AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058068


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058068.t1 MTR_5g006950 95.833 168 7 0 1 168 1 168 1.18e-109 310
MS.gene058068.t1 MTR_1g103490 65.455 165 36 3 1 164 1 145 3.17e-65 197
MS.gene058068.t1 MTR_1g103470 52.121 165 56 4 1 164 1 143 7.56e-40 132
MS.gene058068.t1 MTR_1g103450 50.667 150 52 4 1 149 1 129 4.56e-38 127
MS.gene058068.t1 MTR_7g095230 51.701 147 64 4 1 141 1 146 5.52e-38 128
MS.gene058068.t1 MTR_1g071730 51.235 162 53 1 1 162 1 136 4.53e-32 112
MS.gene058068.t1 MTR_1g071730 62.264 106 40 0 1 106 1 106 3.82e-27 99.0
MS.gene058068.t1 MTR_1g097720 57.955 88 34 2 1 87 1 86 1.12e-24 91.7
MS.gene058068.t1 MTR_3g079210 42.353 85 46 2 24 105 46 130 1.02e-15 71.6
MS.gene058068.t1 MTR_5g070360 34.127 126 69 4 7 119 4 128 1.18e-15 71.2
MS.gene058068.t1 MTR_2g008560 35.606 132 73 5 7 127 4 134 1.15e-14 68.2
MS.gene058068.t1 MTR_2g008580 37.805 82 48 2 26 105 33 113 1.95e-11 60.1
MS.gene058068.t1 MTR_8g085560 31.092 119 72 3 25 134 33 150 2.42e-11 59.7
MS.gene058068.t1 MTR_5g006940 33.571 140 81 7 1 130 1 138 2.66e-11 60.1
MS.gene058068.t1 MTR_3g083760 36.486 74 46 1 25 97 28 101 7.15e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058068.t1 AT3G22600 54.335 173 66 6 5 168 2 170 2.98e-51 162
MS.gene058068.t1 AT4G14815 48.125 160 67 4 5 163 2 146 1.51e-39 132
MS.gene058068.t1 AT2G48130 42.286 175 86 5 1 162 1 173 9.66e-33 115
MS.gene058068.t1 AT2G48130 42.286 175 86 5 1 162 1 173 9.66e-33 115
MS.gene058068.t1 AT2G48130 42.286 175 86 5 1 162 1 173 9.66e-33 115
MS.gene058068.t1 AT2G48130 42.286 175 86 5 1 162 1 173 9.66e-33 115
MS.gene058068.t1 AT2G48130 42.286 175 86 5 1 162 1 173 9.66e-33 115
MS.gene058068.t1 AT2G48130 42.286 175 86 5 1 162 1 173 9.66e-33 115
MS.gene058068.t1 AT1G03103 41.520 171 83 6 6 161 1 169 7.47e-28 102
MS.gene058068.t1 AT5G09370 40.000 90 50 2 26 113 26 113 5.32e-17 73.2
MS.gene058068.t1 AT5G09370 40.000 90 50 2 26 113 26 113 5.39e-17 73.9
MS.gene058068.t1 AT5G09370 40.000 90 50 2 26 113 26 113 5.56e-17 73.9
MS.gene058068.t1 AT3G43720 36.306 157 76 5 21 160 31 180 1.11e-16 73.9
MS.gene058068.t1 AT3G43720 36.076 158 77 5 21 160 31 182 5.02e-16 72.4
MS.gene058068.t1 AT1G55260 25.275 182 116 5 1 164 44 223 5.93e-15 70.1
