AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene56076

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56076.t1 MTR_4g084550 92.800 125 2 2 1 123 57 176 1.50e-79 232
MS.gene56076.t1 MTR_8g107210 60.526 114 36 3 6 119 94 198 7.42e-36 125
MS.gene56076.t1 MTR_7g060630 71.429 70 20 0 1 70 1 70 8.41e-32 111
MS.gene56076.t1 MTR_5g081990 61.765 68 26 0 8 75 33 100 1.07e-27 100
MS.gene56076.t1 MTR_5g021930 67.164 67 21 1 4 69 26 92 2.14e-27 102
MS.gene56076.t1 MTR_1g019130 68.750 64 20 0 7 70 89 152 6.49e-27 99.8
MS.gene56076.t1 MTR_1g019130 68.750 64 20 0 7 70 89 152 1.18e-26 99.4
MS.gene56076.t1 MTR_3g088485 84.615 52 8 0 19 70 91 142 2.02e-26 96.7
MS.gene56076.t1 MTR_8g095580 84.615 52 8 0 19 70 93 144 2.15e-26 96.7
MS.gene56076.t1 MTR_4g063735 66.667 63 21 0 8 70 25 87 5.97e-26 97.8
MS.gene56076.t1 MTR_7g025010 47.761 67 35 0 3 69 42 108 5.82e-19 81.6
MS.gene56076.t1 MTR_1g115315 46.341 82 38 1 8 89 85 160 4.20e-18 77.4
MS.gene56076.t1 MTR_1g115315 46.341 82 38 1 8 89 85 160 6.32e-18 77.0
MS.gene56076.t1 MTR_2g015000 44.928 69 38 0 3 71 50 118 1.25e-17 77.8
MS.gene56076.t1 MTR_4g088070 44.776 67 37 0 2 68 23 89 1.42e-16 74.7
MS.gene56076.t1 MTR_3g115620 42.623 61 35 0 8 68 82 142 1.22e-13 64.7
MS.gene56076.t1 MTR_4g088080 40.909 66 39 0 3 68 35 100 2.54e-13 65.1
MS.gene56076.t1 MTR_6g027390 38.961 77 47 0 7 83 31 107 3.54e-13 64.7
MS.gene56076.t1 MTR_7g023810 36.559 93 49 1 8 100 68 150 6.07e-13 62.4
MS.gene56076.t1 MTR_7g086940 45.098 51 28 0 7 57 27 77 5.57e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56076.t1 AT3G18010 55.285 123 41 4 6 123 74 187 3.55e-37 129
MS.gene56076.t1 AT2G28610 65.714 70 24 0 1 70 1 70 1.69e-30 109
MS.gene56076.t1 AT5G59340 64.706 68 24 0 6 73 12 79 1.19e-27 102
MS.gene56076.t1 AT3G11260 48.421 95 39 1 8 92 24 118 4.11e-27 99.4
MS.gene56076.t1 AT2G17950 60.759 79 30 1 4 81 34 112 1.21e-26 100
MS.gene56076.t1 AT1G46480 63.768 69 24 1 2 70 85 152 3.23e-26 97.1
MS.gene56076.t1 AT2G01500 74.545 55 14 0 8 62 61 115 5.21e-26 98.6
MS.gene56076.t1 AT1G46480 63.768 69 24 1 2 70 85 152 1.60e-25 96.7
MS.gene56076.t1 AT5G05770 59.375 64 26 0 8 71 29 92 4.62e-24 89.7
MS.gene56076.t1 AT2G33880 44.286 70 39 0 3 72 50 119 2.34e-17 76.6
MS.gene56076.t1 AT2G33880 44.286 70 39 0 3 72 50 119 3.29e-17 76.3
MS.gene56076.t1 AT5G45980 32.174 115 70 1 3 117 50 156 3.37e-16 73.2
MS.gene56076.t1 AT4G35550 48.387 62 32 0 8 69 99 160 1.01e-15 71.2
MS.gene56076.t1 AT1G20700 45.000 60 33 0 8 67 33 92 2.47e-14 65.5
MS.gene56076.t1 AT1G20700 45.000 60 33 0 8 67 95 154 8.69e-14 65.1
MS.gene56076.t1 AT1G20700 45.000 60 33 0 8 67 95 154 1.11e-13 65.1
MS.gene56076.t1 AT3G03660 49.057 53 27 0 7 59 32 84 3.03e-13 64.3
