AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066505

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066505.t1 MTR_8g073345 100.000 109 0 0 1 109 1 109 5.23e-76 221
MS.gene066505.t1 MTR_8g073345 100.000 109 0 0 1 109 1 109 1.16e-75 220
MS.gene066505.t1 MTR_5g024180 68.182 110 34 1 1 110 1 109 4.40e-48 150
MS.gene066505.t1 MTR_3g115580 64.286 112 34 3 3 108 5 116 8.27e-38 125
MS.gene066505.t1 MTR_7g082820 62.651 83 30 1 28 110 4 85 6.80e-29 102
MS.gene066505.t1 MTR_7g068280 63.158 76 28 0 33 108 47 122 1.55e-28 102
MS.gene066505.t1 MTR_4g094622 49.351 77 39 0 33 109 60 136 8.61e-23 87.0
MS.gene066505.t1 MTR_1g115220 51.351 74 36 0 33 106 98 171 2.11e-22 87.4
MS.gene066505.t1 MTR_5g024180 59.091 66 24 1 44 106 3 68 8.53e-20 77.8
MS.gene066505.t1 MTR_1g022345 44.000 75 41 1 33 107 554 627 1.80e-12 62.8
MS.gene066505.t1 MTR_8g099305 44.737 76 39 1 33 108 262 334 2.32e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066505.t1 AT1G20696 68.539 89 28 0 25 113 23 111 8.30e-37 122
MS.gene066505.t1 AT1G20696 70.930 86 25 0 25 110 23 108 1.54e-36 121
MS.gene066505.t1 AT1G20693 67.391 92 26 1 18 109 23 110 6.41e-36 120
MS.gene066505.t1 AT1G20693 67.391 92 26 1 18 109 23 110 6.46e-36 120
MS.gene066505.t1 AT1G20693 67.391 92 26 1 18 109 23 110 6.65e-36 120
MS.gene066505.t1 AT1G20696 70.588 85 25 0 25 109 23 107 2.41e-35 118
MS.gene066505.t1 AT2G17560 57.143 105 41 1 5 109 7 107 7.34e-35 117
MS.gene066505.t1 AT2G17560 57.143 105 41 1 5 109 7 107 7.34e-35 117
MS.gene066505.t1 AT2G17560 56.075 107 43 1 5 111 7 109 8.50e-35 117
MS.gene066505.t1 AT4G35570 46.789 109 53 1 3 111 5 108 1.17e-32 111
MS.gene066505.t1 AT4G35570 46.789 109 53 1 3 111 5 108 1.17e-32 111
MS.gene066505.t1 AT3G51880 62.353 85 32 0 25 109 41 125 1.15e-30 107
MS.gene066505.t1 AT3G51880 62.353 85 32 0 25 109 41 125 1.49e-30 107
MS.gene066505.t1 AT3G51880 62.353 85 32 0 25 109 41 125 1.49e-30 107
MS.gene066505.t1 AT3G51880 62.353 85 32 0 25 109 41 125 1.49e-30 107
MS.gene066505.t1 AT3G51880 62.353 85 32 0 25 109 41 125 1.53e-30 107
MS.gene066505.t1 AT1G20696 61.538 65 25 0 45 109 1 65 8.05e-21 80.5
MS.gene066505.t1 AT1G20696 61.538 65 25 0 45 109 1 65 1.03e-20 80.1
MS.gene066505.t1 AT2G34450 45.205 73 40 0 37 109 63 135 6.64e-20 79.7
MS.gene066505.t1 AT2G34450 45.205 73 40 0 37 109 63 135 6.64e-20 79.7
MS.gene066505.t1 AT2G34450 45.205 73 40 0 37 109 63 135 6.64e-20 79.7
