AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene77158

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77158.t1 MTR_5g006430 93.519 108 7 0 1 108 1 108 2.63e-70 209
MS.gene77158.t1 MTR_5g006460 64.085 142 37 3 57 196 64 193 3.58e-49 158
MS.gene77158.t1 MTR_5g006510 76.415 106 23 1 91 196 88 191 4.12e-47 153
MS.gene77158.t1 MTR_5g006470 60.000 140 41 4 57 196 64 188 1.08e-44 147
MS.gene77158.t1 MTR_1g103550 77.647 85 18 1 1 84 1 85 5.30e-42 138
MS.gene77158.t1 MTR_5g006450 57.857 140 46 4 57 196 64 190 1.71e-41 139
MS.gene77158.t1 MTR_5g006520 56.429 140 48 4 57 196 1782 1908 4.14e-40 145
MS.gene77158.t1 MTR_1g103110 69.318 88 27 0 109 196 103 190 7.71e-39 132
MS.gene77158.t1 MTR_1g103150 65.909 88 30 0 109 196 103 190 8.05e-36 124
MS.gene77158.t1 MTR_8g021190 49.038 104 45 2 2 97 30 133 1.03e-27 102
MS.gene77158.t1 MTR_7g114410 45.299 117 53 2 85 193 58 171 6.10e-24 93.6
MS.gene77158.t1 MTR_7g024760 47.778 90 47 0 104 193 80 169 1.92e-23 92.0
MS.gene77158.t1 MTR_3g463610 54.023 87 40 0 107 193 87 173 2.03e-23 93.2
MS.gene77158.t1 MTR_7g024780 50.000 88 44 0 106 193 83 170 3.42e-23 91.7
MS.gene77158.t1 MTR_7g024765 47.826 92 48 0 102 193 78 169 7.00e-23 90.9
MS.gene77158.t1 MTR_3g105340 46.575 73 39 0 1 73 10 82 3.64e-22 87.4
MS.gene77158.t1 MTR_4g125010 44.444 72 40 0 1 72 23 94 1.14e-20 84.3
MS.gene77158.t1 MTR_3g109860 42.222 90 48 1 2 87 36 125 5.34e-20 82.4
MS.gene77158.t1 MTR_8g013990 44.944 89 40 3 2 84 62 147 8.77e-19 80.5
MS.gene77158.t1 MTR_4g125030 44.595 74 41 0 1 74 21 94 8.93e-19 78.6
MS.gene77158.t1 MTR_7g114410 52.778 72 34 0 107 178 85 156 1.99e-18 78.6
MS.gene77158.t1 MTR_2g101140 42.529 87 45 2 2 84 62 147 2.47e-17 76.6
MS.gene77158.t1 MTR_1g014930 35.652 115 61 3 5 106 19 133 2.67e-15 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77158.t1 AT3G22540 66.667 108 32 3 1 105 1 107 6.93e-41 134
MS.gene77158.t1 AT4G14819 66.667 93 29 1 1 93 1 91 1.46e-37 126
MS.gene77158.t1 AT2G32030 65.882 85 29 0 109 193 101 185 4.25e-33 117
MS.gene77158.t1 AT2G32020 65.882 85 29 0 109 193 96 180 2.02e-32 115
MS.gene77158.t1 AT1G72510 47.253 91 43 1 2 87 33 123 9.24e-23 90.1
MS.gene77158.t1 AT1G72510 47.253 91 43 1 2 87 33 123 9.24e-23 90.1
MS.gene77158.t1 AT5G20670 39.423 104 52 2 3 95 23 126 3.33e-21 85.9
MS.gene77158.t1 AT3G22560 45.977 87 47 0 107 193 86 172 1.97e-20 84.3
MS.gene77158.t1 AT1G79770 42.202 109 58 2 1 105 50 157 1.09e-19 82.0
MS.gene77158.t1 AT5G25840 38.095 105 56 2 2 97 42 146 8.22e-19 80.1
MS.gene77158.t1 AT1G54095 44.737 76 39 2 2 74 15 90 5.78e-15 69.3
MS.gene77158.t1 AT2G09970 38.043 92 51 2 2 87 33 124 1.01e-14 68.9
MS.gene77158.t1 AT2G25780 37.079 89 49 3 7 89 40 127 6.93e-12 61.2