MS.gene56076.t1 AT3G03660 49.057 53 27 0 7 59 32 84 4.92e-13 64.3
MS.gene56076.t1 AT3G03660 49.057 53 27 0 7 59 32 84 7.58e-13 63.5
MS.gene56076.t1 AT3G03660 49.057 53 27 0 7 59 32 84 1.05e-12 63.5
MS.gene56076.t1 AT5G17810 43.396 53 30 0 7 59 20 72 1.95e-11 59.7
MS.gene56076.t1 AT5G17810 43.396 53 30 0 7 59 20 72 1.95e-11 59.7
MS.gene56076.t1 AT5G17810 43.396 53 30 0 7 59 20 72 2.08e-11 59.3

Find 27 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCTCTCGCCTTGTGATTC+TGG 0.194023 4.4:-28196547 None:intergenic
GCTTCGCAGCTTCGACAATT+TGG 0.206061 4.4:+28196491 MS.gene56076:CDS
AGAGAAAGAGAAGTACGTTA+TGG 0.359866 4.4:+28196634 MS.gene56076:CDS
CGACAATTTGGAAAGATTGA+AGG 0.396848 4.4:+28196503 MS.gene56076:CDS
GAGAAAGAGAAGTACGTTAT+GGG 0.401887 4.4:+28196635 MS.gene56076:CDS
GAAGCTGCGAAGCTATTTGT+TGG 0.428703 4.4:-28196481 None:intergenic
CTTGCCTATACAATTCTTCA+AGG 0.428836 4.4:-28196430 None:intergenic
TAGTCCTTGAAGAATTGTAT+AGG 0.431151 4.4:+28196426 MS.gene56076:CDS
GTTGGACTCCACCTTGAACT+TGG 0.444756 4.4:-28196389 None:intergenic
CTTGAGATGGAGGAAACAAT+TGG 0.464032 4.4:+28196587 MS.gene56076:CDS
TGCATCCTCAACCAAGTTCA+AGG 0.472729 4.4:+28196378 MS.gene56076:CDS
CTCCACCTTGAACTTGGTTG+AGG 0.502185 4.4:-28196383 None:intergenic
TGTTGGATTTGTTCAGCTGA+TGG 0.503667 4.4:-28196464 None:intergenic
TTGTTCACTGCAGTTTGAAG+TGG 0.506780 4.4:-28197209 None:intergenic
TCAAGGACTAGTAATTGAAC+TGG 0.509163 4.4:-28196413 None:intergenic
GAAGCGTCGTCGCCTTGAGA+TGG 0.530642 4.4:+28196574 MS.gene56076:CDS
ACTAGTAATTGAACTGGTGT+TGG 0.537149 4.4:-28196407 None:intergenic
CTTGAAGAATTGTATAGGCA+AGG 0.540070 4.4:+28196431 MS.gene56076:CDS
TCAGAAAAGCAAGAAGCTGC+AGG 0.540109 4.4:+28196662 MS.gene56076:CDS
CAATTGTTTCCTCCATCTCA+AGG 0.548253 4.4:-28196586 None:intergenic
GCGTCGTCGCCTTGAGATGG+AGG 0.576407 4.4:+28196577 MS.gene56076:CDS
TTGAAGAATTGTATAGGCAA+GGG 0.590766 4.4:+28196432 MS.gene56076:CDS
AAACTGCAGTGAACAAGCAG+AGG 0.632631 4.4:+28197216 MS.gene56076:CDS
AGTTAAAGAGACAAAGAAGT+GGG 0.667079 4.4:+28197183 MS.gene56076:CDS
CTATTGGTTCCAGAATCACA+AGG 0.685006 4.4:+28196538 MS.gene56076:CDS
GAGTTAAAGAGACAAAGAAG+TGG 0.689037 4.4:+28197182 MS.gene56076:CDS
ATCCTCAACCAAGTTCAAGG+TGG 0.762805 4.4:+28196381 MS.gene56076:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTTTTTCTTTCAAATA+TGG - chr4.4:28197009-28197028 None:intergenic 10.0%
!!! ATTGCTATTTTTGAAATTTT+AGG + chr4.4:28197061-28197080 MS.gene56076:intron 15.0%
!!! TTGTTGTTTATTCAATTTAA+TGG + chr4.4:28197030-28197049 MS.gene56076:intron 15.0%
!! AAGAAAAAAAAATGACCAAA+TGG - chr4.4:28196870-28196889 None:intergenic 20.0%
!! AGAAAAAAAAATGACCAAAT+GGG - chr4.4:28196869-28196888 None:intergenic 20.0%