MS.gene058068.t1 AT2G13820 27.711 166 112 5 1 161 1 163 8.95e-15 68.6
MS.gene058068.t1 AT2G13820 27.711 166 112 5 1 161 13 175 1.10e-14 68.6
MS.gene058068.t1 AT1G55260 28.205 156 104 4 1 149 44 198 2.27e-14 68.6
MS.gene058068.t1 AT4G08670 33.951 162 87 6 26 168 46 206 3.12e-14 67.8
MS.gene058068.t1 AT2G13820 31.034 116 74 4 1 113 1 113 7.84e-14 65.1
MS.gene058068.t1 AT2G44290 31.875 160 91 6 6 149 9 166 6.29e-13 64.3
MS.gene058068.t1 AT2G48140 34.884 129 66 5 8 129 4 121 1.21e-11 60.8
MS.gene058068.t1 AT3G22580 38.739 111 56 4 5 105 2 110 2.05e-11 58.5
MS.gene058068.t1 AT2G48140 35.965 114 65 4 8 114 4 116 2.55e-11 58.5
MS.gene058068.t1 AT2G44300 39.726 73 43 1 25 96 32 104 4.88e-11 59.3
MS.gene058068.t1 AT1G36150 32.174 115 75 2 26 138 43 156 8.42e-11 59.3

Find 51 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTCCATTGGTTCTTATTT+TGG 0.163593 5.1:+1584227 MS.gene058068:CDS
CAGCAAAATGAATATGAGTT+TGG 0.304193 5.1:+1583440 MS.gene058068:CDS
AATGAATATGAGTTTGGTTT+TGG 0.324175 5.1:+1583446 MS.gene058068:CDS
GTTCCTGCTGGTGAGTCTGC+TGG 0.326138 5.1:-1584004 None:intergenic
GTACCTGATGGAACTGAGTT+TGG 0.355549 5.1:-1584040 None:intergenic
AATTCCTCAACCCCGTCTTC+AGG 0.363035 5.1:+1583564 MS.gene058068:CDS
TTCCTGCTGGTGAGTCTGCT+GGG 0.376602 5.1:-1584003 None:intergenic
AGTCAGTGTAAAACTAATAA+TGG 0.381064 5.1:+1583738 MS.gene058068:CDS
GCCTATGTCAGGTTCTCGGC+GGG 0.418113 5.1:+1583631 MS.gene058068:CDS
GACTCTGCTTCTGTTCCTGC+TGG 0.439322 5.1:-1584016 None:intergenic
AGCCTTGCCTGGTGCTTGCA+AGG 0.452642 5.1:+1583698 MS.gene058068:CDS
TCCATCACCGGTTGAGGGAG+TGG 0.468250 5.1:-1584175 None:intergenic
TCAAAATCCACTCCCTCAAC+CGG 0.469317 5.1:+1584168 MS.gene058068:CDS
GGATGATCCATCACCGGTTG+AGG 0.472460 5.1:-1584181 None:intergenic
CAGCTTGATTGAATTTCCAC+TGG 0.474292 5.1:-1584202 None:intergenic
GTTTGCACCTTGCAAGCACC+AGG 0.476162 5.1:-1583705 None:intergenic
AATCAAGCTGTCAATTCCAT+TGG 0.482271 5.1:+1584215 MS.gene058068:CDS
TTGAGCAGCATCCTGAAGAC+GGG 0.489604 5.1:-1583575 None:intergenic
TCCACTCCCTCAACCGGTGA+TGG 0.490607 5.1:+1584174 MS.gene058068:CDS
TATAGTTAAGACAAGGTGAT+AGG 0.493717 5.1:-1583533 None:intergenic
CTATGTCAGGTTCTCGGCGG+GGG 0.499514 5.1:+1583633 MS.gene058068:CDS
ACTCAGGCTCTAGCCTTGCC+TGG 0.500358 5.1:+1583687 MS.gene058068:CDS
