AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24789


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24789.t1 MTR_4g124960 92.683 205 11 2 1 204 1 202 1.53e-128 360
MS.gene24789.t1 MTR_4g124960 92.571 175 10 1 1 175 1 172 6.99e-108 307
MS.gene24789.t1 MTR_2g042900 44.828 261 76 11 1 204 1 250 1.22e-49 162
MS.gene24789.t1 MTR_4g124950 64.286 126 40 1 70 190 1 126 1.20e-43 142
MS.gene24789.t1 MTR_2g042900 49.112 169 58 7 1 144 1 166 1.05e-33 121
MS.gene24789.t1 MTR_5g013530 36.478 159 71 5 76 204 5 163 1.12e-21 87.8
MS.gene24789.t1 MTR_5g013530 39.007 141 65 5 85 204 1 141 1.32e-21 87.0
MS.gene24789.t1 MTR_5g013520 38.400 125 59 4 98 204 9 133 7.10e-21 84.7
MS.gene24789.t1 MTR_5g013515 36.364 132 60 2 94 201 4 135 1.38e-20 84.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24789.t1 AT1G19180 36.328 256 106 8 1 203 1 252 9.40e-36 126
MS.gene24789.t1 AT1G19180 36.328 256 106 8 1 203 1 252 9.40e-36 126
MS.gene24789.t1 AT1G74950 35.745 235 84 10 7 180 1 229 1.13e-27 105
MS.gene24789.t1 AT1G74950 35.683 227 79 10 7 172 1 221 2.94e-24 95.9
MS.gene24789.t1 AT1G19180 39.098 133 52 3 99 203 55 186 1.16e-18 80.1
MS.gene24789.t1 AT1G17380 29.353 201 108 5 13 180 7 206 5.02e-14 69.3

Find 44 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGACTTCATCGGACATTTC+TGG 0.184990 8.2:+7733907 MS.gene24789:CDS
ATTGTCAATTGTGCAGTTTC+TGG 0.207124 8.2:-7734530 None:intergenic
CCTTCTTCTCCTTGAGGTAT+TGG 0.218986 8.2:-7733999 None:intergenic
CAACAACCTCCCTCACTAAT+TGG 0.267401 8.2:+7734668 MS.gene24789:CDS
GGTTGTTGAGGGATCATATT+AGG 0.294900 8.2:-7734653 None:intergenic
AGCTTCACTTCGTCGATTCA+TGG 0.304214 8.2:+7734849 MS.gene24789:CDS
TCAGGAAAGGTTCTTTGATA+TGG 0.341074 8.2:-7735297 None:intergenic
TTTATTTACCATTTGTTTCA+GGG 0.363709 8.2:-7734059 None:intergenic
CGACTTTATCAGTTTGTTGC+CGG 0.376712 8.2:-7733935 None:intergenic
AGCTCCTCAACTTTCTCAGC+AGG 0.410410 8.2:-7734590 None:intergenic
TCCGCTCCATGGCTTGTGTT+AGG 0.414480 8.2:+7735345 MS.gene24789:CDS
TTACAGAGTTATTAATCCTA+TGG 0.427315 8.2:+7734499 MS.gene24789:intron
TCATGGAGAAGAGGAAAGAT+AGG 0.451183 8.2:+7734866 MS.gene24789:CDS
GTTTCTGGCTCTTTAACCAT+AGG 0.475200 8.2:-7734515 None:intergenic
CCAATACCTCAAGGAGAAGA+AGG 0.480824 8.2:+7733999 MS.gene24789:CDS
