AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035703

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035703.t1 MTR_4g128340 97.656 128 3 0 1 128 42 169 1.26e-90 259
MS.gene035703.t1 MTR_2g104900 35.632 174 62 6 1 128 78 247 1.46e-18 78.6
MS.gene035703.t1 MTR_1g033340 35.443 158 66 6 4 128 97 251 2.70e-18 77.8
MS.gene035703.t1 MTR_5g077370 67.273 55 15 1 4 55 87 141 7.45e-18 76.6
MS.gene035703.t1 MTR_3g065020 64.286 56 19 1 3 58 85 139 4.77e-17 74.3
MS.gene035703.t1 MTR_4g006575 67.347 49 14 1 1 47 64 112 1.33e-16 73.2
MS.gene035703.t1 MTR_4g006600 67.347 49 14 1 1 47 64 112 1.33e-16 73.2
MS.gene035703.t1 MTR_1g013130 64.583 48 17 0 1 48 91 138 2.30e-16 73.2
MS.gene035703.t1 MTR_3g106230 73.684 38 10 0 2 39 70 107 8.16e-15 68.2
MS.gene035703.t1 MTR_7g086860 74.286 35 9 0 4 38 30 64 4.09e-13 62.4
MS.gene035703.t1 MTR_1g107055 70.588 34 10 0 4 37 64 97 4.49e-12 60.5
MS.gene035703.t1 MTR_7g083210 75.758 33 8 0 4 36 39 71 5.93e-12 60.1
MS.gene035703.t1 MTR_7g022250 29.936 157 78 5 3 128 84 239 1.84e-11 59.3
MS.gene035703.t1 MTR_8g466760 61.538 39 15 0 2 40 96 134 3.43e-11 59.3
MS.gene035703.t1 MTR_7g028915 31.159 138 78 3 3 128 80 212 4.57e-11 58.2
MS.gene035703.t1 MTR_5g008390 57.500 40 17 0 1 40 11 50 8.42e-11 55.1
MS.gene035703.t1 MTR_3g009410 61.538 39 15 0 2 40 96 134 9.02e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035703.t1 AT5G57520 47.287 129 43 6 1 128 46 150 1.89e-22 86.7
MS.gene035703.t1 AT5G10970 45.714 105 46 4 2 106 100 193 2.14e-19 81.3
MS.gene035703.t1 AT5G25160 54.545 88 25 5 2 85 57 133 9.75e-19 79.0
MS.gene035703.t1 AT1G66140 75.000 44 11 0 1 44 80 123 2.20e-17 75.9
MS.gene035703.t1 AT1G80730 54.054 74 30 1 2 71 64 137 4.82e-17 74.3
MS.gene035703.t1 AT1G24625 78.947 38 8 0 4 41 57 94 3.54e-16 71.6
MS.gene035703.t1 AT5G14010 31.783 129 81 2 4 128 36 161 5.43e-13 62.4
MS.gene035703.t1 AT5G01860 53.061 49 19 1 4 52 65 109 2.92e-12 61.2