CACCTTGCAAGCACCAGGCA+AGG 0.514952 5.1:-1583700 None:intergenic
CTATGCCTATGTCAGGTTCT+CGG 0.519779 5.1:+1583627 MS.gene058068:CDS
TTTACACTGACTCGTGGGTG+GGG 0.525246 5.1:-1583727 None:intergenic
ATCGAGTTGTACAAATGTCT+TGG 0.528842 5.1:+1583506 MS.gene058068:CDS
CCTTGTCTTAACTATATCAC+AGG 0.529529 5.1:+1583540 MS.gene058068:CDS
TCTCCAAACTCAGTTCCATC+AGG 0.538578 5.1:+1584037 MS.gene058068:CDS
GCATCCTGAAGACGGGGTTG+AGG 0.545184 5.1:-1583568 None:intergenic
ACAACCACTATGCCTATGTC+AGG 0.550990 5.1:+1583620 MS.gene058068:CDS
TGTTCAGAAAACTGAGGCAT+AGG 0.555263 5.1:-1584256 None:intergenic
TCCACTGGATGATCCATCAC+CGG 0.557164 5.1:-1584187 None:intergenic
TTTGAGCAGCATCCTGAAGA+CGG 0.563609 5.1:-1583576 None:intergenic
GATGATCCATCACCGGTTGA+GGG 0.571557 5.1:-1584180 None:intergenic
TCCCCAGCAGACTCACCAGC+AGG 0.577866 5.1:+1584001 MS.gene058068:CDS
CTGCTCAAACCTTGCCAGTG+TGG 0.578926 5.1:+1583590 MS.gene058068:CDS
GTGAATTCACCACACTGGCA+AGG 0.582240 5.1:-1583599 None:intergenic
GTAATCGCAATGTTGTGCGC+TGG 0.583284 5.1:+1583471 MS.gene058068:CDS
GCTGCCAAAATAAGAACCAA+TGG 0.586818 5.1:-1584231 None:intergenic
TCCTGCTGGTGAGTCTGCTG+GGG 0.602035 5.1:-1584002 None:intergenic
TGCCTATGTCAGGTTCTCGG+CGG 0.603440 5.1:+1583630 MS.gene058068:CDS
CCCCGCCGAGAACCTGACAT+AGG 0.604243 5.1:-1583632 None:intergenic
AATCAGCATCAATCAAACTC+AGG 0.612879 5.1:+1583671 MS.gene058068:CDS
AGAACCTGACATAGGCATAG+TGG 0.618190 5.1:-1583624 None:intergenic
CCTATGTCAGGTTCTCGGCG+GGG 0.623545 5.1:+1583632 MS.gene058068:CDS
ACCGGTGATGGATCATCCAG+TGG 0.660594 5.1:+1584186 MS.gene058068:CDS
CCTGTGATATAGTTAAGACA+AGG 0.669942 5.1:-1583540 None:intergenic
CTTGTCTTAACTATATCACA+GGG 0.674749 5.1:+1583541 MS.gene058068:CDS
TGGTTGTGAATTCACCACAC+TGG 0.698930 5.1:-1583604 None:intergenic
TGAGCAGCATCCTGAAGACG+GGG 0.700847 5.1:-1583574 None:intergenic
TCAGTATGTTCAGAAAACTG+AGG 0.728921 5.1:-1584262 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATATATAGTTTAGAATAT+GGG - chr5.1:1583943-1583962 None:intergenic 10.0%
!!! GAAATATATAGTTTAGAATA+TGG - chr5.1:1583944-1583963 None:intergenic 15.0%
!! CAAATGAATTTCAACTTAAA+TGG - chr5.1:1584137-1584156 None:intergenic 20.0%
! AGTCAGTGTAAAACTAATAA+TGG + chr5.1:1583738-1583757 MS.gene058068:CDS 25.0%
! ATCTCAATGTTCATATAGTT+AGG - chr5.1:1583832-1583851 None:intergenic 25.0%