Find 36 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGTATGTATTCTTTAA+AGG 0.161729 2.4:-32023208 MS.gene77158:CDS
AGTCAAAATTTGATGGAAAA+TGG 0.223414 2.4:-32023839 MS.gene77158:CDS
TCCTAAGAACTCCCTCCTTT+TGG 0.260104 2.4:+32023227 None:intergenic
ATGTTCTAGGCTCTAAATAC+TGG 0.313478 2.4:-32023387 MS.gene77158:CDS
GCAGAAATTGGGTATGTTCT+AGG 0.344662 2.4:-32023400 MS.gene77158:intron
GTTAGAGATGAAGCTATTAG+AGG 0.393393 2.4:-32023792 MS.gene77158:CDS
TCCAAAAGGAGGGAGTTCTT+AGG 0.394554 2.4:-32023228 MS.gene77158:CDS
GGCTCTAAATACTGGGGTAA+AGG 0.409375 2.4:-32023379 MS.gene77158:CDS
CACGTTTGCTGTGAAACAAA+TGG 0.422199 2.4:-32023350 MS.gene77158:CDS
CTTGTTGATGTGGATAATGT+TGG 0.439455 2.4:-32023280 MS.gene77158:CDS
GCTCTAAATACTGGGGTAAA+GGG 0.442106 2.4:-32023378 MS.gene77158:CDS
GAAATGAAGTCAAAATTTGA+TGG 0.442595 2.4:-32023846 MS.gene77158:CDS
CAAAGAGTGCTTGAGAAAGT+TGG 0.446874 2.4:-32023253 MS.gene77158:CDS
GAATCAAATGTGCAGAAATT+GGG 0.456981 2.4:-32023411 MS.gene77158:intron
TGCTGTGAAACAAATGGTTA+AGG 0.473285 2.4:-32023344 MS.gene77158:CDS
TTTGATGGAAAATGGTTATG+TGG 0.481592 2.4:-32023831 MS.gene77158:CDS
TGAGAAAGTTGGTTTCCAAA+AGG 0.498958 2.4:-32023242 MS.gene77158:CDS
AACTTTGTTGACCTTCTCCT+AGG 0.514865 2.4:+32023663 None:intergenic
TGTTCTAGGCTCTAAATACT+GGG 0.526941 2.4:-32023386 MS.gene77158:CDS
TTGATGGAAAATGGTTATGT+GGG 0.531455 2.4:-32023830 MS.gene77158:CDS
TTGTTGATGTGGATAATGTT+GGG 0.535303 2.4:-32023279 MS.gene77158:CDS
GAAAGTTGGTTTCCAAAAGG+AGG 0.543592 2.4:-32023239 MS.gene77158:CDS
TGAGTGTTGCGGCTTAAAAG+AGG 0.545307 2.4:-32023892 MS.gene77158:CDS
TCAACTTCAACTTTCCAAGT+AGG 0.565279 2.4:-32023612 MS.gene77158:intron
ATTTAATCATAGTTGAAGAT+CGG 0.570806 2.4:+32023147 None:intergenic
GCTTGAAGCTCTTGTTGATG+TGG 0.580383 2.4:-32023290 MS.gene77158:CDS
CCATCAGCAACACAAACTGC+AGG 0.594058 2.4:+32023699 None:intergenic
AAAGTTGGTTTCCAAAAGGA+GGG 0.596054 2.4:-32023238 MS.gene77158:CDS
ATGGTATGAGACAGATACCT+AGG 0.596540 2.4:-32023680 MS.gene77158:CDS
TTAGAGATGAAGCTATTAGA+GGG 0.599426 2.4:-32023791 MS.gene77158:CDS
CCTGCAGTTTGTGTTGCTGA+TGG 0.605550 2.4:-32023699 MS.gene77158:CDS
TGAGACAGATACCTAGGAGA+AGG 0.609498 2.4:-32023674 MS.gene77158:CDS
TCAGCTAAGTGTGAGTGTTG+CGG 0.613560 2.4:-32023903 MS.gene77158:CDS
CATTTGTTTCACAGCAAACG+TGG 0.659491 2.4:+32023351 None:intergenic
CATCAAACAAACACAATACG+AGG 0.660981 2.4:-32023635 MS.gene77158:CDS
GTTCTAGGCTCTAAATACTG+GGG 0.712321 2.4:-32023385 MS.gene77158:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGCTTACTATTTAAAAAA+AGG + chr2.4:32023572-32023591 None:intergenic 15.0%
!!! ATTCATTGTATTTTCATACT+TGG - chr2.4:32023751-32023770 MS.gene77158:CDS 20.0%
! AGTCAAAATTTGATGGAAAA+TGG - chr2.4:32023229-32023248 MS.gene77158:CDS 25.0%
! GAAATGAAGTCAAAATTTGA+TGG - chr2.4:32023222-32023241 MS.gene77158:CDS 25.0%