CAATCTACAGGGTCATCACC+TGG 0.484929 8.2:+7734279 MS.gene24789:intron
TTAGTGAGGGAGGTTGTTGA+GGG 0.495882 8.2:-7734664 None:intergenic
TTATTTACCATTTGTTTCAG+GGG 0.508177 8.2:-7734058 None:intergenic
GATACCAATGTCGACTTCAT+CGG 0.515126 8.2:+7733897 None:intergenic
ATTAGTGAGGGAGGTTGTTG+AGG 0.517348 8.2:-7734665 None:intergenic
GCATGCACCCCTGAAACAAA+TGG 0.517892 8.2:+7734051 MS.gene24789:CDS
GAGAAGAAGGGTAGTTTCGA+AGG 0.535740 8.2:+7734012 MS.gene24789:CDS
CAGGGGTGCATGCGTTGTGA+AGG 0.536647 8.2:-7734041 None:intergenic
CCTGGTTCATCTTCTCACTC+TGG 0.547944 8.2:+7734297 MS.gene24789:CDS
CCAGAGTGAGAAGATGAACC+AGG 0.548191 8.2:-7734297 None:intergenic
AGCATGCTGACTCCGCTCCA+TGG 0.562298 8.2:+7735334 MS.gene24789:CDS
TAATGGACAAGTGATTGTGT+TGG 0.567823 8.2:+7734559 MS.gene24789:CDS
TGCATGCGTTGTGAAGGTTA+AGG 0.575616 8.2:-7734035 None:intergenic
AAATCAATTACCAATTAGTG+AGG 0.584879 8.2:-7734678 None:intergenic
GGTTCTTTGATATGGTGAGT+AGG 0.584950 8.2:-7735289 None:intergenic
TTCTGGAGCAGAGTCAGGAA+AGG 0.587295 8.2:-7735310 None:intergenic
GTTTGTGGGAAATAAATCCA+TGG 0.589977 8.2:-7734325 None:intergenic
TTAGCACCTAACACAAGCCA+TGG 0.596993 8.2:-7735351 None:intergenic
AACTACCCTTCTTCTCCTTG+AGG 0.603992 8.2:-7734005 None:intergenic
TTCTCACTCTGGAATAACCA+TGG 0.605298 8.2:+7734308 MS.gene24789:CDS
CAATTACCAATTAGTGAGGG+AGG 0.610131 8.2:-7734674 None:intergenic
CAATACCTCAAGGAGAAGAA+GGG 0.616382 8.2:+7734000 MS.gene24789:CDS
TTCGTCGATTCATGGAGAAG+AGG 0.618289 8.2:+7734857 MS.gene24789:CDS
ACCTAACACAAGCCATGGAG+CGG 0.623220 8.2:-7735346 None:intergenic
TCTATTGAGCCAATACCTCA+AGG 0.624878 8.2:+7733990 MS.gene24789:CDS
AATCAATTACCAATTAGTGA+GGG 0.634671 8.2:-7734677 None:intergenic
ATGTCCGATGAAGTCGACAT+TGG 0.636880 8.2:-7733901 None:intergenic
TTACAAGTTTGAGAAAACGT+AGG 0.650898 8.2:-7733967 None:intergenic
CAACAAACTGATAAAGTCGT+CGG 0.655555 8.2:+7733939 MS.gene24789:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTTTTAATTTAACTGA+TGG + chr8.2:7734787-7734806 MS.gene24789:intron 10.0%
!!! TCTCATAATAAATCTTTTTT+CGG + chr8.2:7734997-7735016 MS.gene24789:intron 15.0%
!! TTTATTTACCATTTGTTTCA+GGG - chr8.2:7734062-7734081 None:intergenic 20.0%
!!! ATAATAAATCTTTTTTCGGT+TGG + chr8.2:7735001-7735020 MS.gene24789:intron 20.0%
!!! CAATTGACAATGTTTTATAA+TGG + chr8.2:7734542-7734561 MS.gene24789:CDS 20.0%
