AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32952

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32952.t1 MTR_1g028480 83.696 92 15 0 81 172 19 110 1.37e-53 166
MS.gene32952.t1 MTR_1g029070 53.165 158 73 1 1 157 1 158 2.72e-48 154
MS.gene32952.t1 MTR_1g039040 63.333 90 33 0 50 139 5 94 1.50e-39 133
MS.gene32952.t1 MTR_4g133952 48.333 120 58 2 21 139 30 146 2.68e-35 123
MS.gene32952.t1 MTR_7g061270 41.667 132 64 2 44 173 17 137 1.03e-34 120
MS.gene32952.t1 MTR_7g100650 41.667 132 64 2 44 173 17 137 1.61e-34 119
MS.gene32952.t1 MTR_8g091720 53.846 91 42 0 49 139 26 116 5.62e-34 119
MS.gene32952.t1 MTR_3g058980 44.286 140 69 4 29 164 2 136 1.22e-33 118
MS.gene32952.t1 MTR_2g026710 44.444 117 58 1 32 148 5 114 1.75e-33 117
MS.gene32952.t1 MTR_1g072790 52.747 91 43 0 49 139 27 117 4.66e-33 116
MS.gene32952.t1 MTR_5g095740 46.789 109 54 1 50 158 22 126 1.03e-32 115
MS.gene32952.t1 MTR_4g133938 42.308 130 70 1 32 161 5 129 5.13e-32 112
MS.gene32952.t1 MTR_8g093920 45.000 100 55 0 50 149 39 138 1.01e-29 108
MS.gene32952.t1 MTR_4g119500 48.889 90 46 0 50 139 21 110 3.07e-29 104
MS.gene32952.t1 MTR_0392s0020 48.889 90 46 0 50 139 17 106 3.15e-29 105
MS.gene32952.t1 MTR_1g088860 46.316 95 51 0 50 144 35 129 2.05e-27 102
MS.gene32952.t1 MTR_1g029100 48.750 80 41 0 52 131 3 82 3.46e-24 90.9
MS.gene32952.t1 MTR_1g083070 40.230 87 52 0 53 139 6 92 4.10e-21 84.0
MS.gene32952.t1 MTR_5g095900 41.176 85 50 0 56 140 21 105 3.46e-19 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32952.t1 AT5G47670 54.945 91 41 0 49 139 27 117 4.59e-35 122
MS.gene32952.t1 AT1G21970 53.846 91 42 0 49 139 57 147 6.89e-35 122
MS.gene32952.t1 AT5G47670 54.945 91 41 0 49 139 56 146 7.90e-35 122
MS.gene32952.t1 AT5G47670 54.945 91 41 0 49 139 56 146 7.90e-35 122
MS.gene32952.t1 AT4G14540 53.846 91 42 0 49 139 19 109 1.25e-34 119
MS.gene32952.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.38e-33 116
MS.gene32952.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.79e-33 116
MS.gene32952.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.79e-33 116
MS.gene32952.t1 AT2G38880 44.628 121 56 1 49 169 19 128 1.79e-33 116
MS.gene32952.t1 AT2G38880 51.648 91 44 0 49 139 19 109 2.66e-33 115
MS.gene32952.t1 AT2G38880 51.648 91 44 0 49 139 19 109 1.38e-32 112
MS.gene32952.t1 AT5G47640 51.648 91 44 0 50 140 26 116 2.01e-32 115
MS.gene32952.t1 AT2G38880 51.648 91 44 0 49 139 19 109 2.57e-32 114
MS.gene32952.t1 AT2G38880 51.648 91 44 0 49 139 19 109 2.57e-32 114
MS.gene32952.t1 AT2G37060 44.444 117 61 2 26 139 3 118 4.45e-32 113
MS.gene32952.t1 AT2G37060 44.444 117 61 2 26 139 3 118 4.45e-32 113
MS.gene32952.t1 AT2G37060 44.444 117 61 2 26 139 3 118 4.45e-32 113
MS.gene32952.t1 AT3G53340 50.549 91 45 0 49 139 27 117 5.33e-32 113
MS.gene32952.t1 AT3G53340 50.549 91 45 0 49 139 27 117 5.33e-32 113
MS.gene32952.t1 AT3G53340 50.549 91 45 0 49 139 27 117 1.15e-31 110
MS.gene32952.t1 AT2G38880 49.474 95 48 0 49 143 19 113 1.39e-31 111
MS.gene32952.t1 AT2G38880 49.474 95 48 0 49 143 19 113 1.39e-31 111
MS.gene32952.t1 AT2G38880 49.474 95 48 0 49 143 19 113 1.39e-31 111
