AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67147

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67147.t1 MTR_1g019240 92.899 169 10 2 2 169 100 267 1.40e-110 315
MS.gene67147.t1 MTR_1g019890 86.207 116 14 2 48 162 1 115 4.57e-66 198
MS.gene67147.t1 MTR_5g017040 73.810 84 17 2 2 83 120 200 1.32e-30 114
MS.gene67147.t1 MTR_1g084980 57.895 76 32 0 2 77 477 552 9.29e-21 88.6
MS.gene67147.t1 MTR_7g099540 59.211 76 20 1 2 77 267 331 1.17e-20 88.2
MS.gene67147.t1 MTR_1g069155 59.211 76 20 1 2 77 332 396 1.53e-20 87.8
MS.gene67147.t1 MTR_7g099540 57.895 76 27 1 2 77 267 337 1.65e-20 87.8
MS.gene67147.t1 MTR_3g449770 65.079 63 20 1 2 64 324 384 4.25e-19 83.6
MS.gene67147.t1 MTR_7g111320 57.333 75 28 1 2 72 447 521 5.64e-17 77.8
MS.gene67147.t1 MTR_7g110810 66.667 48 16 0 2 49 217 264 1.62e-15 73.2
MS.gene67147.t1 MTR_4g131160 62.963 54 19 1 2 54 211 264 1.02e-14 70.9
MS.gene67147.t1 MTR_4g131160 62.963 54 19 1 2 54 214 267 1.14e-14 70.9
MS.gene67147.t1 MTR_5g005110 45.161 62 34 0 3 64 240 301 4.24e-14 68.9
MS.gene67147.t1 MTR_3g103030 45.161 62 34 0 3 64 245 306 2.35e-13 66.6
MS.gene67147.t1 MTR_1g106470 41.935 62 36 0 3 64 212 273 6.33e-13 65.5
MS.gene67147.t1 MTR_1g080890 58.333 48 20 0 2 49 208 255 1.13e-12 65.1
MS.gene67147.t1 MTR_1g106460 41.935 62 36 0 3 64 254 315 1.29e-12 64.7
MS.gene67147.t1 MTR_1g106480 53.061 49 23 0 1 49 83 131 1.43e-12 62.4
MS.gene67147.t1 MTR_1g018090 42.373 59 34 0 3 61 290 348 2.90e-11 60.8
MS.gene67147.t1 MTR_7g017320 34.328 134 70 6 2 123 59 186 6.04e-11 60.1
MS.gene67147.t1 MTR_7g017320 34.328 134 70 6 2 123 59 186 8.00e-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.gene67147.t1 AT4G36930 82.540 63 11 0 2 64 206 268 1.70e-29 111
MS.gene67147.t1 AT5G67110 76.471 68 16 0 2 69 102 169 1.06e-27 103
MS.gene67147.t1 AT1G09530 61.972 71 19 1 2 72 352 414 2.54e-21 90.1
MS.gene67147.t1 AT1G09530 61.972 71 19 1 2 72 352 414 2.54e-21 90.1
MS.gene67147.t1 AT1G09530 61.972 71 19 1 2 72 352 414 2.54e-21 90.1
MS.gene67147.t1 AT1G09530 61.972 71 19 1 2 72 352 414 2.54e-21 90.1
MS.gene67147.t1 AT1G09530 61.972 71 19 1 2 72 352 414 2.54e-21 90.1
MS.gene67147.t1 AT1G09530 61.972 71 19 1 2 72 352 414 2.54e-21 90.1
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 222 269 8.51e-18 79.7
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 222 269 8.51e-18 79.7