!!! TTTTATTTACCATTTGTTTC+AGG - chr8.2:7734063-7734082 None:intergenic 20.0%
!!! TTTTCTTTTTTCAATCTACA+GGG + chr8.2:7734268-7734287 MS.gene24789:intron 20.0%
!!! TTTTTCTTTTTTCAATCTAC+AGG + chr8.2:7734267-7734286 MS.gene24789:intron 20.0%
! AAATCAATTACCAATTAGTG+AGG - chr8.2:7734681-7734700 None:intergenic 25.0%
! AAATGAACTTGGTCAAAAAA+TGG + chr8.2:7734165-7734184 MS.gene24789:intron 25.0%
! AACCGAATAGAGAAAAATAA+GGG - chr8.2:7734224-7734243 None:intergenic 25.0%
! AATCAATTACCAATTAGTGA+GGG - chr8.2:7734680-7734699 None:intergenic 25.0%
! AATCCAAAATCCAAATTAGT+TGG - chr8.2:7735029-7735048 None:intergenic 25.0%
! AGAAAAAATCCATAGTTGTA+AGG - chr8.2:7734365-7734384 None:intergenic 25.0%
! CTTGATAAGTAAATAACAAG+AGG - chr8.2:7735193-7735212 None:intergenic 25.0%
! TAACCGAATAGAGAAAAATA+AGG - chr8.2:7734225-7734244 None:intergenic 25.0%
! TTACAGAGTTATTAATCCTA+TGG + chr8.2:7734499-7734518 MS.gene24789:intron 25.0%
! TTATTTACCATTTGTTTCAG+GGG - chr8.2:7734061-7734080 None:intergenic 25.0%
!! AATTCAGTTCCTATAGTTTT+GGG + chr8.2:7734099-7734118 MS.gene24789:intron 25.0%
!! CAAATACAGGAAATTGTTTT+TGG + chr8.2:7734739-7734758 MS.gene24789:intron 25.0%
!! TTGTGATTTGAAACAAATAC+AGG + chr8.2:7734726-7734745 MS.gene24789:intron 25.0%
!! TTTTTGACCAAGTTCATTTA+AGG - chr8.2:7734164-7734183 None:intergenic 25.0%
!!! ATTTAATTTGTTTGAGAGAG+AGG - chr8.2:7734896-7734915 None:intergenic 25.0%
!!! TTCCCTTATTTTTCTCTATT+CGG + chr8.2:7734219-7734238 MS.gene24789:intron 25.0%
!!! TTGAACATTTTTTGAGCTTT+TGG + chr8.2:7735047-7735066 MS.gene24789:intron 25.0%
AATTGCAATGACTCAAACAA+TGG - chr8.2:7734447-7734466 None:intergenic 30.0%
ATTCTAAACCCCAAAACTAT+AGG - chr8.2:7734111-7734130 None:intergenic 30.0%
TAGTCTTCCTTAAATGAACT+TGG + chr8.2:7734154-7734173 MS.gene24789:intron 30.0%
TTACAAGTTTGAGAAAACGT+AGG - chr8.2:7733970-7733989 None:intergenic 30.0%
TTCTCTATTCGGTTACAATT+GGG + chr8.2:7734230-7734249 MS.gene24789:intron 30.0%
TTTCTCTATTCGGTTACAAT+TGG + chr8.2:7734229-7734248 MS.gene24789:intron 30.0%
! CAATTCAGTTCCTATAGTTT+TGG + chr8.2:7734098-7734117 MS.gene24789:intron 30.0%
! GTACCAACTAATTTGGATTT+TGG + chr8.2:7735023-7735042 MS.gene24789:intron 30.0%
! TCCATAGTTGTAAGGTTTTT+CGG - chr8.2:7734357-7734376 None:intergenic 30.0%
!! ATTCAGTTCCTATAGTTTTG+GGG + chr8.2:7734100-7734119 MS.gene24789:intron 30.0%