MS.gene066505.t1 AT2G34450 44.595 74 40 1 37 109 63 136 2.03e-18 75.9
MS.gene066505.t1 AT5G23420 50.000 72 33 2 28 98 106 175 3.87e-15 68.9
MS.gene066505.t1 AT4G23800 42.308 78 40 2 33 108 369 443 2.43e-11 59.3
MS.gene066505.t1 AT4G23800 45.205 73 37 1 33 105 251 320 4.99e-11 58.5
MS.gene066505.t1 AT4G23800 42.308 78 40 2 33 108 375 449 2.46e-11 59.3
MS.gene066505.t1 AT4G23800 45.205 73 37 1 33 105 251 320 5.20e-11 58.5
MS.gene066505.t1 AT4G11080 45.205 73 37 1 33 105 242 311 6.29e-11 58.2

Find 24 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGTCTCTTTGGCTTGTT+AGG 0.235866 8.2:-30955097 None:intergenic
AAAGCACTTGGAGGTCTCTT+TGG 0.290758 8.2:-30955106 None:intergenic
CTTATACTGTTCTCTAAAAT+CGG 0.321982 8.2:-30955259 None:intergenic
ATTCACCAGTTTCTTGTTGT+AGG 0.325921 8.2:-30955673 None:intergenic
GCGGCAACGGATTTGTTGTT+AGG 0.341320 8.2:-30955291 None:intergenic
TTACCGGTTATCAGCGGGTT+TGG 0.344714 8.2:-30954895 None:intergenic
TTGGAATCAGCTTTAACTTT+CGG 0.360829 8.2:-30954876 None:intergenic
AGCTTGAAGCGCAAAGGTGC+TGG 0.381485 8.2:+30955037 MS.gene066505:intron
ATTCCAAACCCGCTGATAAC+CGG 0.438213 8.2:+30954892 MS.gene066505:CDS
ACAAGCCTACAACAAGAAAC+TGG 0.447828 8.2:+30955668 MS.gene066505:CDS
AAGCGCAAAGGTGCTGGAGC+TGG 0.461656 8.2:+30955043 MS.gene066505:CDS
TTCAATGCCCTAGCAGCATA+AGG 0.463633 8.2:-30955618 None:intergenic
GCGATTTACCGGTTATCAGC+GGG 0.487221 8.2:-30954900 None:intergenic
GAGATTTCTTACAGCGGCAA+CGG 0.506191 8.2:-30955304 None:intergenic
CAAGGCTCCTTATGCTGCTA+GGG 0.507356 8.2:+30955611 MS.gene066505:CDS
ACAAGGCTCCTTATGCTGCT+AGG 0.511412 8.2:+30955610 MS.gene066505:CDS
GAAAAGCTTGCGGTGAAGCA+TGG 0.538505 8.2:+30955448 MS.gene066505:CDS
AAAACGAAGAAAGCACTTGG+AGG 0.558317 8.2:-30955115 None:intergenic
ATCAGCTTTAACTTTCGGCA+TGG 0.563633 8.2:-30954871 None:intergenic
ACAGACGAAGAAAGCAGCGA+AGG 0.587729 8.2:+30955072 MS.gene066505:CDS
ATGAAAACGAAGAAAGCACT+TGG 0.589018 8.2:-30955118 None:intergenic
AATTAGGTCGGAAAAGCTTG+CGG 0.611496 8.2:+30955438 MS.gene066505:intron
GCAAAGGTGCTGGAGCTGGA+AGG 0.622916 8.2:+30955047 MS.gene066505:CDS
AGCGATTTACCGGTTATCAG+CGG 0.628276 8.2:-30954901 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTATTTATTTTATTTTT+TGG + chr8.2:30955348-30955367 MS.gene066505:intron 0.0%
!!! TAATTTTTCGAAAATTAATT+AGG + chr8.2:30955422-30955441 MS.gene066505:intron 10.0%
!!! TTAATTTTAATTGATGATTT+AGG + chr8.2:30955235-30955254 MS.gene066505:intron 10.0%
!!! ATTTTTTGGATTATAATTTG+TGG + chr8.2:30955362-30955381 MS.gene066505:intron 15.0%
