AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071360

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071360.t1 MTR_5g006430 97.222 108 3 0 1 108 1 108 1.46e-72 215
MS.gene071360.t1 MTR_5g006460 64.085 142 37 3 57 196 64 193 2.59e-49 159
MS.gene071360.t1 MTR_5g006510 76.415 106 23 1 91 196 88 191 3.10e-47 153
MS.gene071360.t1 MTR_5g006470 60.000 140 41 4 57 196 64 188 1.05e-44 147
MS.gene071360.t1 MTR_1g103550 78.824 85 17 1 1 84 1 85 8.32e-43 140
MS.gene071360.t1 MTR_5g006450 55.714 140 49 2 57 196 64 190 2.30e-41 138
MS.gene071360.t1 MTR_5g006520 56.429 140 48 4 57 196 1782 1908 4.10e-40 145
MS.gene071360.t1 MTR_1g103110 69.318 88 27 0 109 196 103 190 7.22e-39 132
MS.gene071360.t1 MTR_1g103150 65.909 88 30 0 109 196 103 190 7.54e-36 124
MS.gene071360.t1 MTR_8g021190 49.038 104 45 2 2 97 30 133 5.42e-28 103
MS.gene071360.t1 MTR_7g114410 52.874 87 41 0 107 193 85 171 6.16e-24 93.6
MS.gene071360.t1 MTR_3g463610 54.023 87 40 0 107 193 87 173 2.10e-23 93.2
MS.gene071360.t1 MTR_7g024780 50.575 87 43 0 107 193 84 170 6.08e-23 90.9
MS.gene071360.t1 MTR_7g024760 48.276 87 45 0 107 193 83 169 1.41e-22 89.7
MS.gene071360.t1 MTR_3g105340 47.945 73 38 0 1 73 10 82 2.30e-22 88.2
MS.gene071360.t1 MTR_7g024765 46.739 92 49 0 102 193 78 169 8.43e-22 87.8
MS.gene071360.t1 MTR_4g125010 47.222 72 38 0 1 72 23 94 1.51e-21 86.7
MS.gene071360.t1 MTR_4g125030 47.297 74 39 0 1 74 21 94 1.01e-19 80.9
MS.gene071360.t1 MTR_3g109860 42.222 90 48 1 2 87 36 125 1.11e-19 81.6
MS.gene071360.t1 MTR_8g013990 44.944 89 40 3 2 84 62 147 4.25e-19 81.3
MS.gene071360.t1 MTR_7g114410 52.778 72 34 0 107 178 85 156 1.89e-18 78.6
MS.gene071360.t1 MTR_2g101140 43.678 87 44 2 2 84 62 147 5.26e-18 78.6
MS.gene071360.t1 MTR_1g014930 36.283 113 59 3 5 104 19 131 2.28e-15 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071360.t1 AT3G22540 68.519 108 30 3 1 105 1 107 3.28e-42 138
MS.gene071360.t1 AT4G14819 64.151 106 35 2 1 105 1 104 7.75e-39 129
MS.gene071360.t1 AT2G32030 65.882 85 29 0 109 193 101 185 3.62e-33 117
MS.gene071360.t1 AT2G32020 65.882 85 29 0 109 193 96 180 1.72e-32 115
MS.gene071360.t1 AT1G72510 48.352 91 42 1 2 87 33 123 1.90e-23 92.0
MS.gene071360.t1 AT1G72510 48.352 91 42 1 2 87 33 123 1.90e-23 92.0
MS.gene071360.t1 AT3G22560 41.026 117 60 2 85 193 57 172 6.54e-21 85.5
MS.gene071360.t1 AT5G20670 39.423 104 52 2 3 95 23 126 8.49e-21 84.7
MS.gene071360.t1 AT1G79770 43.119 109 57 2 1 105 50 157 1.62e-20 84.3
MS.gene071360.t1 AT5G25840 39.048 105 55 2 2 97 42 146 3.72e-19 80.9
MS.gene071360.t1 AT1G54095 36.290 124 73 4 2 120 15 137 1.17e-15 71.2
MS.gene071360.t1 AT2G09970 39.130 92 50 2 2 87 33 124 4.70e-15 70.1
MS.gene071360.t1 AT2G25780 38.202 89 48 3 7 89 40 127 6.60e-13 63.9