!!! AGGAAATTGTTTTTGGTATC+AGG + chr8.2:7734746-7734765 MS.gene24789:intron 30.0%
!!! CTATGGATTTTTTCTTTCCA+AGG + chr8.2:7734370-7734389 MS.gene24789:CDS 30.0%
!!! GGAAATTGTTTTTGGTATCA+GGG + chr8.2:7734747-7734766 MS.gene24789:intron 30.0%
ACCGAAAAACCTTACAACTA+TGG + chr8.2:7734353-7734372 MS.gene24789:CDS 35.0%
ATGCATGCATAGCATAAATC+TGG + chr8.2:7735072-7735091 MS.gene24789:intron 35.0%
ATTGTCAATTGTGCAGTTTC+TGG - chr8.2:7734533-7734552 None:intergenic 35.0%
ATTTCCAGTCACACAAAGAA+AGG - chr8.2:7735098-7735117 None:intergenic 35.0%
CAACAAACTGATAAAGTCGT+CGG + chr8.2:7733939-7733958 MS.gene24789:CDS 35.0%
GTTTGTGGGAAATAAATCCA+TGG - chr8.2:7734328-7734347 None:intergenic 35.0%
TCAGGAAAGGTTCTTTGATA+TGG - chr8.2:7735300-7735319 None:intergenic 35.0%
! AAAAGCACAAAAACTCACCT+TGG - chr8.2:7734390-7734409 None:intergenic 35.0%
! TAATGGACAAGTGATTGTGT+TGG + chr8.2:7734559-7734578 MS.gene24789:CDS 35.0%
!! AGTGAAGCTTTTCTAGCAAT+TGG - chr8.2:7734838-7734857 None:intergenic 35.0%
AGGCAAAGCAATTTGCACAA+TGG - chr8.2:7735173-7735192 None:intergenic 40.0%
CAATACCTCAAGGAGAAGAA+GGG + chr8.2:7734000-7734019 MS.gene24789:CDS 40.0%
CAATTACCAATTAGTGAGGG+AGG - chr8.2:7734677-7734696 None:intergenic 40.0%
GGTTCTTTGATATGGTGAGT+AGG - chr8.2:7735292-7735311 None:intergenic 40.0%
GGTTGTTGAGGGATCATATT+AGG - chr8.2:7734656-7734675 None:intergenic 40.0%
TCATGGAGAAGAGGAAAGAT+AGG + chr8.2:7734866-7734885 MS.gene24789:CDS 40.0%
TCTATTGAGCCAATACCTCA+AGG + chr8.2:7733990-7734009 MS.gene24789:CDS 40.0%
! TCGGTTGGTACCAACTAATT+TGG + chr8.2:7735016-7735035 MS.gene24789:intron 40.0%
! TTTTCCTGCTGAGAAAGTTG+AGG + chr8.2:7734586-7734605 MS.gene24789:CDS 40.0%
!! CGACTTTATCAGTTTGTTGC+CGG - chr8.2:7733938-7733957 None:intergenic 40.0%
!! GTTTCTGGCTCTTTAACCAT+AGG - chr8.2:7734518-7734537 None:intergenic 40.0%
!! TTCTCACTCTGGAATAACCA+TGG + chr8.2:7734308-7734327 MS.gene24789:CDS 40.0%
!!! TCGGACATTTCTGGTTTTTC+CGG + chr8.2:7733916-7733935 MS.gene24789:CDS 40.0%
!!! TTTTTCGGTGTCACGTTTGT+GGG - chr8.2:7734342-7734361 None:intergenic 40.0%
AACTACCCTTCTTCTCCTTG+AGG - chr8.2:7734008-7734027 None:intergenic 45.0%
ATTAGTGAGGGAGGTTGTTG+AGG - chr8.2:7734668-7734687 None:intergenic 45.0%
CAACAACCTCCCTCACTAAT+TGG + chr8.2:7734668-7734687 MS.gene24789:CDS 45.0%