!!! TTTTTTTTGTTAACTTTCAT+CGG + chr8.2:30955514-30955533 MS.gene066505:intron 15.0%
!! CTAATCAGATCTAAAAAAAT+TGG - chr8.2:30954951-30954970 None:intergenic 20.0%
!!! TAATTTGTGGATTTTATTGT+CGG + chr8.2:30955375-30955394 MS.gene066505:intron 20.0%
!!! TGATTTGTTCGTTTTTTTAA+CGG + chr8.2:30955208-30955227 MS.gene066505:intron 20.0%
!!! TTTCAGATTTGAATCTTTTT+TGG + chr8.2:30955168-30955187 MS.gene066505:intron 20.0%
!!! TTTTCGAAAATTAATTAGGT+CGG + chr8.2:30955426-30955445 MS.gene066505:intron 20.0%
!!! CTTATACTGTTCTCTAAAAT+CGG - chr8.2:30955262-30955281 None:intergenic 25.0%
TTGGAGAAGAAAAAATCGAA+CGG - chr8.2:30954932-30954951 None:intergenic 30.0%
! TTGGAATCAGCTTTAACTTT+CGG - chr8.2:30954879-30954898 None:intergenic 30.0%
!!! GTACTGTGATTTTGATTTTC+AGG + chr8.2:30955587-30955606 MS.gene066505:intron 30.0%
!!! TGATTTTGATTTTCAGGACA+AGG + chr8.2:30955593-30955612 MS.gene066505:intron 30.0%
GTAAACGAGATTTCTTACAG+CGG - chr8.2:30955313-30955332 None:intergenic 35.0%
! ATTCACCAGTTTCTTGTTGT+AGG - chr8.2:30955676-30955695 None:intergenic 35.0%
!! ATGAAAACGAAGAAAGCACT+TGG - chr8.2:30955121-30955140 None:intergenic 35.0%
AATTAGGTCGGAAAAGCTTG+CGG + chr8.2:30955438-30955457 MS.gene066505:intron 40.0%
ACAAGCCTACAACAAGAAAC+TGG + chr8.2:30955668-30955687 MS.gene066505:CDS 40.0%
!! AAAACGAAGAAAGCACTTGG+AGG - chr8.2:30955118-30955137 None:intergenic 40.0%
!!! GATTTTAGCTTGAAGCGCAA+AGG + chr8.2:30955031-30955050 MS.gene066505:intron 40.0%
AACGGTGAGAAGCGATTTAC+CGG - chr8.2:30954914-30954933 None:intergenic 45.0%
ATTCCAAACCCGCTGATAAC+CGG + chr8.2:30954892-30954911 MS.gene066505:CDS 45.0%
GAGATTTCTTACAGCGGCAA+CGG - chr8.2:30955307-30955326 None:intergenic 45.0%
TTCAATGCCCTAGCAGCATA+AGG - chr8.2:30955621-30955640 None:intergenic 45.0%
! AAAGCACTTGGAGGTCTCTT+TGG - chr8.2:30955109-30955128 None:intergenic 45.0%
! AGCGATTTACCGGTTATCAG+CGG - chr8.2:30954904-30954923 None:intergenic 45.0%
ACAAGGCTCCTTATGCTGCT+AGG + chr8.2:30955610-30955629 MS.gene066505:CDS 50.0%
ACAGACGAAGAAAGCAGCGA+AGG + chr8.2:30955072-30955091 MS.gene066505:CDS 50.0%
CAAGGCTCCTTATGCTGCTA+GGG + chr8.2:30955611-30955630 MS.gene066505:CDS 50.0%
GAAAAGCTTGCGGTGAAGCA+TGG + chr8.2:30955448-30955467 MS.gene066505:CDS 50.0%
! GCGATTTACCGGTTATCAGC+GGG - chr8.2:30954903-30954922 None:intergenic 50.0%
! TTACCGGTTATCAGCGGGTT+TGG - chr8.2:30954898-30954917 None:intergenic 50.0%
!! GCGGCAACGGATTTGTTGTT+AGG - chr8.2:30955294-30955313 None:intergenic 50.0%