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 222 269 8.51e-18 79.7
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.30e-17 79.3
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.30e-17 79.3
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.30e-17 79.3
MS.gene67147.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.30e-17 79.3
MS.gene67147.t1 AT4G00050 70.833 48 14 0 2 49 120 167 1.61e-17 78.2
MS.gene67147.t1 AT4G00050 70.833 48 14 0 2 49 222 269 2.09e-17 78.6
MS.gene67147.t1 AT4G00050 70.833 48 14 0 2 49 222 269 2.36e-17 78.6
MS.gene67147.t1 AT2G46970 35.583 163 70 6 2 136 207 362 3.31e-17 78.2
MS.gene67147.t1 AT2G46970 35.583 163 70 6 2 136 216 371 3.47e-17 78.2
MS.gene67147.t1 AT2G46970 35.583 163 70 6 2 136 238 393 4.38e-17 77.8
MS.gene67147.t1 AT2G20180 70.213 47 14 0 2 48 293 339 7.67e-17 76.6
MS.gene67147.t1 AT2G24260 66.667 48 16 0 2 49 50 97 6.39e-16 73.2
MS.gene67147.t1 AT2G24260 66.667 48 16 0 2 49 153 200 1.60e-15 73.2
MS.gene67147.t1 AT5G58010 52.055 73 28 2 2 67 114 186 4.53e-15 71.2
MS.gene67147.t1 AT4G30980 62.963 54 19 1 2 54 145 198 5.18e-15 71.2
MS.gene67147.t1 AT4G30980 62.963 54 19 1 2 54 193 246 8.55e-15 71.2
MS.gene67147.t1 AT4G28800 55.556 63 27 1 2 64 264 325 1.05e-14 71.2
MS.gene67147.t1 AT4G28800 63.265 49 18 0 2 50 276 324 3.79e-14 69.3
MS.gene67147.t1 AT1G27740 46.774 62 33 0 3 64 183 244 7.38e-14 67.8
MS.gene67147.t1 AT4G28790 51.562 64 29 1 2 65 286 347 8.46e-14 68.6
MS.gene67147.t1 AT5G67110 72.340 47 13 0 23 69 101 147 1.60e-13 65.5
MS.gene67147.t1 AT4G28790 58.824 51 21 0 2 52 286 336 3.03e-13 66.6
MS.gene67147.t1 AT2G14760 43.750 64 36 0 1 64 264 327 3.29e-13 66.6
MS.gene67147.t1 AT3G59060 50.000 64 29 1 9 72 272 332 4.78e-13 66.2
MS.gene67147.t1 AT2G43010 54.688 64 24 1 9 72 273 331 4.98e-13 66.2
MS.gene67147.t1 AT3G59060 50.000 64 29 1 9 72 272 332 5.07e-13 66.2
MS.gene67147.t1 AT3G59060 50.000 64 29 1 9 72 272 332 5.07e-13 66.2
MS.gene67147.t1 AT3G59060 50.000 64 29 1 9 72 272 332 5.07e-13 66.2
MS.gene67147.t1 AT2G43010 54.688 64 24 1 9 72 273 331 5.66e-13 66.2
MS.gene67147.t1 AT4G33880 43.548 62 35 0 3 64 282 343 5.85e-13 65.9
MS.gene67147.t1 AT2G43010 54.688 64 24 1 9 72 280 338 5.88e-13 65.9
MS.gene67147.t1 AT2G43010 54.688 64 24 1 9 72 273 331 6.12e-13 65.9
MS.gene67147.t1 AT3G62090 55.556 54 24 0 2 55 180 233 7.99e-13 65.5