! TATTTCAACCATACCAAAAA+CGG + chr2.4:32023537-32023556 None:intergenic 25.0%
!! AGGAAGTATGTATTCTTTAA+AGG - chr2.4:32023860-32023879 MS.gene77158:CDS 25.0%
!! TTGTATTTTCATACTTGGAA+AGG - chr2.4:32023756-32023775 MS.gene77158:CDS 25.0%
AGAATCAAATGTGCAGAAAT+TGG - chr2.4:32023656-32023675 MS.gene77158:CDS 30.0%
GAATAAAAAACAGAGGAGAT+TGG - chr2.4:32023483-32023502 MS.gene77158:intron 30.0%
GAATCAAATGTGCAGAAATT+GGG - chr2.4:32023657-32023676 MS.gene77158:CDS 30.0%
TTAGAGATGAAGCTATTAGA+GGG - chr2.4:32023277-32023296 MS.gene77158:CDS 30.0%
TTGATGGAAAATGGTTATGT+GGG - chr2.4:32023238-32023257 MS.gene77158:CDS 30.0%
TTGTTGATGTGGATAATGTT+GGG - chr2.4:32023789-32023808 MS.gene77158:CDS 30.0%
TTTGATGGAAAATGGTTATG+TGG - chr2.4:32023237-32023256 MS.gene77158:CDS 30.0%
!!! TTTTTTATTCACCACCTACT+TGG + chr2.4:32023473-32023492 None:intergenic 30.0%
AAAAACAGAGGAGATTGGAA+AGG - chr2.4:32023488-32023507 MS.gene77158:intron 35.0%
ACCCAATAGCATGATCATTA+TGG + chr2.4:32023598-32023617 None:intergenic 35.0%
AGGGAAAAAGACATTTGCAA+TGG - chr2.4:32023296-32023315 MS.gene77158:CDS 35.0%
AGGTGGTGAATAAAAAACAG+AGG - chr2.4:32023476-32023495 MS.gene77158:intron 35.0%
CATCAAACAAACACAATACG+AGG - chr2.4:32023433-32023452 MS.gene77158:intron 35.0%
CTTGTTGATGTGGATAATGT+TGG - chr2.4:32023788-32023807 MS.gene77158:CDS 35.0%
GCCATAATGATCATGCTATT+GGG - chr2.4:32023594-32023613 MS.gene77158:intron 35.0%
GTTAGAGATGAAGCTATTAG+AGG - chr2.4:32023276-32023295 MS.gene77158:CDS 35.0%
TCAACTTCAACTTTCCAAGT+AGG - chr2.4:32023456-32023475 MS.gene77158:intron 35.0%
TGCCATAATGATCATGCTAT+TGG - chr2.4:32023593-32023612 MS.gene77158:intron 35.0%
TGCTGTGAAACAAATGGTTA+AGG - chr2.4:32023724-32023743 MS.gene77158:CDS 35.0%
! AAAGTTGGTTTCCAAAAGGA+GGG - chr2.4:32023830-32023849 MS.gene77158:CDS 35.0%
! TGAGAAAGTTGGTTTCCAAA+AGG - chr2.4:32023826-32023845 MS.gene77158:CDS 35.0%
!! ATGTTCTAGGCTCTAAATAC+TGG - chr2.4:32023681-32023700 MS.gene77158:CDS 35.0%
!! TGTTCTAGGCTCTAAATACT+GGG - chr2.4:32023682-32023701 MS.gene77158:CDS 35.0%
AACTTTGTTGACCTTCTCCT+AGG + chr2.4:32023408-32023427 None:intergenic 40.0%
ACTTCAACTTTCCAAGTAGG+TGG - chr2.4:32023459-32023478 MS.gene77158:intron 40.0%
ATGGTATGAGACAGATACCT+AGG - chr2.4:32023388-32023407 MS.gene77158:CDS 40.0%
CATTTGTTTCACAGCAAACG+TGG + chr2.4:32023720-32023739 None:intergenic 40.0%
GAGATTGGAAAGGTTGGAAT+AGG - chr2.4:32023498-32023517 MS.gene77158:intron 40.0%
GCAGAAATTGGGTATGTTCT+AGG - chr2.4:32023668-32023687 MS.gene77158:CDS 40.0%
! GAAAGTTGGTTTCCAAAAGG+AGG - chr2.4:32023829-32023848 MS.gene77158:CDS 40.0%
! GCTCTAAATACTGGGGTAAA+GGG - chr2.4:32023690-32023709 MS.gene77158:CDS 40.0%
!! CAAAGAGTGCTTGAGAAAGT+TGG - chr2.4:32023815-32023834 MS.gene77158:CDS 40.0%
