AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57856

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57856.t1 MTR_5g080660 68.376 234 15 3 1 175 1 234 9.16e-107 305
MS.gene57856.t1 MTR_3g068095 52.500 120 41 3 11 115 8 126 5.56e-31 113
MS.gene57856.t1 MTR_3g068095 37.821 156 68 9 40 173 112 260 1.97e-11 61.2
MS.gene57856.t1 MTR_4g021270 71.014 69 16 1 23 91 35 99 5.01e-28 107
MS.gene57856.t1 MTR_5g014400 64.474 76 24 3 10 84 44 117 3.08e-27 103
MS.gene57856.t1 MTR_1g070265 59.701 67 26 1 41 106 29 95 1.55e-19 81.6
MS.gene57856.t1 MTR_2g076060 66.667 48 15 1 38 84 40 87 2.25e-18 79.3
MS.gene57856.t1 MTR_4g064873 73.684 38 10 0 46 83 20 57 1.66e-14 68.2
MS.gene57856.t1 MTR_7g063220 37.302 126 53 3 47 170 24 125 3.98e-14 66.2
MS.gene57856.t1 MTR_1g070250 45.833 72 32 2 43 107 34 105 3.43e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57856.t1 AT2G37740 64.286 70 19 2 11 80 7 70 1.24e-25 100
MS.gene57856.t1 AT4G17810 62.319 69 23 2 10 76 6 73 7.10e-25 95.1
MS.gene57856.t1 AT4G17810 62.319 69 23 2 10 76 6 73 1.25e-24 95.5
MS.gene57856.t1 AT5G06070 55.952 84 26 2 6 88 22 95 6.61e-23 91.3
MS.gene57856.t1 AT3G23130 76.744 43 10 0 37 79 35 77 1.90e-18 79.3
MS.gene57856.t1 AT2G42410 32.184 174 64 5 44 168 44 212 2.46e-17 76.3
MS.gene57856.t1 AT2G42410 32.184 174 64 5 44 168 44 212 2.46e-17 76.3
MS.gene57856.t1 AT2G42410 32.184 174 64 5 44 168 70 238 4.32e-17 76.3
MS.gene57856.t1 AT3G09290 32.099 162 67 5 39 175 25 168 7.06e-15 68.9
MS.gene57856.t1 AT3G53820 50.725 69 30 3 40 106 14 80 1.09e-13 65.1
MS.gene57856.t1 AT5G43540 33.333 126 56 4 48 168 34 136 8.25e-11 57.4

Find 32 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCTGATCAGTACTGGTTT+TGG 0.291198 5.2:+68453722 MS.gene57856:CDS
ACTATTCCTAGTAAGGAAAA+AGG 0.312548 5.2:+68454222 MS.gene57856:CDS
AATTTGTCTTTAGGAATGTT+TGG 0.353496 5.2:+68454186 MS.gene57856:intron
TTAGATCTTGAACTCAGGTT+GGG 0.396208 5.2:+68454393 MS.gene57856:CDS
AAATGATCATCATAGGTTCC+TGG 0.401685 5.2:+68454317 MS.gene57856:CDS
TTTAGGTCTGCTCAAGCTCT+TGG 0.423987 5.2:+68453880 MS.gene57856:CDS
ATCATCAACTATTCCTAGTA+AGG 0.427141 5.2:+68454215 MS.gene57856:CDS
CTGAAGGTTGTTGAAAAGCC+AGG 0.429995 5.2:-68454335 None:intergenic
CAACCTTCAGAAATTGTACT+AGG 0.453879 5.2:+68454348 MS.gene57856:CDS