MS.gene67147.t1 AT2G43010 54.688 64 24 1 9 72 315 373 8.06e-13 65.9
MS.gene67147.t1 AT3G62090 55.556 54 24 0 2 55 197 250 9.27e-13 65.5
MS.gene67147.t1 AT4G28815 55.102 49 22 0 2 50 83 131 1.10e-12 63.9
MS.gene67147.t1 AT2G14760 41.935 62 36 0 3 64 253 314 2.37e-12 63.9
MS.gene67147.t1 AT4G28815 55.102 49 22 0 2 50 159 207 2.72e-12 63.5
MS.gene67147.t1 AT5G43175 40.323 62 37 0 3 64 148 209 8.16e-12 61.6
MS.gene67147.t1 AT1G02340 55.319 47 21 0 3 49 137 183 1.39e-11 61.6
MS.gene67147.t1 AT1G02340 55.319 47 21 0 3 49 144 190 1.45e-11 61.6

Find 34 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACATCACCTTGTTAGAATT+TGG 0.111527 1.3:+4219017 None:intergenic
CAACACGCCACAACTGATTA+TGG 0.256361 1.3:-4217776 MS.gene67147:CDS
ATTAATTCTGCAGATGTTAA+TGG 0.295896 1.3:-4218179 MS.gene67147:intron
TTTGACATGCTGCATTGTTC+TGG 0.325901 1.3:+4217980 None:intergenic
TTGCATCCAATGTCGTTATC+AGG 0.395094 1.3:-4218139 MS.gene67147:CDS
GCGAAATATTCATTGTTAGC+AGG 0.465887 1.3:+4218022 None:intergenic
AAGCTGCTTTAAATATTCAA+TGG 0.465998 1.3:+4218838 None:intergenic
AATCTTGATGAGGGTAATAG+TGG 0.470391 1.3:-4218076 MS.gene67147:CDS
TCAAACATGAACCTTAATAG+AGG 0.484571 1.3:+4217892 None:intergenic
ATTATGGATACAACAAGGAT+TGG 0.493878 1.3:-4217760 MS.gene67147:CDS
AATATTCATTGTTAGCAGGC+GGG 0.525894 1.3:+4218026 None:intergenic
TTTAATGAATGGAACAGAGA+AGG 0.528645 1.3:-4219085 None:intergenic
ATATTCATTGTTAGCAGGCG+GGG 0.547212 1.3:+4218027 None:intergenic
AATGAATGGAACAGAGAAGG+AGG 0.550832 1.3:-4219082 None:intergenic
CAGATGTTAATGGTGAGAAA+TGG 0.552941 1.3:-4218169 MS.gene67147:CDS
GTTTATGACACATCAGAAGA+AGG 0.583034 1.3:+4217730 None:intergenic
TGAGTTGTTCAATCTTGATG+AGG 0.583812 1.3:-4218086 MS.gene67147:CDS
AAATATTCATTGTTAGCAGG+CGG 0.584130 1.3:+4218025 None:intergenic
TCAATCTGTAATCATACCCT+CGG 0.590382 1.3:-4217957 MS.gene67147:CDS
TTTAATTCCAAATTCTAACA+AGG 0.599565 1.3:-4219024 MS.gene67147:intron
GAGTTGTTCAATCTTGATGA+GGG 0.608970 1.3:-4218085 MS.gene67147:CDS
TAAAGCTTCAATGTTAGATG+AGG 0.610444 1.3:-4218861 MS.gene67147:CDS
AGAGGTTTGAAAACTTGATG+AGG 0.611385 1.3:+4217910 None:intergenic
TCAGTTGTGGCGTGTTGTTG+TGG 0.617221 1.3:+4217782 None:intergenic
TGAAGCTAAATTTGTCGCCG+AGG 0.617569 1.3:+4217940 None:intergenic
GATCCTCCTGATAACGACAT+TGG 0.621566 1.3:+4218133 None:intergenic
GTTGTATCCATAATCAGTTG+TGG 0.628244 1.3:+4217769 None:intergenic
AGATTGAACAACTCAGTCTG+AGG 0.648355 1.3:+4218094 None:intergenic
