0.630577 2.3:-53594841 MS.gene58667:intron
AAAGGAAAGCTGGATCATGA+GGG 0.661580 2.3:-53594272 MS.gene58667:CDS
CTTTGTGGAATTGATGCATG+TGG 0.684212 2.3:-53594401 MS.gene58667:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAAATAACAATAATTTCAA+AGG + chr2.3:53594409-53594428 None:intergenic 15.0%
!! ACATAACTGATATGTTATTA+TGG + chr2.3:53594383-53594402 None:intergenic 20.0%
!! AGTGTTCTTTATAGAAATAA+AGG + chr2.3:53594158-53594177 None:intergenic 20.0%
!! TCATATTGATAAATTCCTAA+TGG + chr2.3:53594282-53594301 None:intergenic 20.0%
!!! ACAATATTTTAAGATCATGT+CGG - chr2.3:53594429-53594448 MS.gene58667:CDS 20.0%
!!! TTTCATATTTTTAGTATCCA+TGG + chr2.3:53594246-53594265 None:intergenic 20.0%
! AAGAAAATGAATGATCTACT+TGG - chr2.3:53594774-53594793 MS.gene58667:intron 25.0%
! ATCTATGATGAAAACAATGA+TGG - chr2.3:53594582-53594601 MS.gene58667:intron 25.0%
!! ATCATTCATTTTCTTCTTCT+TGG + chr2.3:53594769-53594788 None:intergenic 25.0%
!!! GTTTTTTTTTATCACTACCA+TGG - chr2.3:53594226-53594245 MS.gene58667:CDS 25.0%
CTTCTCTTTCGATTTCATTA+TGG + chr2.3:53594724-53594743 None:intergenic 30.0%
GAAGATCTATCATTGCTTAT+TGG - chr2.3:53594849-53594868 MS.gene58667:CDS 30.0%
! ACTTGGTGAATTCATTCATA+CGG - chr2.3:53594791-53594810 MS.gene58667:intron 30.0%
!! GTTTTGTTGTGTTTTTCAAC+AGG - chr2.3:53594501-53594520 MS.gene58667:intron 30.0%
AAGTTGACTGCATAACCATT+AGG - chr2.3:53594264-53594283 MS.gene58667:CDS 35.0%
ACATAACTGATGACTTGAAG+AGG - chr2.3:53594086-53594105 MS.gene58667:CDS 35.0%
ACATTCAACAAAAGGAAGCA+TGG - chr2.3:53594115-53594134 MS.gene58667:CDS 35.0%
ACGGTTTATCCATCAAAAGA+AGG - chr2.3:53594609-53594628 MS.gene58667:intron 35.0%
AGAGAAGTTGAAGAAACAGA+AGG - chr2.3:53594737-53594756 MS.gene58667:intron 35.0%
ATTCATACGGGTGAATTTGA+TGG - chr2.3:53594804-53594823 MS.gene58667:intron 35.0%
CTTGGTGAATTCATTCATAC+GGG - chr2.3:53594792-53594811 MS.gene58667:intron 35.0%
GGAAGACAACATTCAACAAA+AGG - chr2.3:53594107-53594126 MS.gene58667:CDS 35.0%
! TGAAAACAATGATGGAGCAA+CGG - chr2.3:53594590-53594609 MS.gene58667:intron 35.0%
AAAAGGAAAGCTGGATCATG+AGG - chr2.3:53594683-53594702 MS.gene58667:intron 40.0%
AAAGGAAAGCTGGATCATGA+GGG - chr2.3:53594684-53594703 MS.gene58667:intron 40.0%
AGTGAAATCACCACACTTTG+TGG - chr2.3:53594540-53594559 MS.gene58667:intron 40.0%
AGTTGAAGAAACAGAAGGAC+AGG - chr2.3:53594742-53594761 MS.gene58667:intron 40.0%
ATCAAAAGAAGGAGTCCAGA+TGG - chr2.3:53594620-53594639 MS.gene58667:intron 40.0%
ATTTCTCTCAACTCTCTCAC+GGG - chr2.3:53594479-53594498 MS.gene58667:intron 40.0%
CATTTCTCTCAACTCTCTCA+CGG - chr2.3:53594478-53594497 MS.gene58667:intron 40.0%
CCTGAATCGGAACAAAGAAA+AGG - chr2.3:53594666-53594685 MS.gene58667:intron 40.0%
CTTTGTGGAATTGATGCATG+TGG - chr2.3:53594555-53594574 MS.gene58667:intron 40.0%
GGAACAAAGAAAAGGAAAGC+TGG - chr2.3:53594674-53594693 MS.gene58667:intron 40.0%
GTTTAGGAGCTTTCCTGAAT+CGG - chr2.3:53594653-53594672 MS.gene58667:intron 40.0%
TAAACTTGTCCAACACCATC+TGG + chr2.3:53594638-53594657 None:intergenic 40.0%
TGCATCAATTCCACAAAGTG+TGG + chr2.3:53594553-53594572 None:intergenic 40.0%
! AGATGGTGTTGGACAAGTTT+AGG - chr2.3:53594637-53594656 MS.gene58667:intron 40.0%
! ATCTGGACTCCTTCTTTTGA+TGG + chr2.3:53594621-53594640 None:intergenic 40.0%
! CCTTTTCTTTGTTCCGATTC+AGG + chr2.3:53594669-53594688 None:intergenic 40.0%
!!! TCCTCTCATCGACTTCTTTT+CGG + chr2.3:53594881-53594900 None:intergenic 40.0%
ACCGAAAAGAAGTCGATGAG+AGG - chr2.3:53594877-53594896 MS.gene58667:CDS 45.0%
AGAAGGAGTCCAGATGGTGT+TGG - chr2.3:53594626-53594645 MS.gene58667:intron 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 53594058 53594920 53594058 ID=MS.gene58667
chr2.3 mRNA 53594058 53594920 53594058 ID=MS.gene58667.t1;Parent=MS.gene58667
chr2.3 exon 53594842 53594920 53594842 ID=MS.gene58667.t1.exon1;Parent=MS.gene58667.t1
chr2.3 CDS 53594842 53594920 53594842 ID=cds.MS.gene58667.t1;Parent=MS.gene58667.t1
chr2.3 exon 53594058 53594455 53594058 ID=MS.gene58667.t1.exon2;Parent=MS.gene58667.t1
chr2.3 CDS 53594058 53594455 53594058 ID=cds.MS.gene58667.t1;Parent=MS.gene58667.t1
Gene Sequence