!! TCATGAGTGAAATATAATAT+AGG - chr4.4:28196746-28196765 None:intergenic 20.0%
!!! AAAGATAAATAGCTTTTGTA+AGG + chr4.4:28196803-28196822 MS.gene56076:intron 20.0%
!!! ACTATACTTTTAAAGATGTT+AGG - chr4.4:28196985-28197004 None:intergenic 20.0%
!!! CTAAAATCTCTAAAATTGTA+GGG - chr4.4:28196902-28196921 None:intergenic 20.0%
! AAATATCAATTTAGCCCATT+TGG + chr4.4:28196852-28196871 MS.gene56076:intron 25.0%
! AAGGAAAAAATGTGTTCTAT+TGG + chr4.4:28196522-28196541 MS.gene56076:CDS 25.0%
! ACAGCTAGATATTATCTTTA+GGG + chr4.4:28196688-28196707 MS.gene56076:intron 25.0%
! TACAGCTAGATATTATCTTT+AGG + chr4.4:28196687-28196706 MS.gene56076:intron 25.0%
! TCAATATGATATTCTTGCAT+AGG + chr4.4:28196954-28196973 MS.gene56076:intron 25.0%
!! ATGTATATGAGTTGAATTTG+TGG + chr4.4:28197130-28197149 MS.gene56076:intron 25.0%
!!! ATTATCTTTAGGGTTATTCA+AGG + chr4.4:28196698-28196717 MS.gene56076:intron 25.0%
!!! CCTAAAATCTCTAAAATTGT+AGG - chr4.4:28196903-28196922 None:intergenic 25.0%
!!! CCTACAATTTTAGAGATTTT+AGG + chr4.4:28196900-28196919 MS.gene56076:intron 25.0%
ACACACACTTCAAATTGTAA+GGG - chr4.4:28197100-28197119 None:intergenic 30.0%
AGTTAAAGAGACAAAGAAGT+GGG + chr4.4:28197183-28197202 MS.gene56076:CDS 30.0%
TAGTCCTTGAAGAATTGTAT+AGG + chr4.4:28196426-28196445 MS.gene56076:CDS 30.0%
TTGAAGAATTGTATAGGCAA+GGG + chr4.4:28196432-28196451 MS.gene56076:CDS 30.0%
! AATAGCTTTTGTAAGGATCT+CGG + chr4.4:28196810-28196829 MS.gene56076:intron 30.0%
! GTTATTCAAGGTTCTTTTAG+TGG + chr4.4:28196710-28196729 MS.gene56076:intron 30.0%
ACTAGTAATTGAACTGGTGT+TGG - chr4.4:28196410-28196429 None:intergenic 35.0%
CACACACACTTCAAATTGTA+AGG - chr4.4:28197101-28197120 None:intergenic 35.0%
CGACAATTTGGAAAGATTGA+AGG + chr4.4:28196503-28196522 MS.gene56076:CDS 35.0%
CTTGAAGAATTGTATAGGCA+AGG + chr4.4:28196431-28196450 MS.gene56076:CDS 35.0%
CTTGCCTATACAATTCTTCA+AGG - chr4.4:28196433-28196452 None:intergenic 35.0%
GAGTTAAAGAGACAAAGAAG+TGG + chr4.4:28197182-28197201 MS.gene56076:CDS 35.0%
! AGAGAAAGAGAAGTACGTTA+TGG + chr4.4:28196634-28196653 MS.gene56076:CDS 35.0%
! GAGAAAGAGAAGTACGTTAT+GGG + chr4.4:28196635-28196654 MS.gene56076:CDS 35.0%
! TCAAGGACTAGTAATTGAAC+TGG - chr4.4:28196416-28196435 None:intergenic 35.0%
! TGAGTTGAATTTGTGGTGAT+TGG + chr4.4:28197137-28197156 MS.gene56076:intron 35.0%
!! GATTGGATTTTGAAAGAGAC+AGG + chr4.4:28197154-28197173 MS.gene56076:intron 35.0%
CAATTGTTTCCTCCATCTCA+AGG - chr4.4:28196589-28196608 None:intergenic 40.0%
CTTGAGATGGAGGAAACAAT+TGG + chr4.4:28196587-28196606 MS.gene56076:CDS 40.0%
TTGTTCACTGCAGTTTGAAG+TGG - chr4.4:28197212-28197231 None:intergenic 40.0%
! TGTTGGATTTGTTCAGCTGA+TGG - chr4.4:28196467-28196486 None:intergenic 40.0%
