AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene03512

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03512.t1 MTR_1g101810 68.595 121 38 0 14 134 54 174 1.13e-51 167
MS.gene03512.t1 MTR_1g101810 68.595 121 38 0 14 134 84 204 3.05e-51 166
MS.gene03512.t1 MTR_8g033070 56.637 113 41 2 24 128 80 192 2.12e-35 124
MS.gene03512.t1 MTR_1g038650 52.577 97 44 1 7 101 15 111 1.51e-27 102
MS.gene03512.t1 MTR_7g028160 49.091 110 50 3 21 124 47 156 2.52e-27 102
MS.gene03512.t1 MTR_4g108370 61.446 83 26 1 14 90 81 163 4.16e-27 104
MS.gene03512.t1 MTR_1g114380 65.714 70 24 0 21 90 30 99 1.21e-26 100
MS.gene03512.t1 MTR_2g006150 69.697 66 20 0 21 86 127 192 1.25e-26 103
MS.gene03512.t1 MTR_2g006150 69.697 66 20 0 21 86 127 192 1.38e-26 102
MS.gene03512.t1 MTR_5g039600 52.083 96 40 1 18 113 61 150 4.04e-26 101
MS.gene03512.t1 MTR_1g063870 62.162 74 27 1 13 86 39 111 1.24e-24 94.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03512.t1 AT2G45680 55.462 119 50 2 18 134 69 186 2.87e-37 130
MS.gene03512.t1 AT5G51910 53.676 136 53 3 5 130 33 168 1.96e-36 126
MS.gene03512.t1 AT5G51910 53.676 136 53 3 5 130 33 168 1.96e-36 126
MS.gene03512.t1 AT1G72010 69.118 68 21 0 19 86 58 125 1.40e-27 104
MS.gene03512.t1 AT5G08330 58.333 84 35 0 21 104 28 111 4.10e-27 101
MS.gene03512.t1 AT5G23280 60.759 79 29 1 8 86 25 101 4.22e-27 101
MS.gene03512.t1 AT1G69690 63.014 73 27 0 18 90 46 118 1.86e-26 101
MS.gene03512.t1 AT1G35560 67.647 68 22 0 21 88 52 119 7.28e-26 99.8
MS.gene03512.t1 AT3G47620 56.180 89 33 1 8 90 95 183 1.35e-25 100
MS.gene03512.t1 AT1G58100 66.667 66 22 0 21 86 57 122 2.62e-25 99.0
MS.gene03512.t1 AT3G27010 66.154 65 22 0 21 85 75 139 1.22e-24 96.3
MS.gene03512.t1 AT3G27010 66.154 65 22 0 21 85 75 139 1.22e-24 96.3
MS.gene03512.t1 AT5G41030 66.154 65 22 0 21 85 65 129 3.16e-24 93.6
MS.gene03512.t1 AT2G37000 69.492 59 18 0 24 82 43 101 1.31e-22 88.2
MS.gene03512.t1 AT3G45150 50.769 65 32 0 20 84 13 77 8.77e-18 75.1