>MS.gene58667

ATGGCTGATAAAAATATGAGAGTTGACTACATAACTGATGACTTGAAGAGGAAGACAACATTCAACAAAAGGAAGCATGGTTAGATACTAAATTTCTCCTTTATTTCTATAAAGAACACTCATATCATACAAATTTATTATGAATTTTTTTCTTGTTCATTTCTTTCAGTTTTTTTTTATCACTACCATGGATACTAAAAATATGAAAGTTGACTGCATAACCATTAGGAATTTATCAATATGAATATAGTTATTTGATGTTTGTTATTTTTTTTTGTTGTTGTTGATATCATGAAAAAATTGTAAGCAAATGTTGTTGCAACCATAATAACATATCAGTTATGTAGACCTTTGAAATTATTGTTATTTTCACAATATTTTAAGATCATGTCGGTTATAGTATACATTTTTTCAGTTTCACATTTCTCTCAACTCTCTCACGGGTTTTGTTGTGTTTTTCAACAGGTATAACTAAGAAGATTAGTGAAATCACCACACTTTGTGGAATTGATGCATGTGGTATAATCTATGATGAAAACAATGATGGAGCAACGGTTTATCCATCAAAAGAAGGAGTCCAGATGGTGTTGGACAAGTTTAGGAGCTTTCCTGAATCGGAACAAAGAAAAGGAAAGCTGGATCATGAGGGCTTTTTGAGACAATCCATAATGAAATCGAAAGAGAAGTTGAAGAAACAGAAGGACAGGTCCAAGAAGAAGAAAATGAATGATCTACTTGGTGAATTCATTCATACGGGTGAATTTGATGGAAATGTGAGCGAGAATGATCTCGAAGATCTATCATTGCTTATTGGTGATTACCGAAAAGAAGTCGATGAGAGGATCGAATCAAGTCAAACCTGA
Protein sequence

>MS.gene58667.t1

MADKNMRVDYITDDLKRKTTFNKRKHGITKKISEITTLCGIDACGIIYDENNDGATVYPSKEGVQMVLDKFRSFPESEQRKGKLDHEGFLRQSIMKSKEKLKKQKDRSKKKKMNDLLGEFIHTGEFDGNVSENDLEDLSLLIGDYRKEVDERIESSQT