Find 32 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGGAAGGTGTGGCTTCT+TGG 0.263748 8.4:-6006062 MS.gene035703:CDS
TTTCAAGCTTGTGAGCATTT+TGG 0.263848 8.4:+6006280 None:intergenic
GAGAAGTTTGAAGGGTGTTC+TGG 0.318303 8.4:+6006195 None:intergenic
GTTTAGTTATGGAAATTCTA+AGG 0.345981 8.4:-6006079 MS.gene035703:CDS
TTCTCTACTAATTACCATCT+TGG 0.347245 8.4:-6006177 MS.gene035703:CDS
AGAAAAGATCAGTTTAGTTA+TGG 0.369153 8.4:-6006090 MS.gene035703:CDS
TCATCACATGACCTTGTCTA+TGG 0.389808 8.4:+6006124 None:intergenic
GCCAACTTGATTTGTCCTTA+AGG 0.395324 8.4:-6005993 MS.gene035703:CDS
CATTTATAATCAGAGCCTTA+AGG 0.403759 8.4:+6005978 None:intergenic
TAGTACTTCTGAAAATGTTC+AGG 0.411786 8.4:-6006025 MS.gene035703:CDS
AGGTGTGGCTTCTTGGTCAA+GGG 0.430940 8.4:-6006055 MS.gene035703:CDS
TAATTAGTAGAGAAGTTTGA+AGG 0.473837 8.4:+6006186 None:intergenic
AAGGTGTGGCTTCTTGGTCA+AGG 0.476344 8.4:-6006056 MS.gene035703:CDS
AGTTATGGAAATTCTAAGGA+AGG 0.495820 8.4:-6006075 MS.gene035703:CDS
GGACACTTGCAAAGAAGAGT+AGG 0.507806 8.4:-6006257 MS.gene035703:CDS
AAAATGCTCACAAGCTTGAA+AGG 0.509103 8.4:-6006278 MS.gene035703:CDS
AATTACCATCTTGGAAGTCA+TGG 0.516260 8.4:-6006168 MS.gene035703:CDS
CATTTCCATGACTTCCAAGA+TGG 0.523980 8.4:+6006163 None:intergenic
AATTAGTAGAGAAGTTTGAA+GGG 0.551396 8.4:+6006187 None:intergenic
TGGAAATTCTAAGGAAGGTG+TGG 0.568793 8.4:-6006070 MS.gene035703:CDS
GCCTTAAGGACAAATCAAGT+TGG 0.573380 8.4:+6005992 None:intergenic
GACACTTGCAAAGAAGAGTA+GGG 0.576451 8.4:-6006256 MS.gene035703:CDS
CATCTTCATCTATGGAGCAA+AGG 0.583885 8.4:-6006362 None:intergenic
GGTGTGGCTTCTTGGTCAAG+GGG 0.586234 8.4:-6006054 MS.gene035703:CDS
TATAGCTCTCAAGCTTTGGG+AGG 0.587863 8.4:-6006306 MS.gene035703:CDS
TACTTCTGAAAATGTTCAGG+AGG 0.608835 8.4:-6006022 MS.gene035703:CDS
TTCAGCATAAGAAGATTGCA+TGG 0.617834 8.4:+6006221 None:intergenic
ATAGACAAGGTCATGTGATG+AGG 0.622400 8.4:-6006122 MS.gene035703:CDS
CTTGACAACAACCATAGACA+AGG 0.646735 8.4:-6006135 MS.gene035703:CDS
CAAGGTCATGTGATGAGGCA+TGG 0.652675 8.4:-6006117 MS.gene035703:CDS
GGTCATGTGATGAGGCATGG+TGG 0.708373 8.4:-6006114 MS.gene035703:CDS
AGCATAAGAAGATTGCATGG+CGG 0.769594 8.4:+6006224 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTAGTAGAGAAGTTTGAA+GGG + chr8.4:6006154-6006173 None:intergenic 25.0%
! AGAAAAGATCAGTTTAGTTA+TGG - chr8.4:6006248-6006267 MS.gene035703:CDS 25.0%
! GTTTAGTTATGGAAATTCTA+AGG - chr8.4:6006259-6006278 MS.gene035703:CDS 25.0%
! TAATTAGTAGAGAAGTTTGA+AGG + chr8.4:6006155-6006174 None:intergenic 25.0%
TTCTCTACTAATTACCATCT+TGG - chr8.4:6006161-6006180 MS.gene035703:CDS 30.0%
! AGTTATGGAAATTCTAAGGA+AGG - chr8.4:6006263-6006282 MS.gene035703:CDS 30.0%
! TAGTACTTCTGAAAATGTTC+AGG - chr8.4:6006313-6006332 MS.gene035703:CDS 30.0%
! TTTTATAGCTCTCAAGCTTT+GGG - chr8.4:6006029-6006048 MS.gene035703:CDS 30.0%