TTCAAGCACCAATTGAATCA+TGG 0.457719 5.2:+68453761 MS.gene57856:CDS
AATTGAATCATGGGAAGAAA+AGG 0.467520 5.2:+68453771 MS.gene57856:CDS
ATCAAATCATTGTTCTTCTG+AGG 0.467552 5.2:-68453958 None:intergenic
TTTAGATCTTGAACTCAGGT+TGG 0.474254 5.2:+68454392 MS.gene57856:CDS
GATCTTACTCTGATCAGTAC+TGG 0.491061 5.2:+68453716 MS.gene57856:CDS
TCAAGCACCAATTGAATCAT+GGG 0.500236 5.2:+68453762 MS.gene57856:CDS
AAGATTTAGATCTTGAACTC+AGG 0.503939 5.2:+68454388 MS.gene57856:CDS
AAGTTACATGAATAAAATCT+TGG 0.505499 5.2:-68453844 None:intergenic
CATGTTCAAATGATCATCAT+AGG 0.515352 5.2:+68454310 MS.gene57856:CDS
AGGTCTGCTCAAGCTCTTGG+TGG 0.535050 5.2:+68453883 MS.gene57856:CDS
TAGATCTTGAACTCAGGTTG+GGG 0.538027 5.2:+68454394 MS.gene57856:CDS
TCAAATCATTGTTCTTCTGA+GGG 0.542057 5.2:-68453957 None:intergenic
GTGGTCACATGAATATTCAT+AGG 0.543934 5.2:+68453902 MS.gene57856:CDS
ATTGTACTAGGACTTGATCA+TGG 0.568821 5.2:+68454360 MS.gene57856:CDS
TTACATGAATAAAATCTTGG+TGG 0.571433 5.2:-68453841 None:intergenic
GCAGCTAGGAATATACTGAA+TGG 0.590719 5.2:+68453808 MS.gene57856:CDS
AGTCCTAGTACAATTTCTGA+AGG 0.591874 5.2:-68454351 None:intergenic
TTCATAGGAGAGATAGAGCT+AGG 0.597256 5.2:+68453917 MS.gene57856:CDS
ACTAGGACTTGATCATGGAA+TGG 0.618438 5.2:+68454365 MS.gene57856:CDS
GATTTGATCAACTCATCACT+AGG 0.628308 5.2:+68453973 MS.gene57856:CDS
GATCATTTGAACATGTCTTG+AGG 0.638691 5.2:-68454302 None:intergenic
CATGTCTTGAGGAACACAGA+AGG 0.671603 5.2:-68454291 None:intergenic
ATATACTGAATGGTAGCATG+TGG 0.674162 5.2:+68453818 MS.gene57856:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATAATTACAATCTATTTT+TGG - chr5.2:68454027-68454046 None:intergenic 15.0%
!! AAGTTACATGAATAAAATCT+TGG - chr5.2:68453847-68453866 None:intergenic 20.0%
! GTTGAAACAAATTTGTCTTT+AGG + chr5.2:68454177-68454196 MS.gene57856:intron 25.0%
! TTACATGAATAAAATCTTGG+TGG - chr5.2:68453844-68453863 None:intergenic 25.0%
! TTAGTTGAGATAATTCTAGA+AGG - chr5.2:68454114-68454133 None:intergenic 25.0%
!! AATTTGTCTTTAGGAATGTT+TGG + chr5.2:68454186-68454205 MS.gene57856:intron 25.0%
!! ACTTTTGTAAAAGAGAGTTT+AGG + chr5.2:68453863-68453882 MS.gene57856:CDS 25.0%
!! CTTCTTCTAGTTGTAATTAA+GGG - chr5.2:68454081-68454100 None:intergenic 25.0%
!! TCTTCTTCTAGTTGTAATTA+AGG - chr5.2:68454082-68454101 None:intergenic 25.0%