CCAATACCTCAAGGAGAAGA+AGG + chr8.2:7733999-7734018 MS.gene24789:CDS 45.0%
CCTTCTTCTCCTTGAGGTAT+TGG - chr8.2:7734002-7734021 None:intergenic 45.0%
GAGAAGAAGGGTAGTTTCGA+AGG + chr8.2:7734012-7734031 MS.gene24789:CDS 45.0%
TCGACTTCATCGGACATTTC+TGG + chr8.2:7733907-7733926 MS.gene24789:CDS 45.0%
TGCATGCGTTGTGAAGGTTA+AGG - chr8.2:7734038-7734057 None:intergenic 45.0%
TTAGCACCTAACACAAGCCA+TGG - chr8.2:7735354-7735373 None:intergenic 45.0%
TTAGTGAGGGAGGTTGTTGA+GGG - chr8.2:7734667-7734686 None:intergenic 45.0%
!! AGCTTCACTTCGTCGATTCA+TGG + chr8.2:7734849-7734868 MS.gene24789:CDS 45.0%
!! TTCGTCGATTCATGGAGAAG+AGG + chr8.2:7734857-7734876 MS.gene24789:CDS 45.0%
!!! GTTTTTCGGTGTCACGTTTG+TGG - chr8.2:7734343-7734362 None:intergenic 45.0%
!! AATAACAATATTATTAAATT+AGG - chr8.2:7735241-7735260 None:intergenic 5.0%
ACCTAACACAAGCCATGGAG+CGG - chr8.2:7735349-7735368 None:intergenic 50.0%
AGCTCCTCAACTTTCTCAGC+AGG - chr8.2:7734593-7734612 None:intergenic 50.0%
CAATCTACAGGGTCATCACC+TGG + chr8.2:7734279-7734298 MS.gene24789:intron 50.0%
CCAGAGTGAGAAGATGAACC+AGG - chr8.2:7734300-7734319 None:intergenic 50.0%
CCTGGTTCATCTTCTCACTC+TGG + chr8.2:7734297-7734316 MS.gene24789:CDS 50.0%
GCATGCACCCCTGAAACAAA+TGG + chr8.2:7734051-7734070 MS.gene24789:CDS 50.0%
! CTGGCCTTTCTTTGTGTGAC+TGG + chr8.2:7735091-7735110 MS.gene24789:intron 50.0%
!! TTCTGGAGCAGAGTCAGGAA+AGG - chr8.2:7735313-7735332 None:intergenic 50.0%
!!! TGCTTTTCTGGAGCAGAGTC+AGG - chr8.2:7735318-7735337 None:intergenic 50.0%
! GCGGAGTCAGCATGCTTTTC+TGG - chr8.2:7735330-7735349 None:intergenic 55.0%
! TCCGCTCCATGGCTTGTGTT+AGG + chr8.2:7735345-7735364 MS.gene24789:CDS 55.0%
! CAGGGGTGCATGCGTTGTGA+AGG - chr8.2:7734044-7734063 None:intergenic 60.0%
!! AGCATGCTGACTCCGCTCCA+TGG + chr8.2:7735334-7735353 MS.gene24789:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 7733904 7735383 7733904 ID=MS.gene24789
chr8.2 mRNA 7733904 7735383 7733904 ID=MS.gene24789.t1;Parent=MS.gene24789
chr8.2 exon 7733904 7734072 7733904 ID=MS.gene24789.t1.exon1;Parent=MS.gene24789.t1
chr8.2 CDS 7733904 7734072 7733904 ID=cds.MS.gene24789.t1;Parent=MS.gene24789.t1
chr8.2 exon 7734289 7734391 7734289 ID=MS.gene24789.t1.exon2;Parent=MS.gene24789.t1
chr8.2 CDS 7734289 7734391 7734289 ID=cds.MS.gene24789.t1;Parent=MS.gene24789.t1
