AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene79417

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79417.t1 MTR_3g025510 92.258 155 11 1 1 155 1 154 1.82e-103 293
MS.gene79417.t1 MTR_3g025380 51.049 143 55 3 11 150 8 138 5.45e-32 111
MS.gene79417.t1 MTR_3g025550 72.222 54 15 0 95 148 6 59 3.51e-23 86.7
MS.gene79417.t1 MTR_3g025620 69.231 52 16 0 99 150 1 52 6.27e-21 80.9
MS.gene79417.t1 MTR_2g058360 50.000 92 35 3 61 150 58 140 8.11e-20 80.5
MS.gene79417.t1 MTR_7g074170 38.710 93 53 2 59 147 294 386 3.74e-16 74.7
MS.gene79417.t1 MTR_6g079660 30.000 110 73 2 42 147 167 276 2.63e-14 69.3
MS.gene79417.t1 MTR_3g072630 36.000 100 63 1 52 150 166 265 1.12e-13 67.4
MS.gene79417.t1 MTR_3g072630 36.000 100 63 1 52 150 166 265 1.26e-13 67.0
MS.gene79417.t1 MTR_1g114620 37.634 93 52 2 59 147 215 305 1.92e-13 66.6
MS.gene79417.t1 MTR_0067s0100 31.683 101 69 0 47 147 131 231 3.66e-13 65.5
MS.gene79417.t1 MTR_3g088080 35.802 81 46 3 68 147 4 79 5.83e-13 61.2
MS.gene79417.t1 MTR_1g114320 29.167 96 64 2 59 150 143 238 6.73e-13 65.1
MS.gene79417.t1 MTR_3g083480 33.684 95 55 2 59 150 192 281 9.11e-13 64.7
MS.gene79417.t1 MTR_4g108830 29.771 131 81 3 23 150 69 191 5.60e-12 61.2
MS.gene79417.t1 MTR_4g108830 42.188 64 36 1 88 150 156 219 6.78e-11 58.5
MS.gene79417.t1 MTR_2g097620 32.812 64 43 0 84 147 167 230 8.25e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79417.t1 AT4G26400 34.951 103 59 2 48 147 185 282 1.99e-14 69.7
MS.gene79417.t1 AT4G26400 34.951 103 59 2 48 147 185 282 1.99e-14 69.7
MS.gene79417.t1 AT3G19950 29.730 111 68 3 41 147 153 257 1.48e-13 67.0
MS.gene79417.t1 AT5G08139 44.615 65 35 1 84 147 286 350 2.09e-13 66.6
MS.gene79417.t1 AT3G19950 29.730 111 68 3 41 147 211 315 2.37e-13 66.6
MS.gene79417.t1 AT3G19950 29.730 111 68 3 41 147 211 315 2.37e-13 66.6
MS.gene79417.t1 AT4G05350 45.455 66 31 2 90 150 139 204 3.46e-13 64.7
MS.gene79417.t1 AT4G12190 45.455 66 31 2 90 150 4 69 5.18e-13 60.8
MS.gene79417.t1 AT4G12210 43.939 66 32 2 90 150 135 200 1.98e-12 62.4
MS.gene79417.t1 AT1G14200 36.000 75 48 0 73 147 76 150 2.21e-12 62.0
MS.gene79417.t1 AT2G40830 30.556 108 72 2 51 155 132 239 5.44e-12 62.4
MS.gene79417.t1 AT2G40830 30.556 108 72 2 51 155 132 239 5.44e-12 62.4
MS.gene79417.t1 AT2G40830 30.556 108 72 2 51 155 132 239 5.44e-12 62.4
MS.gene79417.t1 AT2G40830 30.556 108 72 2 51 155 132 239 5.44e-12 62.4
MS.gene79417.t1 AT1G60360 39.130 69 41 1 88 155 205 273 8.02e-12 62.0
MS.gene79417.t1 AT4G12140 41.975 81 38 3 71 147 121 196 1.05e-11 60.5
MS.gene79417.t1 AT3G02340 36.264 91 53 3 62 147 286 376 1.36e-11 61.6
MS.gene79417.t1 AT3G02340 36.264 91 53 3 62 147 286 376 1.36e-11 61.6
MS.gene79417.t1 AT5G01980 33.696 92 58 1 59 147 300 391 1.68e-11 61.2
MS.gene79417.t1 AT5G15820 34.737 95 55 3 60 147 238 332 2.32e-11 60.8
MS.gene79417.t1 AT5G56340 31.959 97 58 2 54 147 209 300 2.39e-11 60.8
MS.gene79417.t1 AT3G13430 28.713 101 64 2 51 147 170 266 3.44e-11 60.1
MS.gene79417.t1 AT3G13430 28.713 101 64 2 51 147 170 266 3.44e-11 60.1
MS.gene79417.t1 AT3G13430 28.713 101 64 2 51 147 170 266 3.44e-11 60.1
MS.gene79417.t1 AT3G13430 28.713 101 64 2 51 147 170 266 3.44e-11 60.1
MS.gene79417.t1 AT3G60080 37.313 67 34 1 89 147 144 210 3.81e-11 60.1
MS.gene79417.t1 AT3G10815 38.095 63 39 0 88 150 103 165 5.31e-11 58.5
MS.gene79417.t1 AT3G30460 44.444 63 33 1 90 150 115 177 6.90e-11 58.2
MS.gene79417.t1 AT3G30460 44.444 63 33 1 90 150 79 141 6.93e-11 57.4
MS.gene79417.t1 AT5G54990 51.111 45 22 0 103 147 171 215 8.55e-11 58.5
MS.gene79417.t1 AT1G55530 30.435 92 56 2 59 147 145 231 8.87e-11 58.9
MS.gene79417.t1 AT1G55530 30.435 92 56 2 59 147 178 264 9.73e-11 58.9
MS.gene79417.t1 AT1G55530 30.435 92 56 2 59 147 178 264 9.73e-11 58.9

