AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51007


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51007.t1 MTR_3g436100 74.026 154 40 0 1 154 1 154 2.49e-83 242
MS.gene51007.t1 MTR_7g044920 54.777 157 63 4 1 154 1 152 5.10e-53 165
MS.gene51007.t1 MTR_7g044980 52.258 155 63 6 1 154 1 145 3.59e-46 147
MS.gene51007.t1 MTR_8g022400 45.890 146 73 4 1 145 1 141 4.40e-39 129
MS.gene51007.t1 MTR_8g022430 50.000 138 62 5 1 136 1 133 8.23e-39 129
MS.gene51007.t1 MTR_6g017150 50.000 150 56 6 1 148 1 133 3.80e-38 127
MS.gene51007.t1 MTR_8g022420 50.725 138 59 5 1 136 1 131 4.40e-38 127
MS.gene51007.t1 MTR_3g067540 45.161 155 63 5 1 150 1 138 3.15e-36 122
MS.gene51007.t1 MTR_3g067555 45.161 155 63 5 1 150 1 138 3.15e-36 122
MS.gene51007.t1 MTR_6g017170 51.562 128 56 4 1 127 1 123 3.38e-34 116
MS.gene51007.t1 MTR_3g067535 47.712 153 58 5 1 150 1 134 9.00e-34 115
MS.gene51007.t1 MTR_7g056803 47.143 140 64 6 1 136 1 134 1.62e-33 115
MS.gene51007.t1 MTR_3g067430 40.645 155 70 4 1 150 1 138 9.39e-33 113
MS.gene51007.t1 MTR_3g067437 45.455 132 67 2 1 132 1 127 2.08e-31 109
MS.gene51007.t1 MTR_3g067580 42.958 142 67 5 1 137 9 141 2.33e-31 110
MS.gene51007.t1 MTR_7g056817 46.429 140 66 6 1 136 1 135 2.92e-31 109
MS.gene51007.t1 MTR_6g036620 43.038 158 56 6 1 150 1 132 5.37e-30 106
MS.gene51007.t1 MTR_3g067510 46.721 122 55 4 1 119 1 115 1.83e-29 104
MS.gene51007.t1 MTR_3g067270 43.165 139 67 6 1 136 1 130 1.94e-29 104
MS.gene51007.t1 MTR_3g467750 43.165 139 67 6 1 136 1 130 1.94e-29 104
MS.gene51007.t1 MTR_3g463570 42.949 156 65 7 1 152 1 136 2.05e-29 104
MS.gene51007.t1 MTR_6g047900 43.506 154 66 8 1 153 1 134 1.32e-28 102
MS.gene51007.t1 MTR_6g047880 41.290 155 71 7 1 153 1 137 9.38e-28 100
MS.gene51007.t1 MTR_3g067280 43.478 138 68 6 1 136 1 130 1.75e-27 100
MS.gene51007.t1 MTR_8g056800 54.321 81 37 0 74 154 21 101 6.49e-27 97.4
MS.gene51007.t1 MTR_3g067510 44.094 127 56 5 1 119 1 120 1.16e-26 97.8
MS.gene51007.t1 MTR_3g067555 40.141 142 63 5 14 150 1 125 2.69e-26 96.7
MS.gene51007.t1 MTR_5g464490 72.881 59 16 0 1 59 1 59 7.55e-26 93.6
MS.gene51007.t1 MTR_3g067550 41.353 133 56 5 23 150 2 117 4.95e-25 93.2
MS.gene51007.t1 MTR_3g067555 41.353 133 56 5 23 150 2 117 4.95e-25 93.2
MS.gene51007.t1 MTR_3g467760 39.130 138 50 4 1 136 1 106 2.69e-24 90.9
MS.gene51007.t1 MTR_3g067445 39.837 123 63 3 1 118 1 117 5.25e-24 90.5
MS.gene51007.t1 MTR_4g026590 38.750 160 77 5 1 154 1 145 6.78e-23 88.6
MS.gene51007.t1 MTR_3g067500 47.778 90 42 2 47 134 21 107 1.12e-22 87.0
MS.gene51007.t1 MTR_3g463570 40.580 138 59 6 18 152 39 156 1.75e-22 87.8
MS.gene51007.t1 MTR_5g464350 64.516 62 22 0 1 62 1 62 3.02e-22 84.3