Find 36 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGTATGTATTCTTTAA+AGG 0.161729 2.1:-34167347 MS.gene071360:CDS
TCCTAAGAACTCCCTCCTTT+TGG 0.260104 2.1:+34167366 None:intergenic
AGTCAAAATTTGATGGAAAA+TGG 0.285752 2.1:-34167977 MS.gene071360:CDS
ATGTTCTAGGGTCTAAATAC+TGG 0.295533 2.1:-34167526 MS.gene071360:CDS
GCAGAAATTGGGTATGTTCT+AGG 0.308658 2.1:-34167539 MS.gene071360:intron
GTTAGAGATGAAGCTATTAG+AGG 0.393393 2.1:-34167930 MS.gene071360:CDS
TCCAAAAGGAGGGAGTTCTT+AGG 0.394554 2.1:-34167367 MS.gene071360:CDS
GGGTCTAAATACTGGGGTAA+AGG 0.408523 2.1:-34167518 MS.gene071360:CDS
CACGTTTGCTGTGAAACAAA+TGG 0.422199 2.1:-34167489 MS.gene071360:CDS
GGTCTAAATACTGGGGTAAA+GGG 0.432496 2.1:-34167517 MS.gene071360:CDS
CTTGTTGATGTGGATAATGT+TGG 0.439455 2.1:-34167419 MS.gene071360:CDS
CAAAGAGTGCTTGAGAAAGT+TGG 0.446874 2.1:-34167392 MS.gene071360:CDS
GAATCAAATGTGCAGAAATT+GGG 0.456981 2.1:-34167550 MS.gene071360:intron
GAAGTGAAGTCAAAATTTGA+TGG 0.458617 2.1:-34167984 MS.gene071360:CDS
TGCTGTGAAACAAATGGTTA+AGG 0.473285 2.1:-34167483 MS.gene071360:CDS
TTTGATGGAAAATGGTTATG+TGG 0.481592 2.1:-34167969 MS.gene071360:CDS
TGAGAAAGTTGGTTTCCAAA+AGG 0.498958 2.1:-34167381 MS.gene071360:CDS
CAGAAATTGGGTATGTTCTA+GGG 0.510753 2.1:-34167538 MS.gene071360:CDS
TGTTCTAGGGTCTAAATACT+GGG 0.513003 2.1:-34167525 MS.gene071360:CDS
AACTTTGTTGACCTTCTCCT+AGG 0.514865 2.1:+34167801 None:intergenic
TTGATGGAAAATGGTTATGT+GGG 0.531455 2.1:-34167968 MS.gene071360:CDS
TTGTTGATGTGGATAATGTT+GGG 0.535303 2.1:-34167418 MS.gene071360:CDS
GAAAGTTGGTTTCCAAAAGG+AGG 0.543592 2.1:-34167378 MS.gene071360:CDS
TGAGTGTTGCGGCTTAAAAG+AGG 0.545307 2.1:-34168030 MS.gene071360:CDS
GCTTGAAGCTCTTGTTGATG+TGG 0.580383 2.1:-34167429 MS.gene071360:CDS
CCATCAGCAACACAAACTGC+AGG 0.594058 2.1:+34167837 None:intergenic
AAAGTTGGTTTCCAAAAGGA+GGG 0.596054 2.1:-34167377 MS.gene071360:CDS
ATGGTATGAGACAGATACCT+AGG 0.596540 2.1:-34167818 MS.gene071360:CDS
TTAGAGATGAAGCTATTAGA+GGG 0.599426 2.1:-34167929 MS.gene071360:CDS
TCAACTTCAACTTCCCAAGT+AGG 0.601381 2.1:-34167750 MS.gene071360:intron
CCTGCAGTTTGTGTTGCTGA+TGG 0.605550 2.1:-34167837 MS.gene071360:CDS
TGAGACAGATACCTAGGAGA+AGG 0.609498 2.1:-34167812 MS.gene071360:CDS
TCAGCTAAGTGTGAGTGTTG+CGG 0.613560 2.1:-34168041 MS.gene071360:CDS
CATTTGTTTCACAGCAAACG+TGG 0.659491 2.1:+34167490 None:intergenic
CATCAAACAAACACAGTACG+AGG 0.670845 2.1:-34167773 MS.gene071360:CDS
GTTCTAGGGTCTAAATACTG+GGG 0.712321 2.1:-34167524 MS.gene071360:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGCTTACTATTTAAAAA+AGG + chr2.1:34167711-34167730 None:intergenic 15.0%
!!! ATTCATTGTATTTTCATACT+TGG - chr2.1:34167889-34167908 MS.gene071360:CDS 20.0%
! AGTCAAAATTTGATGGAAAA+TGG - chr2.1:34167368-34167387 MS.gene071360:CDS 25.0%
! TATTTCAACCATACCAAAAA+CGG + chr2.1:34167676-34167695 None:intergenic 25.0%
!! AGGAAGTATGTATTCTTTAA+AGG - chr2.1:34167998-34168017 MS.gene071360:CDS 25.0%