GAAGCTAAATTTGTCGCCGA+GGG 0.651831 1.3:+4217941 None:intergenic
TCAGTCTGAGGAAACATCGT+AGG 0.657116 1.3:+4218106 None:intergenic
CTAACAATGAATATTTCGCA+CGG 0.657592 1.3:-4218018 MS.gene67147:CDS
CATCCAATGTCGTTATCAGG+AGG 0.666461 1.3:-4218136 MS.gene67147:CDS
TGTCGTTATCAGGAGGATCG+CGG 0.666590 1.3:-4218129 MS.gene67147:CDS
AACTGATTATGGATACAACA+AGG 0.695121 1.3:-4217765 MS.gene67147:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGTTAAATACTATAATGAA+TGG - chr1.3:4218052-4218071 MS.gene67147:CDS 15.0%
!! TATCTTATGTACATATTATA+AGG + chr1.3:4218233-4218252 None:intergenic 15.0%
!!! AAGATATTTTCAACTTATTT+TGG - chr1.3:4218247-4218266 MS.gene67147:intron 15.0%
!! ACTTATAGCTTATATGAAAA+CGG - chr1.3:4218299-4218318 MS.gene67147:intron 20.0%
!! TTTAATTCCAAATTCTAACA+AGG - chr1.3:4217785-4217804 MS.gene67147:CDS 20.0%
!!! TATTTTACTTCTTATTCTTG+TGG - chr1.3:4217883-4217902 MS.gene67147:intron 20.0%
! AATTTATCCAAAGTGACTAT+AGG - chr1.3:4218564-4218583 MS.gene67147:intron 25.0%
! ACTTATTTACGCTTATTTAC+TGG - chr1.3:4218161-4218180 MS.gene67147:CDS 25.0%
! ATTAATTCTGCAGATGTTAA+TGG - chr1.3:4218630-4218649 MS.gene67147:intron 25.0%
!! AAGCTGCTTTAAATATTCAA+TGG + chr1.3:4217974-4217993 None:intergenic 25.0%
!! AAGTTTTCAAACCTCTATTA+AGG - chr1.3:4218906-4218925 MS.gene67147:intron 25.0%
AAATATTCATTGTTAGCAGG+CGG + chr1.3:4218787-4218806 None:intergenic 30.0%
AACTGATTATGGATACAACA+AGG - chr1.3:4219044-4219063 MS.gene67147:CDS 30.0%
AAGTAACAATTAGTCCATGA+TGG + chr1.3:4218599-4218618 None:intergenic 30.0%
ATTATGGATACAACAAGGAT+TGG - chr1.3:4219049-4219068 MS.gene67147:CDS 30.0%
CTAACAATGAATATTTCGCA+CGG - chr1.3:4218791-4218810 MS.gene67147:intron 30.0%
TAAAGCTTCAATGTTAGATG+AGG - chr1.3:4217948-4217967 MS.gene67147:CDS 30.0%
TAAGCGTAAATAAGTCAATC+CGG + chr1.3:4218156-4218175 None:intergenic 30.0%
TACATCACCTTGTTAGAATT+TGG + chr1.3:4217795-4217814 None:intergenic 30.0%
TCAAACATGAACCTTAATAG+AGG + chr1.3:4218920-4218939 None:intergenic 30.0%
TTGACAATTTGACATGGTTA+AGG + chr1.3:4218100-4218119 None:intergenic 30.0%
! AGTGTTGTTGATGAAACAAA+AGG - chr1.3:4218119-4218138 MS.gene67147:CDS 30.0%
! ATTAGTCCATGATGGAATAA+TGG + chr1.3:4218591-4218610 None:intergenic 30.0%
!! AACTCTTATTTCTGATGTGA+AGG - chr1.3:4218994-4219013 MS.gene67147:intron 30.0%
AATATTCATTGTTAGCAGGC+GGG + chr1.3:4218786-4218805 None:intergenic 35.0%