! TCTCAATGTTCATATAGTTA+GGG - chr5.1:1583831-1583850 None:intergenic 25.0%
! TTCAACTTAAATGGTTAACA+AGG - chr5.1:1584128-1584147 None:intergenic 25.0%
!!! AATGAATATGAGTTTGGTTT+TGG + chr5.1:1583446-1583465 MS.gene058068:CDS 25.0%
!!! AATTCCATTGGTTCTTATTT+TGG + chr5.1:1584227-1584246 MS.gene058068:CDS 25.0%
!!! ACTTATCTTTTTGAGTATCA+AGG - chr5.1:1583916-1583935 None:intergenic 25.0%
!!! TTAAGTTGAAATTCATTTGC+AGG + chr5.1:1584138-1584157 MS.gene058068:intron 25.0%
AATGTTCATATAGTTAGGGT+TGG - chr5.1:1583827-1583846 None:intergenic 30.0%
CAGCAAAATGAATATGAGTT+TGG + chr5.1:1583440-1583459 MS.gene058068:CDS 30.0%
CTTGTCTTAACTATATCACA+GGG + chr5.1:1583541-1583560 MS.gene058068:CDS 30.0%
TATAGTTAAGACAAGGTGAT+AGG - chr5.1:1583536-1583555 None:intergenic 30.0%
AATCAAGCTGTCAATTCCAT+TGG + chr5.1:1584215-1584234 MS.gene058068:CDS 35.0%
AATCAGCATCAATCAAACTC+AGG + chr5.1:1583671-1583690 MS.gene058068:CDS 35.0%
CATCAGGTACTAACATATTG+GGG + chr5.1:1584053-1584072 MS.gene058068:intron 35.0%
CCATCAGGTACTAACATATT+GGG + chr5.1:1584052-1584071 MS.gene058068:intron 35.0%
CCTGTGATATAGTTAAGACA+AGG - chr5.1:1583543-1583562 None:intergenic 35.0%
CCTTGTCTTAACTATATCAC+AGG + chr5.1:1583540-1583559 MS.gene058068:CDS 35.0%
TCCATCAGGTACTAACATAT+TGG + chr5.1:1584051-1584070 MS.gene058068:intron 35.0%
TGAAATTCATTTGCAGGAAC+CGG + chr5.1:1584144-1584163 MS.gene058068:intron 35.0%
TGATCATCCAATTTGAACCT+TGG + chr5.1:1584102-1584121 MS.gene058068:intron 35.0%
TTAAATGGTTAACAAGGCCA+AGG - chr5.1:1584122-1584141 None:intergenic 35.0%
! ATCGAGTTGTACAAATGTCT+TGG + chr5.1:1583506-1583525 MS.gene058068:CDS 35.0%
!!! ATTAGTTTTACACTGACTCG+TGG - chr5.1:1583736-1583755 None:intergenic 35.0%
!!! TTAGTTTTACACTGACTCGT+GGG - chr5.1:1583735-1583754 None:intergenic 35.0%
AACAAGGCCAAGGTTCAAAT+TGG - chr5.1:1584112-1584131 None:intergenic 40.0%
CAGCTTGATTGAATTTCCAC+TGG - chr5.1:1584205-1584224 None:intergenic 40.0%
CCCAATATGTTAGTACCTGA+TGG - chr5.1:1584055-1584074 None:intergenic 40.0%
GCTGCCAAAATAAGAACCAA+TGG - chr5.1:1584234-1584253 None:intergenic 40.0%
ACAACCACTATGCCTATGTC+AGG + chr5.1:1583620-1583639 MS.gene058068:CDS 45.0%
AGAACCTGACATAGGCATAG+TGG - chr5.1:1583627-1583646 None:intergenic 45.0%
CTATGCCTATGTCAGGTTCT+CGG + chr5.1:1583627-1583646 MS.gene058068:CDS 45.0%
GTACCTGATGGAACTGAGTT+TGG - chr5.1:1584043-1584062 None:intergenic 45.0%