!! CACGTTTGCTGTGAAACAAA+TGG - chr2.4:32023718-32023737 MS.gene77158:CDS 40.0%
!! GTTCTAGGCTCTAAATACTG+GGG - chr2.4:32023683-32023702 MS.gene77158:CDS 40.0%
ACAGAGGAGATTGGAAAGGT+TGG - chr2.4:32023492-32023511 MS.gene77158:intron 45.0%
CCATACCAAAAACGGAGTGA+TGG + chr2.4:32023529-32023548 None:intergenic 45.0%
GCTTGAAGCTCTTGTTGATG+TGG - chr2.4:32023778-32023797 MS.gene77158:CDS 45.0%
TCCAAAAGGAGGGAGTTCTT+AGG - chr2.4:32023840-32023859 MS.gene77158:CDS 45.0%
TGAGACAGATACCTAGGAGA+AGG - chr2.4:32023394-32023413 MS.gene77158:CDS 45.0%
! TCAGCTAAGTGTGAGTGTTG+CGG - chr2.4:32023165-32023184 MS.gene77158:CDS 45.0%
! TCCTAAGAACTCCCTCCTTT+TGG + chr2.4:32023844-32023863 None:intergenic 45.0%
! TGAGTGTTGCGGCTTAAAAG+AGG - chr2.4:32023176-32023195 MS.gene77158:CDS 45.0%
!! GGCTCTAAATACTGGGGTAA+AGG - chr2.4:32023689-32023708 MS.gene77158:CDS 45.0%
!!! CCATCACTCCGTTTTTGGTA+TGG - chr2.4:32023526-32023545 MS.gene77158:intron 45.0%
CCATCAGCAACACAAACTGC+AGG + chr2.4:32023372-32023391 None:intergenic 50.0%
! ACACGCCATCACTCCGTTTT+TGG - chr2.4:32023521-32023540 MS.gene77158:intron 50.0%
! CCTGCAGTTTGTGTTGCTGA+TGG - chr2.4:32023369-32023388 MS.gene77158:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 32023153 32023937 32023153 ID=MS.gene77158
chr2.4 mRNA 32023153 32023937 32023153 ID=MS.gene77158.t1;Parent=MS.gene77158
chr2.4 exon 32023613 32023937 32023613 ID=MS.gene77158.t1.exon1;Parent=MS.gene77158.t1
chr2.4 CDS 32023613 32023937 32023613 ID=cds.MS.gene77158.t1;Parent=MS.gene77158.t1
chr2.4 exon 32023153 32023418 32023153 ID=MS.gene77158.t1.exon2;Parent=MS.gene77158.t1
chr2.4 CDS 32023153 32023418 32023153 ID=cds.MS.gene77158.t1;Parent=MS.gene77158.t1
Gene Sequence

>MS.gene77158

ATGGAAATCGAATCAGCTAAGTGTGAGTGTTGCGGCTTAAAAGAGGATTGCACTCAAGACTACATCAATGAAATGAAGTCAAAATTTGATGGAAAATGGTTATGTGGGTTGTGTTCAGAAGCTGTTAGAGATGAAGCTATTAGAGGGAAAAAGACATTTGCAATGGAAGAAGCAATAAAAGCTCACATGTTGTTCTGTTGTAAGATTAAATCAAATCCTGCAGTTTGTGTTGCTGATGGTATGAGACAGATACCTAGGAGAAGGTCAACAAAGTTGTCTTCATCAAACAAACACAATACGAGGTCAACTTCAACTTTCCAAGTAGGTGGTGAATAAAAAACAGAGGAGATTGGAAAGGTTGGAATAGGACACGCCATCACTCCGTTTTTGGTATGGTTGAAATAAATGTTTAATTACCTTTTTTTAAATAGTAAGCAATATGCCATAATGATCATGCTATTGGGTGTATTAAGTTGTTCTCAAGTTCACGTCATGATCTAAGCAGAATCAAATGTGCAGAAATTGGGTATGTTCTAGGCTCTAAATACTGGGGTAAAGGGATTACCACGTTTGCTGTGAAACAAATGGTTAAGGTTGCATTCATTGTATTTTCATACTTGGAAAGGCTTGAAGCTCTTGTTGATGTGGATAATGTTGGGTCGCAAAGAGTGCTTGAGAAAGTTGGTTTCCAAAAGGAGGGAGTTCTTAGGAAGTATGTATTCTTTAAAGGAAAAAGTAGAGATATGATCATGTTCAGTCTTCTTTCTACCGATCTTCAACTATGA
Protein sequence

>MS.gene77158.t1

MEIESAKCECCGLKEDCTQDYINEMKSKFDGKWLCGLCSEAVRDEAIRGKKTFAMEEAIKAHMLFCCKIKSNPAVCVADGMRQIPRRRSTKLSSSNKHNTRSTSTFQVEIGYVLGSKYWGKGITTFAVKQMVKVAFIVFSYLERLEALVDVDNVGSQRVLEKVGFQKEGVLRKYVFFKGKSRDMIMFSLLSTDLQL