AATCTTGATGAGGGTAATAG+TGG - chr1.3:4218733-4218752 MS.gene67147:intron 35.0%
AGAGGTTTGAAAACTTGATG+AGG + chr1.3:4218902-4218921 None:intergenic 35.0%
ATAGGTCCATTATTCCATCA+TGG - chr1.3:4218582-4218601 MS.gene67147:intron 35.0%
CAACACTTGACAATTTGACA+TGG + chr1.3:4218106-4218125 None:intergenic 35.0%
CAGATGTTAATGGTGAGAAA+TGG - chr1.3:4218640-4218659 MS.gene67147:intron 35.0%
GAGTTGTTCAATCTTGATGA+GGG - chr1.3:4218724-4218743 MS.gene67147:intron 35.0%
GATGATCCAAATTGAGTCAT+AGG + chr1.3:4218444-4218463 None:intergenic 35.0%
GCGAAATATTCATTGTTAGC+AGG + chr1.3:4218790-4218809 None:intergenic 35.0%
GTTGTATCCATAATCAGTTG+TGG + chr1.3:4219043-4219062 None:intergenic 35.0%
TCAATCTGTAATCATACCCT+CGG - chr1.3:4218852-4218871 MS.gene67147:CDS 35.0%
TGAGTTGTTCAATCTTGATG+AGG - chr1.3:4218723-4218742 MS.gene67147:intron 35.0%
! GTTGATGAAACAAAAGGCTA+AGG - chr1.3:4218125-4218144 MS.gene67147:CDS 35.0%
! TAATGGACCTATAGTCACTT+TGG + chr1.3:4218574-4218593 None:intergenic 35.0%
!!! CTTATTTTGGTAAGCTCTTC+AGG - chr1.3:4218260-4218279 MS.gene67147:intron 35.0%
ACAAAAGGCTAAGGTTTGTC+CGG - chr1.3:4218134-4218153 MS.gene67147:CDS 40.0%
ACTCGACCTATGACTCAATT+TGG - chr1.3:4218435-4218454 MS.gene67147:intron 40.0%
AGATTGAACAACTCAGTCTG+AGG + chr1.3:4218718-4218737 None:intergenic 40.0%
ATATTCATTGTTAGCAGGCG+GGG + chr1.3:4218785-4218804 None:intergenic 40.0%
ATTGAGTCATAGGTCGAGTT+TGG + chr1.3:4218434-4218453 None:intergenic 40.0%
CTGAGCTTCACAATTAGCTA+AGG - chr1.3:4218474-4218493 MS.gene67147:intron 40.0%
TTGCATCCAATGTCGTTATC+AGG - chr1.3:4218670-4218689 MS.gene67147:intron 40.0%
TTTGACATGCTGCATTGTTC+TGG + chr1.3:4218832-4218851 None:intergenic 40.0%
CAACACGCCACAACTGATTA+TGG - chr1.3:4219033-4219052 MS.gene67147:CDS 45.0%
CATAGGTCGAGTTTGGACTT+CGG + chr1.3:4218427-4218446 None:intergenic 45.0%
CATCCAATGTCGTTATCAGG+AGG - chr1.3:4218673-4218692 MS.gene67147:intron 45.0%
GAAGCTAAATTTGTCGCCGA+GGG + chr1.3:4218871-4218890 None:intergenic 45.0%
TCAGTCTGAGGAAACATCGT+AGG + chr1.3:4218706-4218725 None:intergenic 45.0%
TGAAGCTAAATTTGTCGCCG+AGG + chr1.3:4218872-4218891 None:intergenic 45.0%
! GATCCTCCTGATAACGACAT+TGG + chr1.3:4218679-4218698 None:intergenic 45.0%
TGTCGTTATCAGGAGGATCG+CGG - chr1.3:4218680-4218699 MS.gene67147:intron 50.0%
! TCAGTTGTGGCGTGTTGTTG+TGG + chr1.3:4219030-4219049 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 4217732 4219099 4217732 ID=MS.gene67147