AAGATTTAGATCTTGAACTC+AGG + chr5.2:68454388-68454407 MS.gene57856:CDS 30.0%
AATTGAATCATGGGAAGAAA+AGG + chr5.2:68453771-68453790 MS.gene57856:CDS 30.0%
ACTATTCCTAGTAAGGAAAA+AGG + chr5.2:68454222-68454241 MS.gene57856:CDS 30.0%
ATCAAATCATTGTTCTTCTG+AGG - chr5.2:68453961-68453980 None:intergenic 30.0%
ATCATCAACTATTCCTAGTA+AGG + chr5.2:68454215-68454234 MS.gene57856:CDS 30.0%
CATGTTCAAATGATCATCAT+AGG + chr5.2:68454310-68454329 MS.gene57856:CDS 30.0%
TCAAATCATTGTTCTTCTGA+GGG - chr5.2:68453960-68453979 None:intergenic 30.0%
! ATGATACCTTTTTCCTTACT+AGG - chr5.2:68454231-68454250 None:intergenic 30.0%
! TGCTAGAGAAGACAATTTTT+CGG + chr5.2:68454140-68454159 MS.gene57856:intron 30.0%
! TTGTAATTAAGGGTTTTGCA+GGG - chr5.2:68454071-68454090 None:intergenic 30.0%
! TTTTCTTCCCATGATTCAAT+TGG - chr5.2:68453772-68453791 None:intergenic 30.0%
!! AGACAATTTTTCGGATTGTA+AGG + chr5.2:68454149-68454168 MS.gene57856:intron 30.0%
AAATGATCATCATAGGTTCC+TGG + chr5.2:68454317-68454336 MS.gene57856:CDS 35.0%
AGTCCTAGTACAATTTCTGA+AGG - chr5.2:68454354-68454373 None:intergenic 35.0%
ATATACTGAATGGTAGCATG+TGG + chr5.2:68453818-68453837 MS.gene57856:CDS 35.0%
ATTGTACTAGGACTTGATCA+TGG + chr5.2:68454360-68454379 MS.gene57856:CDS 35.0%
CAACCTTCAGAAATTGTACT+AGG + chr5.2:68454348-68454367 MS.gene57856:CDS 35.0%
GATCATTTGAACATGTCTTG+AGG - chr5.2:68454305-68454324 None:intergenic 35.0%
GATTTGATCAACTCATCACT+AGG + chr5.2:68453973-68453992 MS.gene57856:CDS 35.0%
GTGGTCACATGAATATTCAT+AGG + chr5.2:68453902-68453921 MS.gene57856:CDS 35.0%
TCAAGCACCAATTGAATCAT+GGG + chr5.2:68453762-68453781 MS.gene57856:CDS 35.0%
TTAGATCTTGAACTCAGGTT+GGG + chr5.2:68454393-68454412 MS.gene57856:CDS 35.0%
TTCAAGCACCAATTGAATCA+TGG + chr5.2:68453761-68453780 MS.gene57856:CDS 35.0%
TTTAGATCTTGAACTCAGGT+TGG + chr5.2:68454392-68454411 MS.gene57856:CDS 35.0%
! AGATAATTCTAGAAGGTGAG+AGG - chr5.2:68454107-68454126 None:intergenic 35.0%
! GATAATTCTAGAAGGTGAGA+GGG - chr5.2:68454106-68454125 None:intergenic 35.0%
! GTTGTAATTAAGGGTTTTGC+AGG - chr5.2:68454072-68454091 None:intergenic 35.0%
ACTAGGACTTGATCATGGAA+TGG + chr5.2:68454365-68454384 MS.gene57856:CDS 40.0%
GATCTTACTCTGATCAGTAC+TGG + chr5.2:68453716-68453735 MS.gene57856:CDS 40.0%
GCAGCTAGGAATATACTGAA+TGG + chr5.2:68453808-68453827 MS.gene57856:CDS 40.0%