TCAAAATCCACTCCCTCAAC+CGG + chr5.1:1584168-1584187 MS.gene058068:CDS 45.0%
TCTCCAAACTCAGTTCCATC+AGG + chr5.1:1584037-1584056 MS.gene058068:CDS 45.0%
TGGTTGTGAATTCACCACAC+TGG - chr5.1:1583607-1583626 None:intergenic 45.0%
TTTGAGCAGCATCCTGAAGA+CGG - chr5.1:1583579-1583598 None:intergenic 45.0%
!! TGAGGGAGTGGATTTTGATC+CGG - chr5.1:1584166-1584185 None:intergenic 45.0%
!!! TTTTACACTGACTCGTGGGT+GGG - chr5.1:1583731-1583750 None:intergenic 45.0%
AATTCCTCAACCCCGTCTTC+AGG + chr5.1:1583564-1583583 MS.gene058068:CDS 50.0%
GTAATCGCAATGTTGTGCGC+TGG + chr5.1:1583471-1583490 MS.gene058068:CDS 50.0%
GTGAATTCACCACACTGGCA+AGG - chr5.1:1583602-1583621 None:intergenic 50.0%
TCCACTGGATGATCCATCAC+CGG - chr5.1:1584190-1584209 None:intergenic 50.0%
TTGAGCAGCATCCTGAAGAC+GGG - chr5.1:1583578-1583597 None:intergenic 50.0%
! GATGATCCATCACCGGTTGA+GGG - chr5.1:1584183-1584202 None:intergenic 50.0%
!! TTTACACTGACTCGTGGGTG+GGG - chr5.1:1583730-1583749 None:intergenic 50.0%
!!! GTTTTACACTGACTCGTGGG+TGG - chr5.1:1583732-1583751 None:intergenic 50.0%
CTGCTCAAACCTTGCCAGTG+TGG + chr5.1:1583590-1583609 MS.gene058068:CDS 55.0%
GACTCTGCTTCTGTTCCTGC+TGG - chr5.1:1584019-1584038 None:intergenic 55.0%
GTTTGCACCTTGCAAGCACC+AGG - chr5.1:1583708-1583727 None:intergenic 55.0%
TGAGCAGCATCCTGAAGACG+GGG - chr5.1:1583577-1583596 None:intergenic 55.0%
TGCCTATGTCAGGTTCTCGG+CGG + chr5.1:1583630-1583649 MS.gene058068:CDS 55.0%
TTCCTGCTGGTGAGTCTGCT+GGG - chr5.1:1584006-1584025 None:intergenic 55.0%
! GGATGATCCATCACCGGTTG+AGG - chr5.1:1584184-1584203 None:intergenic 55.0%
!! ACCGGTGATGGATCATCCAG+TGG + chr5.1:1584186-1584205 MS.gene058068:CDS 55.0%
AGCCTTGCCTGGTGCTTGCA+AGG + chr5.1:1583698-1583717 MS.gene058068:CDS 60.0%
CACCTTGCAAGCACCAGGCA+AGG - chr5.1:1583703-1583722 None:intergenic 60.0%
CCTATGTCAGGTTCTCGGCG+GGG + chr5.1:1583632-1583651 MS.gene058068:CDS 60.0%
CTATGTCAGGTTCTCGGCGG+GGG + chr5.1:1583633-1583652 MS.gene058068:CDS 60.0%
GCATCCTGAAGACGGGGTTG+AGG - chr5.1:1583571-1583590 None:intergenic 60.0%
GCCTATGTCAGGTTCTCGGC+GGG + chr5.1:1583631-1583650 MS.gene058068:CDS 60.0%
GTTCCTGCTGGTGAGTCTGC+TGG - chr5.1:1584007-1584026 None:intergenic 60.0%
TCCACTCCCTCAACCGGTGA+TGG + chr5.1:1584174-1584193 MS.gene058068:CDS 60.0%