!! TTGTATTTTCATACTTGGAA+AGG - chr2.1:34167894-34167913 MS.gene071360:CDS 25.0%
AGAATCAAATGTGCAGAAAT+TGG - chr2.1:34167794-34167813 MS.gene071360:CDS 30.0%
GAAGTGAAGTCAAAATTTGA+TGG - chr2.1:34167361-34167380 MS.gene071360:CDS 30.0%
GAATAAAAAACAGAGGAGAT+TGG - chr2.1:34167622-34167641 MS.gene071360:intron 30.0%
GAATCAAATGTGCAGAAATT+GGG - chr2.1:34167795-34167814 MS.gene071360:CDS 30.0%
TTAGAGATGAAGCTATTAGA+GGG - chr2.1:34167416-34167435 MS.gene071360:CDS 30.0%
TTGATGGAAAATGGTTATGT+GGG - chr2.1:34167377-34167396 MS.gene071360:CDS 30.0%
TTGTTGATGTGGATAATGTT+GGG - chr2.1:34167927-34167946 MS.gene071360:CDS 30.0%
TTTGATGGAAAATGGTTATG+TGG - chr2.1:34167376-34167395 MS.gene071360:CDS 30.0%
! TTTTTATTCACCACCTACTT+GGG + chr2.1:34167611-34167630 None:intergenic 30.0%
!!! TTTTTTATTCACCACCTACT+TGG + chr2.1:34167612-34167631 None:intergenic 30.0%
AAAAACAGAGGAGATTGGAA+AGG - chr2.1:34167627-34167646 MS.gene071360:intron 35.0%
ACCCAATAGCATGATCATTA+TGG + chr2.1:34167736-34167755 None:intergenic 35.0%
AGGGAAAAAGACATTTGCAA+TGG - chr2.1:34167435-34167454 MS.gene071360:CDS 35.0%
AGGTGGTGAATAAAAAACAG+AGG - chr2.1:34167615-34167634 MS.gene071360:intron 35.0%
CAGAAATTGGGTATGTTCTA+GGG - chr2.1:34167807-34167826 MS.gene071360:CDS 35.0%
CTTGTTGATGTGGATAATGT+TGG - chr2.1:34167926-34167945 MS.gene071360:CDS 35.0%
GCCATAATGATCATGCTATT+GGG - chr2.1:34167732-34167751 MS.gene071360:intron 35.0%
GTTAGAGATGAAGCTATTAG+AGG - chr2.1:34167415-34167434 MS.gene071360:CDS 35.0%
TGCCATAATGATCATGCTAT+TGG - chr2.1:34167731-34167750 MS.gene071360:intron 35.0%
TGCTGTGAAACAAATGGTTA+AGG - chr2.1:34167862-34167881 MS.gene071360:CDS 35.0%
! AAAGTTGGTTTCCAAAAGGA+GGG - chr2.1:34167968-34167987 MS.gene071360:CDS 35.0%
! TGAGAAAGTTGGTTTCCAAA+AGG - chr2.1:34167964-34167983 MS.gene071360:CDS 35.0%
!! ATGTTCTAGGGTCTAAATAC+TGG - chr2.1:34167819-34167838 MS.gene071360:CDS 35.0%
!! TGTTCTAGGGTCTAAATACT+GGG - chr2.1:34167820-34167839 MS.gene071360:CDS 35.0%
AACTTTGTTGACCTTCTCCT+AGG + chr2.1:34167547-34167566 None:intergenic 40.0%
ATGGTATGAGACAGATACCT+AGG - chr2.1:34167527-34167546 MS.gene071360:CDS 40.0%
CATCAAACAAACACAGTACG+AGG - chr2.1:34167572-34167591 MS.gene071360:intron 40.0%
CATTTGTTTCACAGCAAACG+TGG + chr2.1:34167858-34167877 None:intergenic 40.0%
GAGATTGGAAAGGTTGGAAT+AGG - chr2.1:34167637-34167656 MS.gene071360:intron 40.0%
GCAGAAATTGGGTATGTTCT+AGG - chr2.1:34167806-34167825 MS.gene071360:CDS 40.0%
GGTCTAAATACTGGGGTAAA+GGG - chr2.1:34167828-34167847 MS.gene071360:CDS 40.0%
TCAACTTCAACTTCCCAAGT+AGG - chr2.1:34167595-34167614 MS.gene071360:intron 40.0%
! GAAAGTTGGTTTCCAAAAGG+AGG - chr2.1:34167967-34167986 MS.gene071360:CDS 40.0%
!! CAAAGAGTGCTTGAGAAAGT+TGG - chr2.1:34167953-34167972 MS.gene071360:CDS 40.0%