Find 39 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCTCTTGCTTCTCTTACT+TGG 0.228575 6.2:+37935146 None:intergenic
CTCTCTTGCTTCTCTTACTT+GGG 0.240760 6.2:+37935147 None:intergenic
GTCAGAGGAAGGAAGGTTTA+AGG 0.282964 6.2:-37935210 MS.gene03512:CDS
AAATGGTGAATTTGTGGATT+TGG 0.330314 6.2:-37935120 MS.gene03512:CDS
CTTGGGGCGCCTAGGTCGTT+TGG 0.370345 6.2:+37935164 None:intergenic
TTTGATGGTTTCTTCGCTGC+TGG 0.377023 6.2:+37935425 None:intergenic
ATCATTGAAGCCACCGGCAC+TGG 0.391941 6.2:-37935254 MS.gene03512:CDS
GTTTAAGGTTCCAACATCAT+TGG 0.430449 6.2:-37935195 MS.gene03512:CDS
TCCTTCCTCTGACACGACTA+TGG 0.445353 6.2:+37935220 None:intergenic
ATCCTCTCTGCGCATGTTGT+CGG 0.457072 6.2:+37935356 None:intergenic
TTCTCTTACTTGGGGCGCCT+AGG 0.479327 6.2:+37935156 None:intergenic
AGAAACAATAAAGTGGTTGT+TGG 0.479416 6.2:-37935294 MS.gene03512:CDS
AGCTGCAAATGGTGAATTTG+TGG 0.493216 6.2:-37935126 MS.gene03512:CDS
TCCTCTGACACGACTATGGC+CGG 0.495293 6.2:+37935224 None:intergenic
TTTCAGTTGACAAGGGAGCT+TGG 0.499064 6.2:-37935332 MS.gene03512:CDS
AGAAGCAAGAGAGCTGCAAA+TGG 0.516567 6.2:-37935137 MS.gene03512:CDS
GGCCGGAGTTATTCCAGTGC+CGG 0.521737 6.2:+37935241 None:intergenic
GGTCTTGCCGCCAATGATGT+TGG 0.526688 6.2:+37935185 None:intergenic
TAAGGTTCCAACATCATTGG+CGG 0.534783 6.2:-37935192 MS.gene03512:CDS
GAGCTTGGTCACAAGTCTGC+TGG 0.540791 6.2:-37935317 MS.gene03512:CDS
TCTCTTGCTTCTCTTACTTG+GGG 0.552942 6.2:+37935148 None:intergenic
AGAGGATCTTTCAGTTGACA+AGG 0.553516 6.2:-37935340 MS.gene03512:CDS
CGGAGTTATTCCAGTGCCGG+TGG 0.561440 6.2:+37935244 None:intergenic
AGACCGTCGCAAGAAGGTGG+AGG 0.564734 6.2:-37935402 MS.gene03512:CDS
AAAAGACCGTCGCAAGAAGG+TGG 0.565336 6.2:-37935405 MS.gene03512:CDS
ATCAAAAGACCGTCGCAAGA+AGG 0.566989 6.2:-37935408 MS.gene03512:CDS
GCCATAGTCGTGTCAGAGGA+AGG 0.574007 6.2:-37935221 MS.gene03512:CDS
GTTGTCGGCAGTGTGACTCT+CGG 0.580156 6.2:+37935371 None:intergenic
CCGGTGGCTTCAATGATCGC+AGG 0.580206 6.2:+37935260 None:intergenic
CACCGGCACTGGAATAACTC+CGG 0.581627 6.2:-37935243 MS.gene03512:CDS
GTCCCTCCACCTTCTTGCGA+CGG 0.586255 6.2:+37935399 None:intergenic
CCTGCGATCATTGAAGCCAC+CGG 0.601370 6.2:-37935260 MS.gene03512:CDS
CTGCTGGAGAAACAATAAAG+TGG 0.601560 6.2:-37935301 MS.gene03512:CDS
GCGGCAAGACCAAACGACCT+AGG 0.604360 6.2:-37935173 MS.gene03512:CDS
TAGTCGTGTCAGAGGAAGGA+AGG 0.607914 6.2:-37935217 MS.gene03512:CDS
TCCGGCCATAGTCGTGTCAG+AGG 0.609297 6.2:-37935225 MS.gene03512:CDS
GACCGTCGCAAGAAGGTGGA+GGG 0.621793 6.2:-37935401 MS.gene03512:CDS
GAGGATCTTTCAGTTGACAA+GGG 0.630963 6.2:-37935339 MS.gene03512:CDS
TGCCGACAACATGCGCAGAG+AGG 0.683824 6.2:-37935358 MS.gene03512:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATGGTGAATTTGTGGATT+TGG - chr6.2:37935450-37935469 MS.gene03512:CDS 30.0%
AGAAACAATAAAGTGGTTGT+TGG - chr6.2:37935276-37935295 MS.gene03512:CDS 30.0%
! GTTTAAGGTTCCAACATCAT+TGG - chr6.2:37935375-37935394 MS.gene03512:CDS 35.0%
AGAGGATCTTTCAGTTGACA+AGG - chr6.2:37935230-37935249 MS.gene03512:CDS 40.0%
AGCTGCAAATGGTGAATTTG+TGG - chr6.2:37935444-37935463 MS.gene03512:CDS 40.0%
CTCTCTTGCTTCTCTTACTT+GGG + chr6.2:37935426-37935445 None:intergenic 40.0%
CTGCTGGAGAAACAATAAAG+TGG - chr6.2:37935269-37935288 MS.gene03512:CDS 40.0%
GAGGATCTTTCAGTTGACAA+GGG - chr6.2:37935231-37935250 MS.gene03512:CDS 40.0%
TAAGGTTCCAACATCATTGG+CGG - chr6.2:37935378-37935397 MS.gene03512:CDS 40.0%
TCTCTTGCTTCTCTTACTTG+GGG + chr6.2:37935425-37935444 None:intergenic 40.0%
AGAAGCAAGAGAGCTGCAAA+TGG - chr6.2:37935433-37935452 MS.gene03512:CDS 45.0%
ATCAAAAGACCGTCGCAAGA+AGG - chr6.2:37935162-37935181 MS.gene03512:CDS 45.0%
GCTCTCTTGCTTCTCTTACT+TGG + chr6.2:37935427-37935446 None:intergenic 45.0%
GTCAGAGGAAGGAAGGTTTA+AGG - chr6.2:37935360-37935379 MS.gene03512:CDS 45.0%
TTTCAGTTGACAAGGGAGCT+TGG - chr6.2:37935238-37935257 MS.gene03512:CDS 45.0%
! TTCTTGCGACGGTCTTTTGA+TGG + chr6.2:37935163-37935182 None:intergenic 45.0%
! TTTGATGGTTTCTTCGCTGC+TGG + chr6.2:37935148-37935167 None:intergenic 45.0%
AAAAGACCGTCGCAAGAAGG+TGG - chr6.2:37935165-37935184 MS.gene03512:CDS 50.0%
ATCCTCTCTGCGCATGTTGT+CGG + chr6.2:37935217-37935236 None:intergenic 50.0%
TAGTCGTGTCAGAGGAAGGA+AGG - chr6.2:37935353-37935372 MS.gene03512:CDS 50.0%
TCCTTCCTCTGACACGACTA+TGG + chr6.2:37935353-37935372 None:intergenic 50.0%
ATCATTGAAGCCACCGGCAC+TGG - chr6.2:37935316-37935335 MS.gene03512:CDS 55.0%
CCTGCGATCATTGAAGCCAC+CGG - chr6.2:37935310-37935329 MS.gene03512:CDS 55.0%
GAGCTTGGTCACAAGTCTGC+TGG - chr6.2:37935253-37935272 MS.gene03512:CDS 55.0%
GCCATAGTCGTGTCAGAGGA+AGG - chr6.2:37935349-37935368 MS.gene03512:CDS 55.0%
GGTCTTGCCGCCAATGATGT+TGG + chr6.2:37935388-37935407 None:intergenic 55.0%
GTTGTCGGCAGTGTGACTCT+CGG + chr6.2:37935202-37935221 None:intergenic 55.0%
TCCTCTGACACGACTATGGC+CGG + chr6.2:37935349-37935368 None:intergenic 55.0%
! CACCGGCACTGGAATAACTC+CGG - chr6.2:37935327-37935346 MS.gene03512:CDS 55.0%
! TTCTCTTACTTGGGGCGCCT+AGG + chr6.2:37935417-37935436 None:intergenic 55.0%
AGACCGTCGCAAGAAGGTGG+AGG - chr6.2:37935168-37935187 MS.gene03512:CDS 60.0%
CCGGTGGCTTCAATGATCGC+AGG + chr6.2:37935313-37935332 None:intergenic 60.0%
GACCGTCGCAAGAAGGTGGA+GGG - chr6.2:37935169-37935188 MS.gene03512:CDS 60.0%
GCGGCAAGACCAAACGACCT+AGG - chr6.2:37935397-37935416 MS.gene03512:CDS 60.0%
GGCCGGAGTTATTCCAGTGC+CGG + chr6.2:37935332-37935351 None:intergenic 60.0%
GTCCCTCCACCTTCTTGCGA+CGG + chr6.2:37935174-37935193 None:intergenic 60.0%
TCCGGCCATAGTCGTGTCAG+AGG - chr6.2:37935345-37935364 MS.gene03512:CDS 60.0%
TGCCGACAACATGCGCAGAG+AGG - chr6.2:37935212-37935231 MS.gene03512:CDS 60.0%
! CGGAGTTATTCCAGTGCCGG+TGG + chr6.2:37935329-37935348 None:intergenic 60.0%
! CTTGGGGCGCCTAGGTCGTT+TGG + chr6.2:37935409-37935428 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 37935094 37935498 37935094 ID=MS.gene03512
chr6.2 mRNA 37935094 37935498 37935094 ID=MS.gene03512.t1;Parent=MS.gene03512
chr6.2 exon 37935094 37935498 37935094 ID=MS.gene03512.t1.exon1;Parent=MS.gene03512.t1
chr6.2 CDS 37935094 37935498 37935094 ID=cds.MS.gene03512.t1;Parent=MS.gene03512.t1
Gene Sequence