!! ATTTTGAAAGAGACAGGTGG+TGG + chr4.4:28197160-28197179 MS.gene56076:intron 40.0%
!! CTATTGGTTCCAGAATCACA+AGG + chr4.4:28196538-28196557 MS.gene56076:CDS 40.0%
!! TGGATTTTGAAAGAGACAGG+TGG + chr4.4:28197157-28197176 MS.gene56076:intron 40.0%
ATCCTCAACCAAGTTCAAGG+TGG + chr4.4:28196381-28196400 MS.gene56076:CDS 45.0%
GAAGCTGCGAAGCTATTTGT+TGG - chr4.4:28196484-28196503 None:intergenic 45.0%
TCAGAAAAGCAAGAAGCTGC+AGG + chr4.4:28196662-28196681 MS.gene56076:CDS 45.0%
TGCATCCTCAACCAAGTTCA+AGG + chr4.4:28196378-28196397 MS.gene56076:CDS 45.0%
CTCCACCTTGAACTTGGTTG+AGG - chr4.4:28196386-28196405 None:intergenic 50.0%
GCTTCGCAGCTTCGACAATT+TGG + chr4.4:28196491-28196510 MS.gene56076:CDS 50.0%
GTTGGACTCCACCTTGAACT+TGG - chr4.4:28196392-28196411 None:intergenic 50.0%
CTGTCTCTCTCTCTCTCTGC+TGG - chr4.4:28196781-28196800 None:intergenic 55.0%
GCTCTCTCGCCTTGTGATTC+TGG - chr4.4:28196550-28196569 None:intergenic 55.0%
!! GAAGCGTCGTCGCCTTGAGA+TGG + chr4.4:28196574-28196593 MS.gene56076:CDS 60.0%
GCGTCGTCGCCTTGAGATGG+AGG + chr4.4:28196577-28196596 MS.gene56076:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 28196377 28197237 28196377 ID=MS.gene56076
chr4.4 mRNA 28196377 28197237 28196377 ID=MS.gene56076.t1;Parent=MS.gene56076
chr4.4 exon 28196377 28196683 28196377 ID=MS.gene56076.t1.exon1;Parent=MS.gene56076.t1
chr4.4 CDS 28196377 28196683 28196377 ID=cds.MS.gene56076.t1;Parent=MS.gene56076.t1
chr4.4 exon 28197176 28197237 28197176 ID=MS.gene56076.t1.exon2;Parent=MS.gene56076.t1
chr4.4 CDS 28197176 28197237 28197176 ID=cds.MS.gene56076.t1;Parent=MS.gene56076.t1
Gene Sequence

>MS.gene56076

ATGCATCCTCAACCAAGTTCAAGGTGGAGTCCAACACCAGTTCAATTACTAGTCCTTGAAGAATTGTATAGGCAAGGGATGAAAACACCATCAGCTGAACAAATCCAACAAATAGCTTCGCAGCTTCGACAATTTGGAAAGATTGAAGGAAAAAATGTGTTCTATTGGTTCCAGAATCACAAGGCGAGAGAGCGACAGAAGCGTCGTCGCCTTGAGATGGAGGAAACAATTGGTTCTTCTTCAACTGAAGATAAAAAAGAGAAAGAGAAGTACGTTATGGGAAATTCAGAAAAGCAAGAAGCTGCAGGTATACAGCTAGATATTATCTTTAGGGTTATTCAAGGTTCTTTTAGTGGTCAAAAGATTCCTATATTATATTTCACTCATGACATTACAAGTTACCAGCAGAGAGAGAGAGAGACAGAAAAAGATAAATAGCTTTTGTAAGGATCTCGGTAAATTTAACAAATTTACAAAATATCAATTTAGCCCATTTGGTCATTTTTTTTTCTTCAAATATAGCCCTACAATTTTAGAGATTTTAGGTTTATTCTGATGCAACAAGAAACTATAGAAGTCAATATGATATTCTTGCATAGGATAAACCTAACATCTTTAAAAGTATAGTGCCATATTTGAAAGAAAAAAATTTATTGTTGTTTATTCAATTTAATGGACTAAATTATTGCTATTTTTGAAATTTTAGGCATTAAATTAACACCCTTACAATTTGAAGTGTGTGTGAATATGTATATGTATATGAGTTGAATTTGTGGTGATTGGATTTTGAAAGAGACAGGTGGTGGAGTTAAAGAGACAAAGAAGTGGGCAACCACTTCAAACTGCAGTGAACAAGCAGAG
Protein sequence

>MS.gene56076.t1

MHPQPSSRWSPTPVQLLVLEELYRQGMKTPSAEQIQQIASQLRQFGKIEGKNVFYWFQNHKARERQKRRRLEMEETIGSSSTEDKKEKEKYVMGNSEKQEAAGGGVKETKKWATTSNCSEQAE