Find 20 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACGACTCGGTCATGATTT+TGG 0.175603 3.1:+16527323 MS.gene79417:CDS
CGAATTGCTTTCGACCCAAC+TGG 0.391692 3.1:-16527612 None:intergenic
ACGACTACTCCTTATGTTGA+TGG 0.398986 3.1:+16527435 MS.gene79417:CDS
GATGTGTTCTATTTGTTTAG+CGG 0.424628 3.1:+16527584 MS.gene79417:CDS
CAGTTGGGTCGAAAGCAATT+CGG 0.451135 3.1:+16527613 MS.gene79417:CDS
TTTCTTGCGAACCTTCTTGA+CGG 0.459895 3.1:-16527396 None:intergenic
ACGATGAGTGTATCATGAAA+TGG 0.467296 3.1:+16527658 MS.gene79417:CDS
TGTTTAGCGGAGCTTCCAGT+TGG 0.484304 3.1:+16527597 MS.gene79417:CDS
AATCATACTAGTAGAAGAAG+TGG 0.493476 3.1:+16527495 MS.gene79417:CDS
ATATAGTGGCCATCAACATA+AGG 0.494243 3.1:-16527444 None:intergenic
CCAAGAGTCAAAATTGAAGA+AGG 0.508189 3.1:+16527543 MS.gene79417:CDS
GTTTAGCGGAGCTTCCAGTT+GGG 0.530051 3.1:+16527598 MS.gene79417:CDS
CATACGCTCTGACGACACAT+AGG 0.560620 3.1:-16527702 None:intergenic
TTACAAGAAATCCGTCAAGA+AGG 0.577748 3.1:+16527385 MS.gene79417:CDS
TAGTATGATTCTCGTTGATG+TGG 0.592252 3.1:-16527482 None:intergenic
ATACGCTCTGACGACACATA+GGG 0.608114 3.1:-16527701 None:intergenic
AGAGTGTGATAAAGACGAGG+AGG 0.621044 3.1:-16527363 None:intergenic
GTAAGAGTGTGATAAAGACG+AGG 0.729088 3.1:-16527366 None:intergenic
ATTTCATGATACACTCATCG+TGG 0.739086 3.1:-16527656 None:intergenic
GTTCAACGAAGACAACGACT+CGG 0.746473 3.1:+16527311 MS.gene79417:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGATAACATGAAAAATATAG+TGG - chr3.1:16527461-16527480 None:intergenic 20.0%
AATCATACTAGTAGAAGAAG+TGG + chr3.1:16527495-16527514 MS.gene79417:CDS 30.0%
GATGTGTTCTATTTGTTTAG+CGG + chr3.1:16527584-16527603 MS.gene79417:CDS 30.0%
ACGATGAGTGTATCATGAAA+TGG + chr3.1:16527658-16527677 MS.gene79417:CDS 35.0%
ATATAGTGGCCATCAACATA+AGG - chr3.1:16527447-16527466 None:intergenic 35.0%
ATTTCATGATACACTCATCG+TGG - chr3.1:16527659-16527678 None:intergenic 35.0%
CCAAGAGTCAAAATTGAAGA+AGG + chr3.1:16527543-16527562 MS.gene79417:CDS 35.0%
TAGTATGATTCTCGTTGATG+TGG - chr3.1:16527485-16527504 None:intergenic 35.0%
TTACAAGAAATCCGTCAAGA+AGG + chr3.1:16527385-16527404 MS.gene79417:CDS 35.0%
!!! CCTTCTTCAATTTTGACTCT+TGG - chr3.1:16527546-16527565 None:intergenic 35.0%
ACGACTACTCCTTATGTTGA+TGG + chr3.1:16527435-16527454 MS.gene79417:CDS 40.0%
TTTCTTGCGAACCTTCTTGA+CGG - chr3.1:16527399-16527418 None:intergenic 40.0%
! GTAAGAGTGTGATAAAGACG+AGG - chr3.1:16527369-16527388 None:intergenic 40.0%
AGAGTGTGATAAAGACGAGG+AGG - chr3.1:16527366-16527385 None:intergenic 45.0%
ATACGCTCTGACGACACATA+GGG - chr3.1:16527704-16527723 None:intergenic 45.0%
CAGTTGGGTCGAAAGCAATT+CGG + chr3.1:16527613-16527632 MS.gene79417:CDS 45.0%
GTTCAACGAAGACAACGACT+CGG + chr3.1:16527311-16527330 MS.gene79417:CDS 45.0%
!!! CAACGACTCGGTCATGATTT+TGG + chr3.1:16527323-16527342 MS.gene79417:CDS 45.0%
CATACGCTCTGACGACACAT+AGG - chr3.1:16527705-16527724 None:intergenic 50.0%
CGAATTGCTTTCGACCCAAC+TGG - chr3.1:16527615-16527634 None:intergenic 50.0%
GTTTAGCGGAGCTTCCAGTT+GGG + chr3.1:16527598-16527617 MS.gene79417:CDS 50.0%
TGTTTAGCGGAGCTTCCAGT+TGG + chr3.1:16527597-16527616 MS.gene79417:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 16527273 16527740 16527273 ID=MS.gene79417
chr3.1 mRNA 16527273 16527740 16527273 ID=MS.gene79417.t1;Parent=MS.gene79417
chr3.1 exon 16527273 16527740 16527273 ID=MS.gene79417.t1.exon1;Parent=MS.gene79417.t1
chr3.1 CDS 16527273 16527740 16527273 ID=cds.MS.gene79417.t1;Parent=MS.gene79417.t1
Gene Sequence