>MS.gene03512

ATGGAACAACAAATGTTGAACATGCTAGAGCAAGATATGACAATGACAGTGCCAGCAGCGAAGAAACCATCAAAAGACCGTCGCAAGAAGGTGGAGGGACGTGTTCCGAGAGTCACACTGCCGACAACATGCGCAGAGAGGATCTTTCAGTTGACAAGGGAGCTTGGTCACAAGTCTGCTGGAGAAACAATAAAGTGGTTGTTGGAACAAGCTGAACCTGCGATCATTGAAGCCACCGGCACTGGAATAACTCCGGCCATAGTCGTGTCAGAGGAAGGAAGGTTTAAGGTTCCAACATCATTGGCGGCAAGACCAAACGACCTAGGCGCCCCAAGTAAGAGAAGCAAGAGAGCTGCAAATGGTGAATTTGTGGATTTGGATGATCAAGCTTCAATTGCTTCTTGA
Protein sequence

>MS.gene03512.t1

MEQQMLNMLEQDMTMTVPAAKKPSKDRRKKVEGRVPRVTLPTTCAERIFQLTRELGHKSAGETIKWLLEQAEPAIIEATGTGITPAIVVSEEGRFKVPTSLAARPNDLGAPSKRSKRAANGEFVDLDDQASIAS