AAAATGCTCACAAGCTTGAA+AGG - chr8.4:6006060-6006079 MS.gene035703:CDS 35.0%
AATTACCATCTTGGAAGTCA+TGG - chr8.4:6006170-6006189 MS.gene035703:CDS 35.0%
TTCAGCATAAGAAGATTGCA+TGG + chr8.4:6006120-6006139 None:intergenic 35.0%
! GTTTTATAGCTCTCAAGCTT+TGG - chr8.4:6006028-6006047 MS.gene035703:CDS 35.0%
! TACTTCTGAAAATGTTCAGG+AGG - chr8.4:6006316-6006335 MS.gene035703:CDS 35.0%
! TTTCAAGCTTGTGAGCATTT+TGG + chr8.4:6006061-6006080 None:intergenic 35.0%
AGCATAAGAAGATTGCATGG+CGG + chr8.4:6006117-6006136 None:intergenic 40.0%
ATAGACAAGGTCATGTGATG+AGG - chr8.4:6006216-6006235 MS.gene035703:CDS 40.0%
CATTTCCATGACTTCCAAGA+TGG + chr8.4:6006178-6006197 None:intergenic 40.0%
CTTGACAACAACCATAGACA+AGG - chr8.4:6006203-6006222 MS.gene035703:CDS 40.0%
GACACTTGCAAAGAAGAGTA+GGG - chr8.4:6006082-6006101 MS.gene035703:CDS 40.0%
GCCTTAAGGACAAATCAAGT+TGG + chr8.4:6006349-6006368 None:intergenic 40.0%
TCATCACATGACCTTGTCTA+TGG + chr8.4:6006217-6006236 None:intergenic 40.0%
! TGGAAATTCTAAGGAAGGTG+TGG - chr8.4:6006268-6006287 MS.gene035703:CDS 40.0%
!! GCCAACTTGATTTGTCCTTA+AGG - chr8.4:6006345-6006364 MS.gene035703:CDS 40.0%
GGACACTTGCAAAGAAGAGT+AGG - chr8.4:6006081-6006100 MS.gene035703:CDS 45.0%
!! GAGAAGTTTGAAGGGTGTTC+TGG + chr8.4:6006146-6006165 None:intergenic 45.0%
!! TATAGCTCTCAAGCTTTGGG+AGG - chr8.4:6006032-6006051 MS.gene035703:CDS 45.0%
AAGGTGTGGCTTCTTGGTCA+AGG - chr8.4:6006282-6006301 MS.gene035703:CDS 50.0%
AGGTGTGGCTTCTTGGTCAA+GGG - chr8.4:6006283-6006302 MS.gene035703:CDS 50.0%
CAAGGTCATGTGATGAGGCA+TGG - chr8.4:6006221-6006240 MS.gene035703:CDS 50.0%
! CTAAGGAAGGTGTGGCTTCT+TGG - chr8.4:6006276-6006295 MS.gene035703:CDS 50.0%
GGTCATGTGATGAGGCATGG+TGG - chr8.4:6006224-6006243 MS.gene035703:CDS 55.0%
GGTGTGGCTTCTTGGTCAAG+GGG - chr8.4:6006284-6006303 MS.gene035703:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 6005987 6006373 6005987 ID=MS.gene035703
chr8.4 mRNA 6005987 6006373 6005987 ID=MS.gene035703.t1;Parent=MS.gene035703
chr8.4 exon 6005987 6006373 6005987 ID=MS.gene035703.t1.exon1;Parent=MS.gene035703.t1
chr8.4 CDS 6005987 6006373 6005987 ID=cds.MS.gene035703.t1;Parent=MS.gene035703.t1
Gene Sequence

>MS.gene035703

ATGGAGCAAAGGATATTCTCATGCAATTATTGTCAGAGAAAGTTTTATAGCTCTCAAGCTTTGGGAGGACACCAAAATGCTCACAAGCTTGAAAGGACACTTGCAAAGAAGAGTAGGGAGATGAGTTCCGCCATGCAATCTTCTTATGCTGAATTACCAGAACACCCTTCAAACTTCTCTACTAATTACCATCTTGGAAGTCATGGAAATGCTCATCTTGACAACAACCATAGACAAGGTCATGTGATGAGGCATGGTGGAAGAAAAGATCAGTTTAGTTATGGAAATTCTAAGGAAGGTGTGGCTTCTTGGTCAAGGGGTTATAATAGTACTTCTGAAAATGTTCAGGAGGATATTAGCCAACTTGATTTGTCCTTAAGGCTCTGA
Protein sequence

>MS.gene035703.t1

MEQRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAKKSREMSSAMQSSYAELPEHPSNFSTNYHLGSHGNAHLDNNHRQGHVMRHGGRKDQFSYGNSKEGVASWSRGYNSTSENVQEDISQLDLSLRL