MS.gene51007.t1 MTR_1g019650 39.370 127 54 3 1 124 1 107 1.09e-21 84.3
MS.gene51007.t1 MTR_0416s0030 60.870 69 27 0 1 69 1 69 1.66e-21 82.8
MS.gene51007.t1 MTR_5g464390 62.903 62 23 0 1 62 1 62 2.05e-21 82.4
MS.gene51007.t1 MTR_7g029540 37.302 126 71 5 1 124 1 120 1.05e-20 82.0
MS.gene51007.t1 MTR_5g464590 63.793 58 20 1 1 57 1 58 3.95e-20 79.3
MS.gene51007.t1 MTR_3g067570 52.326 86 35 4 35 119 10 90 1.18e-19 78.6
MS.gene51007.t1 MTR_8g461020 35.616 146 70 6 3 144 4 129 5.15e-19 78.2
MS.gene51007.t1 MTR_5g464540 58.824 68 27 1 1 68 1 67 6.25e-19 76.3
MS.gene51007.t1 MTR_6g082060 41.727 139 63 6 1 130 1 130 1.26e-18 77.4
MS.gene51007.t1 MTR_0112s0050 59.420 69 26 2 1 68 1 68 3.22e-18 74.3
MS.gene51007.t1 MTR_3g436120 82.500 40 7 0 115 154 62 101 5.82e-15 66.6
MS.gene51007.t1 MTR_0093s0090 62.963 54 19 1 1 54 1 53 6.24e-15 65.9
MS.gene51007.t1 MTR_3g067830 38.843 121 58 6 1 117 1 109 3.76e-14 64.7
MS.gene51007.t1 MTR_3g438170 72.500 40 11 0 1 40 1 40 1.26e-12 58.9
MS.gene51007.t1 MTR_3g438140 72.500 40 11 0 1 40 1 40 1.26e-12 58.9
MS.gene51007.t1 MTR_0112s0040 78.378 37 7 1 1 36 1 37 1.40e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTCTCCCTTGGTGGTTATT+TGG 0.237560 3.2:+30124925 MS.gene51007:CDS
CCTAATGCTGATATTGAATA+TGG 0.285356 3.2:+30125072 MS.gene51007:CDS
TTGTGATTACCGCAATAATT+CGG 0.329100 3.2:-30124892 None:intergenic
TTATGTTAAGCTTGCTACTT+TGG 0.363249 3.2:+30124560 MS.gene51007:CDS
TGTGATTACCGCAATAATTC+GGG 0.372686 3.2:-30124891 None:intergenic
CTGCTTCAACGTTCTTCGTC+TGG 0.376847 3.2:-30124828 None:intergenic
AGACTACTTGAAGATGGCTT+TGG 0.386657 3.2:+30125197 MS.gene51007:CDS
CTCCCTTGGTGGTTATTTGG+AGG 0.393690 3.2:+30124928 MS.gene51007:CDS
GCAGAACGTTACTTCAAGAT+TGG 0.399752 3.2:+30125120 MS.gene51007:CDS
CGAGACATATCATTCTTAAG+TGG 0.433054 3.2:-30125226 None:intergenic
CCATATTCAATATCAGCATT+AGG 0.437256 3.2:-30125072 None:intergenic
CCGCAATAATTCGGGTCAAA+TGG 0.448213 3.2:-30124883 None:intergenic
CGGGTCAAATGGTGAACAAA+AGG 0.469881 3.2:-30124872 None:intergenic
AAGATTGTCGCTGTCTCCCT+TGG 0.475042 3.2:+30124914 MS.gene51007:CDS
GGTAATTGCATAAATCCAAC+TGG 0.487242 3.2:+30124949 MS.gene51007:CDS
ATTGTCGCTGTCTCCCTTGG+TGG 0.496818 3.2:+30124917 MS.gene51007:CDS
GAGTGCATCAAGAAGGGAAG+TGG 0.522512 3.2:+30125030 MS.gene51007:CDS
ATAGTATGTTCAGAACCAGT+TGG 0.528893 3.2:-30124964 None:intergenic
GCAGCGAGCTGTCCGTATGC+AGG 0.535912 3.2:+30124847 MS.gene51007:CDS
TCATGCCGAGTGCATCAAGA+AGG 0.559241 3.2:+30125023 MS.gene51007:CDS
CGTTCTGCTTCATTTACAGA+GGG 0.566815 3.2:-30125105 None:intergenic
CCATTTGACCCGAATTATTG+CGG 0.576067 3.2:+30124883 MS.gene51007:CDS
GAACAAAAGGAACCTGCATA+CGG 0.576509 3.2:-30124859 None:intergenic