TTCATAGGAGAGATAGAGCT+AGG + chr5.2:68453917-68453936 MS.gene57856:CDS 40.0%
! TAGATCTTGAACTCAGGTTG+GGG + chr5.2:68454394-68454413 MS.gene57856:CDS 40.0%
!!! ACTCTGATCAGTACTGGTTT+TGG + chr5.2:68453722-68453741 MS.gene57856:CDS 40.0%
!!! ACTGGTTTTGGATGAAGAGA+AGG + chr5.2:68453734-68453753 MS.gene57856:CDS 40.0%
CATGTCTTGAGGAACACAGA+AGG - chr5.2:68454294-68454313 None:intergenic 45.0%
CTGAAGGTTGTTGAAAAGCC+AGG - chr5.2:68454338-68454357 None:intergenic 45.0%
TTTAGGTCTGCTCAAGCTCT+TGG + chr5.2:68453880-68453899 MS.gene57856:CDS 45.0%
! CTTTTGCAGAAGATGCAGCT+AGG + chr5.2:68453794-68453813 MS.gene57856:CDS 45.0%
! GGTTTTGCAGGGCTAGAACA+AGG - chr5.2:68454060-68454079 None:intergenic 50.0%
AGGTCTGCTCAAGCTCTTGG+TGG + chr5.2:68453883-68453902 MS.gene57856:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 68453709 68454440 68453709 ID=MS.gene57856
chr5.2 mRNA 68453709 68454440 68453709 ID=MS.gene57856.t1;Parent=MS.gene57856
chr5.2 exon 68453709 68453994 68453709 ID=MS.gene57856.t1.exon1;Parent=MS.gene57856.t1
chr5.2 CDS 68453709 68453994 68453709 ID=cds.MS.gene57856.t1;Parent=MS.gene57856.t1
chr5.2 exon 68454199 68454440 68454199 ID=MS.gene57856.t1.exon2;Parent=MS.gene57856.t1
chr5.2 CDS 68454199 68454440 68454199 ID=cds.MS.gene57856.t1;Parent=MS.gene57856.t1
Gene Sequence

>MS.gene57856

ATGGAGGGATCTTACTCTGATCAGTACTGGTTTTGGATGAAGAGAAGGCAAGTTCAAGCACCAATTGAATCATGGGAAGAAAAGGCTTTTGCAGAAGATGCAGCTAGGAATATACTGAATGGTAGCATGTGGCCACCAAGATTTTATTCATGTAACTTTTGTAAAAGAGAGTTTAGGTCTGCTCAAGCTCTTGGTGGTCACATGAATATTCATAGGAGAGATAGAGCTAGGCTCAAACAAAATCTTAGCCCTCAGAAGAACAATGATTTGATCAACTCATCACTAGGTAATCATTATTTTTCTGCAAAAATGTCACCAAAAATAGATTGTAATTATCATCAACTTAAACCTTGTTCTAGCCCTGCAAAACCCTTAATTACAACTAGAAGAAGATCCCTCTCACCTTCTAGAATTATCTCAACTAATGTCAATGCTAGAGAAGACAATTTTTCGGATTGTAAGGATTGTGTTGAAACAAATTTGTCTTTAGGAATGTTTGGACAAAAATCATCAACTATTCCTAGTAAGGAAAAAGGTATCATGAGTTGTAAGAGATTGAAGACTAATAACATTTCTTCATTGCCTTCTGTGTTCCTCAAGACATGTTCAAATGATCATCATAGGTTCCTGGCTTTTCAACAACCTTCAGAAATTGTACTAGGACTTGATCATGGAATGGAAGATTTAGATCTTGAACTCAGGTTGGGGAAACAACAAAAAATTATTAAGTAG
Protein sequence

>MS.gene57856.t1

MEGSYSDQYWFWMKRRQVQAPIESWEEKAFAEDAARNILNGSMWPPRFYSCNFCKREFRSAQALGGHMNIHRRDRARLKQNLSPQKNNDLINSSLGMFGQKSSTIPSKEKGIMSCKRLKTNNISSLPSVFLKTCSNDHHRFLAFQQPSEIVLGLDHGMEDLDLELRLGKQQKIIK