!! CACGTTTGCTGTGAAACAAA+TGG - chr2.1:34167856-34167875 MS.gene071360:CDS 40.0%
!! GTTCTAGGGTCTAAATACTG+GGG - chr2.1:34167821-34167840 MS.gene071360:CDS 40.0%
ACAGAGGAGATTGGAAAGGT+TGG - chr2.1:34167631-34167650 MS.gene071360:intron 45.0%
ACTTCAACTTCCCAAGTAGG+TGG - chr2.1:34167598-34167617 MS.gene071360:intron 45.0%
CCATACCAAAAACGGAGTGA+TGG + chr2.1:34167668-34167687 None:intergenic 45.0%
GCTTGAAGCTCTTGTTGATG+TGG - chr2.1:34167916-34167935 MS.gene071360:CDS 45.0%
GGGTCTAAATACTGGGGTAA+AGG - chr2.1:34167827-34167846 MS.gene071360:CDS 45.0%
TCCAAAAGGAGGGAGTTCTT+AGG - chr2.1:34167978-34167997 MS.gene071360:CDS 45.0%
TGAGACAGATACCTAGGAGA+AGG - chr2.1:34167533-34167552 MS.gene071360:CDS 45.0%
! TCAGCTAAGTGTGAGTGTTG+CGG - chr2.1:34167304-34167323 MS.gene071360:CDS 45.0%
! TCCTAAGAACTCCCTCCTTT+TGG + chr2.1:34167982-34168001 None:intergenic 45.0%
! TGAGTGTTGCGGCTTAAAAG+AGG - chr2.1:34167315-34167334 MS.gene071360:CDS 45.0%
!!! CCATCACTCCGTTTTTGGTA+TGG - chr2.1:34167665-34167684 MS.gene071360:intron 45.0%
CCATCAGCAACACAAACTGC+AGG + chr2.1:34167511-34167530 None:intergenic 50.0%
! ACACGCCATCACTCCGTTTT+TGG - chr2.1:34167660-34167679 MS.gene071360:intron 50.0%
! CCTGCAGTTTGTGTTGCTGA+TGG - chr2.1:34167508-34167527 MS.gene071360:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 34167292 34168075 34167292 ID=MS.gene071360
chr2.1 mRNA 34167292 34168075 34167292 ID=MS.gene071360.t1;Parent=MS.gene071360
chr2.1 exon 34167751 34168075 34167751 ID=MS.gene071360.t1.exon1;Parent=MS.gene071360.t1
chr2.1 CDS 34167751 34168075 34167751 ID=cds.MS.gene071360.t1;Parent=MS.gene071360.t1
chr2.1 exon 34167292 34167557 34167292 ID=MS.gene071360.t1.exon2;Parent=MS.gene071360.t1
chr2.1 CDS 34167292 34167557 34167292 ID=cds.MS.gene071360.t1;Parent=MS.gene071360.t1
Gene Sequence

>MS.gene071360

ATGGAAATCGAATCAGCTAAGTGTGAGTGTTGCGGCTTAAAAGAGGATTGCACTCAAGACTACATCAGTGAAGTGAAGTCAAAATTTGATGGAAAATGGTTATGTGGGTTGTGTTCAGAAGCTGTTAGAGATGAAGCTATTAGAGGGAAAAAGACATTTGCAATGGAAGAAGCAATAAAAGCTCACATGTTGTTCTGTTGTAAGATTAAATCAAATCCTGCAGTTTGTGTTGCTGATGGTATGAGACAGATACCTAGGAGAAGGTCAACAAAGTTGTCTTCATCAAACAAACACAGTACGAGGTCAACTTCAACTTCCCAAGTAGGTGGTGAATAAAAAACAGAGGAGATTGGAAAGGTTGGAATAGGACACGCCATCACTCCGTTTTTGGTATGGTTGAAATAAATGTTTAATTACCTTTTTTAAATAGTAAGCAATATGCCATAATGATCATGCTATTGGGTGTATTAAGTTGTTCTCAAGTTCACGTCATGATCTAAGCAGAATCAAATGTGCAGAAATTGGGTATGTTCTAGGGTCTAAATACTGGGGTAAAGGGATTACCACGTTTGCTGTGAAACAAATGGTTAAGGTTGCATTCATTGTATTTTCATACTTGGAAAGGCTTGAAGCTCTTGTTGATGTGGATAATGTTGGGTCGCAAAGAGTGCTTGAGAAAGTTGGTTTCCAAAAGGAGGGAGTTCTTAGGAAGTATGTATTCTTTAAAGGAAAAAGTAGAGATATGATCATGTTCAGTCTTCTTTCTACTGATCTTCAACTATGA
Protein sequence

>MS.gene071360.t1

MEIESAKCECCGLKEDCTQDYISEVKSKFDGKWLCGLCSEAVRDEAIRGKKTFAMEEAIKAHMLFCCKIKSNPAVCVADGMRQIPRRRSTKLSSSNKHSTRSTSTSQVEIGYVLGSKYWGKGITTFAVKQMVKVAFIVFSYLERLEALVDVDNVGSQRVLEKVGFQKEGVLRKYVFFKGKSRDMIMFSLLSTDLQL