!! GGAGGTCTCTTTGGCTTGTT+AGG - chr8.2:30955100-30955119 None:intergenic 50.0%
! AGCTTGAAGCGCAAAGGTGC+TGG + chr8.2:30955037-30955056 MS.gene066505:intron 55.0%
!! AAGCGCAAAGGTGCTGGAGC+TGG + chr8.2:30955043-30955062 MS.gene066505:CDS 60.0%
!! GCAAAGGTGCTGGAGCTGGA+AGG + chr8.2:30955047-30955066 MS.gene066505:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 30954873 30955710 30954873 ID=MS.gene066505
chr8.2 mRNA 30954873 30955710 30954873 ID=MS.gene066505.t1;Parent=MS.gene066505
chr8.2 exon 30954873 30954913 30954873 ID=MS.gene066505.t1.exon1;Parent=MS.gene066505.t1
chr8.2 CDS 30954873 30954913 30954873 ID=cds.MS.gene066505.t1;Parent=MS.gene066505.t1
chr8.2 exon 30955039 30955140 30955039 ID=MS.gene066505.t1.exon2;Parent=MS.gene066505.t1
chr8.2 CDS 30955039 30955140 30955039 ID=cds.MS.gene066505.t1;Parent=MS.gene066505.t1
chr8.2 exon 30955257 30955314 30955257 ID=MS.gene066505.t1.exon3;Parent=MS.gene066505.t1
chr8.2 CDS 30955257 30955314 30955257 ID=cds.MS.gene066505.t1;Parent=MS.gene066505.t1
chr8.2 exon 30955444 30955488 30955444 ID=MS.gene066505.t1.exon4;Parent=MS.gene066505.t1
chr8.2 CDS 30955444 30955488 30955444 ID=cds.MS.gene066505.t1;Parent=MS.gene066505.t1
chr8.2 exon 30955609 30955710 30955609 ID=MS.gene066505.t1.exon5;Parent=MS.gene066505.t1
chr8.2 CDS 30955609 30955710 30955609 ID=cds.MS.gene066505.t1;Parent=MS.gene066505.t1
Gene Sequence

>MS.gene066505

ATGCCGAAAGTTAAAGCTGATTCCAAACCCGCTGATAACCGGTAAATCGCTTCTCACCGTTCGATTTTTTCTTCTCCAATTTTTTTAGATCTGATTAGTTCGATCTAGTTTTTGTTGATTTTTTGCTATTTTTGTTGATTTTTCGATTTTTTTGTGTTGATTTTAGCTTGAAGCGCAAAGGTGCTGGAGCTGGAAGGAAACAGACGAAGAAAGCAGCGAAGGATCCTAACAAGCCAAAGAGACCTCCAAGTGCTTTCTTCGTTTTCATGTATAATTTTAACTTTTTAATTTTTTATTTCAGATTTGAATCTTTTTTGGTTGTGAATTTTTGTTTCTGATTTGTTCGTTTTTTTAACGGTTATTTAATTTTAATTGATGATTTAGGTCCGATTTTAGAGAACAGTATAAGAAAGATCATCCTAACAACAAATCCGTTGCCGCTGTAAGAAATCTCGTTTACTTTTCGATTTATGAATTTTTATTTATTTTATTTTTTGGATTATAATTTGTGGATTTTATTGTCGGAAAATTATTATTATTTTAATTAATTAATTTTTCGAAAATTAATTAGGTCGGAAAAGCTTGCGGTGAAGCATGGAAATCGATGTCTGAAGAAGTGAGTTATTTTATGCTTTGATTTTTTTTTTTTGTTAACTTTCATCGGTATTATGTGATTTAATTAATTATATATAGATTTTTTTTTTAATTTAGTTTGTACTGTGATTTTGATTTTCAGGACAAGGCTCCTTATGCTGCTAGGGCATTGAAGAAGAAAGAAGAGTATGAAGTTGCTACACAAGCCTACAACAAGAAACTGGTGAATATTCATTCATATTAG
Protein sequence

>MS.gene066505.t1

MPKVKADSKPADNRLKRKGAGAGRKQTKKAAKDPNKPKRPPSAFFVFMSDFREQYKKDHPNNKSVAAVGKACGEAWKSMSEEDKAPYAARALKKKEEYEVATQAYNKKLVNIHSY