chr8.2 exon 7734505 7734689 7734505 ID=MS.gene24789.t1.exon3;Parent=MS.gene24789.t1
chr8.2 CDS 7734505 7734689 7734505 ID=cds.MS.gene24789.t1;Parent=MS.gene24789.t1
chr8.2 exon 7734830 7734887 7734830 ID=MS.gene24789.t1.exon4;Parent=MS.gene24789.t1
chr8.2 CDS 7734830 7734887 7734830 ID=cds.MS.gene24789.t1;Parent=MS.gene24789.t1
chr8.2 exon 7735281 7735383 7735281 ID=MS.gene24789.t1.exon5;Parent=MS.gene24789.t1
chr8.2 CDS 7735281 7735383 7735281 ID=cds.MS.gene24789.t1;Parent=MS.gene24789.t1
Gene Sequence

>MS.gene24789

ATGTCGACTTCATCGGACATTTCTGGTTTTTCCGGCAACAAACTGATAAAGTCGTCGGAGAAACCTACGTTTTCTCAAACTTGTAATCTATTGAGCCAATACCTCAAGGAGAAGAAGGGTAGTTTCGAAGGCCTTAACCTTCACAACGCATGCACCCCTGAAACAAATGGTAAATAAAAATATAAAATTATTTTCAATTCAGTTCCTATAGTTTTGGGGTTTAGAATGTTGAATCAAACTAAGTCTCAAATAGTCTTCCTTAAATGAACTTGGTCAAAAAATGGTAAAACAGAGTATAATGTCATTTCAGATATTTTCCCTTATTTTTCTCTATTCGGTTACAATTGGGTTATTTAAGTTTTCTTTTTCTTTTTTCAATCTACAGGGTCATCACCTGGTTCATCTTCTCACTCTGGAATAACCATGGATTTATTTCCCACAAACGTGACACCGAAAAACCTTACAACTATGGATTTTTTCTTTCCAAGGTGAGTTTTTGTGCTTTTTTAATTCATTCAAGTCGTCAATTAATTTTTTGTACCATTGTTTGAGTCATTGCAATTAATTTGATAATGATTTACACACAATCTTGTTTTTACAGAGTTATTAATCCTATGGTTAAAGAGCCAGAAACTGCACAATTGACAATGTTTTATAATGGACAAGTGATTGTGTTGGATGATTTTCCTGCTGAGAAAGTTGAGGAGCTGAAATCATTTGCTAGAACTCAGACTCAGCATTCAGATGCTCCTAATATGATCCCTCAACAACCTCCCTCACTAATTGGTAATTGATTTTGAATTTGATTGATCACTGTTGTGATTGTGATTTGAAACAAATACAGGAAATTGTTTTTGGTATCAGGGATGAATTTTTTATTTTATTTATTTTTAATTTAACTGATGGTAAATTGAATTTCATTGCAGATATGCCAATTGCTAGAAAAGCTTCACTTCGTCGATTCATGGAGAAGAGGAAAGATAGGTATGCCTCTCTCTCAAACAAATTAAATTCAAGTTTTTATTCAAATAGATTCACAACAAAAAATTCTTCTGCATGTCTATGTCTATTCTTGATTGAAATGTTCAAACAATCTCATAATAAATCTTTTTTCGGTTGGTACCAACTAATTTGGATTTTGGATTGAACATTTTTTGAGCTTTTGGTGATGCATGCATAGCATAAATCTGGCCTTTCTTTGTGTGACTGGAAATTTTAGCATCATGTTATTTTCATAGTATTAAAAATCTTAATCTAGATTCTAGTCCATTGTGCAAATTGCTTTGCCTCTTGTTATTTACTTATCAAGTATTTGTTGAGTGATGTTGTTTAAGCCTAATTTAATAATATTGTTATTTTCTTATGTTGTGTTTGTAGAGTTTCTGCCTACTCACCATATCAAAGAACCTTTCCTGACTCTGCTCCAGAAAAGCATGCTGACTCCGCTCCATGGCTTGTGTTAGGTGCTAAATCAATGTAA

Protein sequence

>MS.gene24789.t1

MSTSSDISGFSGNKLIKSSEKPTFSQTCNLLSQYLKEKKGSFEGLNLHNACTPETNGSSPGSSSHSGITMDLFPTNVTPKNLTTMDFFFPRVINPMVKEPETAQLTMFYNGQVIVLDDFPAEKVEELKSFARTQTQHSDAPNMIPQQPPSLIDMPIARKASLRRFMEKRKDRVSAYSPYQRTFPDSAPEKHADSAPWLVLGAKSM