>MS.gene79417

ATGGAGCAACATCAACGTCGTACAAGAAGAAGAAGTGTGTTCAACGAAGACAACGACTCGGTCATGATTTTGGATGCTATTGATCTGAATCCTCCTCGTCTTTATCACACTCTTACAAGAAATCCGTCAAGAAGGTTCGCAAGAAATTTCATAAGATCTACAACGACTACTCCTTATGTTGATGGCCACTATATTTTTCATGTTATCAACCACATCAACGAGAATCATACTAGTAGAAGAAGTGGAGTCAGACATGTTTATCACAATCTTCCAAGAGTCAAAATTGAAGAAGGAATGAAGTGTGAAGCTTTGATGTGTTCTATTTGTTTAGCGGAGCTTCCAGTTGGGTCGAAAGCAATTCGGTTGTCGTGCTCGCATATCTACCACGATGAGTGTATCATGAAATGGTTAGATAGATCGAACACATGCCCTATGTGTCGTCAGAGCGTATGTCATGTTTCTTCATGA
Protein sequence

>MS.gene79417.t1

MEQHQRRTRRRSVFNEDNDSVMILDAIDLNPPRLYHTLTRNPSRRFARNFIRSTTTTPYVDGHYIFHVINHINENHTSRRSGVRHVYHNLPRVKIEEGMKCEALMCSICLAELPVGSKAIRLSCSHIYHDECIMKWLDRSNTCPMCRQSVCHVSS