ACTTCCCTTCTTGATGCACT+CGG 0.605609 3.2:-30125028 None:intergenic
TACCTCCAAATAACCACCAA+GGG 0.606319 3.2:-30124930 None:intergenic
CATGCCGAGTGCATCAAGAA+GGG 0.625240 3.2:+30125024 MS.gene51007:CDS
ACGTTCTGCTTCATTTACAG+AGG 0.626101 3.2:-30125106 None:intergenic
ATGCTGATATTGAATATGGA+TGG 0.639133 3.2:+30125076 MS.gene51007:CDS
AGTGCATCAAGAAGGGAAGT+GGG 0.648471 3.2:+30125031 MS.gene51007:CDS
TTACCTCCAAATAACCACCA+AGG 0.709136 3.2:-30124931 None:intergenic
ACATACTATGAAGATGATCG+AGG 0.709642 3.2:+30124978 MS.gene51007:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGAATATAACATATATATTT+AGG - chr3.2:30124756-30124775 None:intergenic 10.0%
!! TCGATATATATTTATATGTT+AGG + chr3.2:30124645-30124664 MS.gene51007:intron 15.0%
!! AAAAATATACATACAGAATG+TGG - chr3.2:30124601-30124620 None:intergenic 20.0%
!! CATATATATTTAGGAAAGTT+TGG - chr3.2:30124747-30124766 None:intergenic 20.0%
!!! TGAAGAAATTTTTTACTACA+GGG - chr3.2:30125152-30125171 None:intergenic 20.0%
!!! TTGAAGAAATTTTTTACTAC+AGG - chr3.2:30125153-30125172 None:intergenic 20.0%
! TTATATTCACACATGTGTAT+TGG + chr3.2:30124767-30124786 MS.gene51007:intron 25.0%
ATGCTGATATTGAATATGGA+TGG + chr3.2:30125076-30125095 MS.gene51007:CDS 30.0%
CCATATTCAATATCAGCATT+AGG - chr3.2:30125075-30125094 None:intergenic 30.0%
CCTAATGCTGATATTGAATA+TGG + chr3.2:30125072-30125091 MS.gene51007:CDS 30.0%
TGAAAAAGACTACTTGAAGA+TGG + chr3.2:30125191-30125210 MS.gene51007:CDS 30.0%
TTGTGATTACCGCAATAATT+CGG - chr3.2:30124895-30124914 None:intergenic 30.0%
!! GTCTTTTTCATTAGAGTTTG+AGG - chr3.2:30125181-30125200 None:intergenic 30.0%
!! TTATGTTAAGCTTGCTACTT+TGG + chr3.2:30124560-30124579 MS.gene51007:CDS 30.0%
!!! GAAATTTTTTACTACAGGGT+TGG - chr3.2:30125148-30125167 None:intergenic 30.0%
ACATACTATGAAGATGATCG+AGG + chr3.2:30124978-30124997 MS.gene51007:CDS 35.0%
ATAGTATGTTCAGAACCAGT+TGG - chr3.2:30124967-30124986 None:intergenic 35.0%
ATGGCAAAGGCAGTTAAAAT+TGG - chr3.2:30124795-30124814 None:intergenic 35.0%
GGTAATTGCATAAATCCAAC+TGG + chr3.2:30124949-30124968 MS.gene51007:CDS 35.0%
TGTGATTACCGCAATAATTC+GGG - chr3.2:30124894-30124913 None:intergenic 35.0%
! GCATGAGTTTTGCATAAGTT+AGG - chr3.2:30125009-30125028 None:intergenic 35.0%
ACGATTACTGCAAATGGCAA+AGG - chr3.2:30124808-30124827 None:intergenic 40.0%
ACGTTCTGCTTCATTTACAG+AGG - chr3.2:30125109-30125128 None:intergenic 40.0%
AGACTACTTGAAGATGGCTT+TGG + chr3.2:30125197-30125216 MS.gene51007:CDS 40.0%
CCATTTGACCCGAATTATTG+CGG + chr3.2:30124883-30124902 MS.gene51007:CDS 40.0%
CGTTCTGCTTCATTTACAGA+GGG - chr3.2:30125108-30125127 None:intergenic 40.0%
GAACAAAAGGAACCTGCATA+CGG - chr3.2:30124862-30124881 None:intergenic 40.0%
GCAGAACGTTACTTCAAGAT+TGG + chr3.2:30125120-30125139 MS.gene51007:CDS 40.0%