chr1.3 mRNA 4217732 4219099 4217732 ID=MS.gene67147.t1;Parent=MS.gene67147
chr1.3 exon 4219025 4219099 4219025 ID=MS.gene67147.t1.exon1;Parent=MS.gene67147.t1
chr1.3 CDS 4219025 4219099 4219025 ID=cds.MS.gene67147.t1;Parent=MS.gene67147.t1
chr1.3 exon 4218823 4218888 4218823 ID=MS.gene67147.t1.exon2;Parent=MS.gene67147.t1
chr1.3 CDS 4218823 4218888 4218823 ID=cds.MS.gene67147.t1;Parent=MS.gene67147.t1
chr1.3 exon 4217904 4218188 4217904 ID=MS.gene67147.t1.exon3;Parent=MS.gene67147.t1
chr1.3 CDS 4217904 4218188 4217904 ID=cds.MS.gene67147.t1;Parent=MS.gene67147.t1
chr1.3 exon 4217732 4217815 4217732 ID=MS.gene67147.t1.exon4;Parent=MS.gene67147.t1
chr1.3 CDS 4217732 4217815 4217732 ID=cds.MS.gene67147.t1;Parent=MS.gene67147.t1
Gene Sequence

>MS.gene67147

ATGGAACAGAGAAGGAGGAGTAAGATTAATGAGAAATTGAAAGCTTTACAAAATTTAATTCCAAATTCTAACAAGGTGATGTATTTATGTAAATTTTCTAGCATCTTATCTCTTTTTATACTTTATTTTAATTTATCTTACAAAATATTATTATTTTACTTCTTATTCTTGTGGATGAGTGAGTAATTTTGTGTTTGTTTATTTTTAATAGACAGATAAAGCTTCAATGTTAGATGAGGCCATTGAATATTTAAAGCAGCTTCAGCTTCAAGTGCAAGTGAGTTTTCTTTCACTTAAGATGAACAATGAAACTCTAAAACATGTTAAATACTATAATGAATGGTTTTTTTGTGCAATACATTTGTCCTTAACCATGTCAAATTGTCAAGTGTTGTTGATGAAACAAAAGGCTAAGGTTTGTCCGGATTGACTTATTTACGCTTATTTACTGGTATAAGCACTTGTGAGCGTGTTTCAGAGAGCTTATAGTTAGAAACACCTTATAATATGTACATAAGATATTTTCAACTTATTTTGGTAAGCTCTTCAGGCTAGCTTAAGAAAACAACTTATAGCTTATATGAAAACGGTTTAAATTTATATCATCTTTTGTTATAGAAACAGTTTATATGTGAACACTTATATGTAAGTGTTTATGCATAATCTCATAAACACTTAATCAAATCGTTTATCCGAAGTCCAAACTCGACCTATGACTCAATTTGGATCATCTTCTAGCTTACTGAGCTTCACAATTAGCTAAGGAAGAAATTAAATAAAAGAGCTTCTTGATTCTTTAAATATTTATTTTCTCTGTGAATGTTTCTTGAAAAATTTATCCAAAGTGACTATAGGTCCATTATTCCATCATGGACTAATTGTTACTTTAGTGTTTGTGATTAATTCTGCAGATGTTAATGGTGAGAAATGGTTATAGCTTGCATCCAATGTCGTTATCAGGAGGATCGCGGCCTACGATGTTTCCTCAGACTGAGTTGTTCAATCTTGATGAGGGTAATAGTGGATTTCACAATTCTAACAATGCAATTACCCCGCCTGCTAACAATGAATATTTCGCACGGCAAGCTTTTAGTTTTCCAGAACAATGCAGCATGTCAAATCAATCTGTAATCATACCCTCGGCGACAAATTTAGCTTCATTTGATACCTCATCAAGTTTTCAAACCTCTATTAAGGTTCATGTTTGATACAAAATAATTTTAATGAACAGTTACTTCATTTATTTGTTTATTGAACTTAACAACTCTTATTTCTGATGTGAAGGATGTTTTCAGCCACAACAACACGCCACAACTGATTATGGATACAACAAGGATTGGAAAAACTCCTTCTTCTGATGTGTCATAA
Protein sequence

>MS.gene67147.t1

MEQRRRSKINEKLKALQNLIPNSNKTDKASMLDEAIEYLKQLQLQVQMLMVRNGYSLHPMSLSGGSRPTMFPQTELFNLDEGNSGFHNSNNAITPPANNEYFARQAFSFPEQCSMSNQSVIIPSATNLASFDTSSSFQTSIKDVFSHNNTPQLIMDTTRIGKTPSSDVS