TCCTGCTGGTGAGTCTGCTG+GGG - chr5.1:1584005-1584024 None:intergenic 60.0%
! TCCATCACCGGTTGAGGGAG+TGG - chr5.1:1584178-1584197 None:intergenic 60.0%
!! ACTCAGGCTCTAGCCTTGCC+TGG + chr5.1:1583687-1583706 MS.gene058068:CDS 60.0%
CCCCGCCGAGAACCTGACAT+AGG - chr5.1:1583635-1583654 None:intergenic 65.0%
TCCCCAGCAGACTCACCAGC+AGG + chr5.1:1584001-1584020 MS.gene058068:CDS 65.0%
! GGCGGGGGTGCATCGTCGCT+GGG + chr5.1:1583648-1583667 MS.gene058068:CDS 75.0%
!! CGGCGGGGGTGCATCGTCGC+TGG + chr5.1:1583647-1583666 MS.gene058068:CDS 80.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 1583432 1584275 1583432 ID=MS.gene058068
chr5.1 mRNA 1583432 1584275 1583432 ID=MS.gene058068.t1;Parent=MS.gene058068
chr5.1 exon 1583432 1583759 1583432 ID=MS.gene058068.t1.exon1;Parent=MS.gene058068.t1
chr5.1 CDS 1583432 1583759 1583432 ID=cds.MS.gene058068.t1;Parent=MS.gene058068.t1
chr5.1 exon 1583996 1584058 1583996 ID=MS.gene058068.t1.exon2;Parent=MS.gene058068.t1
chr5.1 CDS 1583996 1584058 1583996 ID=cds.MS.gene058068.t1;Parent=MS.gene058068.t1
chr5.1 exon 1584160 1584275 1584160 ID=MS.gene058068.t1.exon3;Parent=MS.gene058068.t1
chr5.1 CDS 1584160 1584275 1584160 ID=cds.MS.gene058068.t1;Parent=MS.gene058068.t1
Gene Sequence

>MS.gene058068

ATGGCACACAGCAAAATGAATATGAGTTTGGTTTTGGTTGTAATCGCAATGTTGTGCGCTGGAGCTGCTGCGCAATCGAGTTGTACAAATGTCTTGGTCAGCCTATCACCTTGTCTTAACTATATCACAGGGAATTCCTCAACCCCGTCTTCAGGATGCTGCTCAAACCTTGCCAGTGTGGTGAATTCACAACCACTATGCCTATGTCAGGTTCTCGGCGGGGGTGCATCGTCGCTGGGAATCAGCATCAATCAAACTCAGGCTCTAGCCTTGCCTGGTGCTTGCAAGGTGCAAACCCCACCCACGAGTCAGTGTAAAACTAATAATGGTAAGAGAACAAAATTTCTATTTGATTGAGTTGAGAAAAAAATCAGCTCAACAAATATGTGCATCCAACCCTAACTATATGAACATTGAGATATATACTATGCAAATATCTATCATTATACTATAAAGACAGTGAATAGAAATTATAAGAGAACCTTGATACTCAAAAAGATAAGTACAGCCCATATTCTAAACTATATATTTCTGCTAACTTACAATATATGTTTTTGTCTACAGCTGCTTCCCCAGCAGACTCACCAGCAGGAACAGAAGCAGAGTCTCCAAACTCAGTTCCATCAGGTACTAACATATTGGGGAAGTAATTTAGTTATGCTTCAGAGCTTGATCATCCAATTTGAACCTTGGCCTTGTTAACCATTTAAGTTGAAATTCATTTGCAGGAACCGGATCAAAATCCACTCCCTCAACCGGTGATGGATCATCCAGTGGAAATTCAATCAAGCTGTCAATTCCATTGGTTCTTATTTTGGCAGCAGCCTATGCCTCAGTTTTCTGA

Protein sequence

>MS.gene058068.t1

MAHSKMNMSLVLVVIAMLCAGAAAQSSCTNVLVSLSPCLNYITGNSSTPSSGCCSNLASVVNSQPLCLCQVLGGGASSLGISINQTQALALPGACKVQTPPTSQCKTNNAASPADSPAGTEAESPNSVPSGTGSKSTPSTGDGSSSGNSIKLSIPLVLILAAAYASVF