TACCTCCAAATAACCACCAA+GGG - chr3.2:30124933-30124952 None:intergenic 40.0%
TTACCTCCAAATAACCACCA+AGG - chr3.2:30124934-30124953 None:intergenic 40.0%
ACTTCCCTTCTTGATGCACT+CGG - chr3.2:30125031-30125050 None:intergenic 45.0%
AGTGCATCAAGAAGGGAAGT+GGG + chr3.2:30125031-30125050 MS.gene51007:CDS 45.0%
CCGCAATAATTCGGGTCAAA+TGG - chr3.2:30124886-30124905 None:intergenic 45.0%
CGGGTCAAATGGTGAACAAA+AGG - chr3.2:30124875-30124894 None:intergenic 45.0%
GTCTGGACGATTACTGCAAA+TGG - chr3.2:30124814-30124833 None:intergenic 45.0%
! TGTCTCCCTTGGTGGTTATT+TGG + chr3.2:30124925-30124944 MS.gene51007:CDS 45.0%
AAGATTGTCGCTGTCTCCCT+TGG + chr3.2:30124914-30124933 MS.gene51007:CDS 50.0%
CATGCCGAGTGCATCAAGAA+GGG + chr3.2:30125024-30125043 MS.gene51007:CDS 50.0%
CTGCTTCAACGTTCTTCGTC+TGG - chr3.2:30124831-30124850 None:intergenic 50.0%
GAGTGCATCAAGAAGGGAAG+TGG + chr3.2:30125030-30125049 MS.gene51007:CDS 50.0%
TCATGCCGAGTGCATCAAGA+AGG + chr3.2:30125023-30125042 MS.gene51007:CDS 50.0%
! CTCCCTTGGTGGTTATTTGG+AGG + chr3.2:30124928-30124947 MS.gene51007:CDS 50.0%
ATTGTCGCTGTCTCCCTTGG+TGG + chr3.2:30124917-30124936 MS.gene51007:CDS 55.0%
GCAGCGAGCTGTCCGTATGC+AGG + chr3.2:30124847-30124866 MS.gene51007:CDS 65.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 30124555 30125233 30124555 ID=MS.gene51007
chr3.2 mRNA 30124555 30125233 30124555 ID=MS.gene51007.t1;Parent=MS.gene51007
chr3.2 exon 30124555 30124606 30124555 ID=MS.gene51007.t1.exon1;Parent=MS.gene51007.t1
chr3.2 CDS 30124555 30124606 30124555 ID=cds.MS.gene51007.t1;Parent=MS.gene51007.t1
chr3.2 exon 30124821 30125233 30124821 ID=MS.gene51007.t1.exon2;Parent=MS.gene51007.t1
chr3.2 CDS 30124821 30125233 30124821 ID=cds.MS.gene51007.t1;Parent=MS.gene51007.t1
Gene Sequence

>MS.gene51007

ATGACTTATGTTAAGCTTGCTACTTTGGCTGTCTTCATGCTCACCACATTCTGTATGTATATTTTTTTAACATTGAGTTCATCTTTCTCATCGATATATATTTATATGTTAGGAACTCGTAAAATATCATAATTAGAATTTACACTTTCAATCAATGAAAAATTATTATATCACATGCTCAATTTAATACCAAACTTTCCTAAATATATATGTTATATTCACACATGTGTATTGGTTCCAATTTTAACTGCCTTTGCCATTTGCAGTAATCGTCCAGACGAAGAACGTTGAAGCAGCGAGCTGTCCGTATGCAGGTTCCTTTTGTTCACCATTTGACCCGAATTATTGCGGTAATCACAAAGATTGTCGCTGTCTCCCTTGGTGGTTATTTGGAGGTAATTGCATAAATCCAACTGGTTCTGAACATACTATGAAGATGATCGAGGAACATCCTAACTTATGCAAAACTCATGCCGAGTGCATCAAGAAGGGAAGTGGGAACTTTTGTGCTCGTTATCCTAATGCTGATATTGAATATGGATGGTGTTTTCCCTCTGTAAATGAAGCAGAACGTTACTTCAAGATTGGATCCAACCCTGTAGTAAAAAATTTCTTCAAGATTGCCTCAAACTCTAATGAAAAAGACTACTTGAAGATGGCTTTGGAAATTGCCACTTAA

Protein sequence

>MS.gene51007.t1

MTYVKLATLAVFMLTTFLIVQTKNVEAASCPYAGSFCSPFDPNYCGNHKDCRCLPWWLFGGNCINPTGSEHTMKMIEEHPNLCKTHAECIKKGSGNFCARYPNADIEYGWCFPSVNEAERYFKIGSNPVVKNFFKIASNSNEKDYLKMALEIAT