MS.gene32952.t1 AT3G53340 50.549 91 45 0 49 139 27 117 1.62e-30 108
MS.gene32952.t1 AT3G53340 50.549 91 45 0 49 139 27 117 1.62e-30 108
MS.gene32952.t1 AT2G13570 49.451 91 46 0 50 140 35 125 6.87e-30 108
MS.gene32952.t1 AT2G47810 47.253 91 48 0 49 139 49 139 2.67e-27 100
MS.gene32952.t1 AT1G09030 41.573 89 52 0 51 139 3 91 2.55e-23 90.1

Find 33 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACAGCGAACGATTTAATA+TGG 0.243997 1.2:-14743067 MS.gene32952:CDS
TTGTCGAATCCAATTGTAAT+TGG 0.273848 1.2:+14742951 None:intergenic
AGGTAAATGCTGCTTAGTTC+CGG 0.363825 1.2:+14743277 None:intergenic
AATGACATGCCAATTACAAT+TGG 0.392076 1.2:-14742960 MS.gene32952:CDS
GTGTTGAACGACTAAGGTTA+AGG 0.408775 1.2:+14743998 None:intergenic
CCACATAGTTACGATACCTT+TGG 0.434158 1.2:+14742991 None:intergenic
TTGATTGTGTTGAACGACTA+AGG 0.437171 1.2:+14743992 None:intergenic
ATATGGGCAATGGATAGGTT+AGG 0.445811 1.2:-14743050 MS.gene32952:CDS
TGTTGAACGACTAAGGTTAA+GGG 0.465410 1.2:+14743999 None:intergenic
CATAGTTACGATACCTTTGG+AGG 0.481766 1.2:+14742994 None:intergenic
CTTAAAAGTAGTATGGAGAA+TGG 0.482031 1.2:-14744030 None:intergenic
TACAGCGAACGATTTAATAT+GGG 0.483846 1.2:-14743066 MS.gene32952:CDS
ATTCTTGTCAATTGCACGAT+GGG 0.485603 1.2:+14743227 None:intergenic
ATTTAATATGGGCAATGGAT+AGG 0.498662 1.2:-14743055 MS.gene32952:CDS
CGTTCAACACAATCAAGCTC+TGG 0.512773 1.2:-14743985 MS.gene32952:intron
TGGATTCGACAAGGATGGAT+CGG 0.517609 1.2:-14742940 MS.gene32952:CDS
AACGACTAAGGTTAAGGGAC+GGG 0.520234 1.2:+14744004 None:intergenic
ACAATTGGATTCGACAAGGA+TGG 0.533736 1.2:-14742945 MS.gene32952:CDS
GGATTCGACAAGGATGGATC+GGG 0.534384 1.2:-14742939 MS.gene32952:CDS
GGTGCTAGTGGCTCGAACAA+TGG 0.541308 1.2:-14742918 MS.gene32952:CDS
GAACGATTTAATATGGGCAA+TGG 0.552208 1.2:-14743060 MS.gene32952:CDS
TTTACCTAAAACAAAGAATG+AGG 0.564286 1.2:-14743261 MS.gene32952:CDS
AAGGATGGATCGGGTGCTAG+TGG 0.571277 1.2:-14742930 MS.gene32952:CDS
AACAACAATAACTTTCACAC+CGG 0.626294 1.2:-14743296 MS.gene32952:CDS
TTTGGAGGTAAAAGACTAGA+GGG 0.630419 1.2:+14743009 None:intergenic
CATGAGCATCATCACGAGTG+AGG 0.643678 1.2:-14743126 MS.gene32952:CDS
CCAAAGGTATCGTAACTATG+TGG 0.644573 1.2:-14742991 MS.gene32952:CDS
GAACGACTAAGGTTAAGGGA+CGG 0.644933 1.2:+14744003 None:intergenic
GATTCTTGTCAATTGCACGA+TGG 0.645811 1.2:+14743226 None:intergenic
CTTTGGAGGTAAAAGACTAG+AGG 0.649236 1.2:+14743008 None:intergenic
AATTACAATTGGATTCGACA+AGG 0.668467 1.2:-14742949 MS.gene32952:CDS
TCACGAGTGAGGCAAGCGAG+CGG 0.677839 1.2:-14743115 MS.gene32952:CDS
TGCAATTGACAAGAATCATG+CGG 0.689401 1.2:-14743220 MS.gene32952:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAAGAATTATTATTTTTAAA+AGG - chr1.2:14743034-14743053 MS.gene32952:CDS 10.0%
!! AAACAAAGATCTAAAAAATA+AGG - chr1.2:14743407-14743426 MS.gene32952:intron 15.0%
!!! TGCTTATATTTTTTTTTTGA+GGG - chr1.2:14743244-14743263 MS.gene32952:CDS 15.0%
!!! TTGCTTATATTTTTTTTTTG+AGG - chr1.2:14743243-14743262 MS.gene32952:CDS 15.0%
!!! GATTATTTTTGAGAAATAAG+AGG + chr1.2:14743015-14743034 None:intergenic 20.0%
! AATCGTATCTTCGTTATTAT+GGG - chr1.2:14742982-14743001 MS.gene32952:CDS 25.0%
! ATGAATTACCTACTTCAAAA+TGG + chr1.2:14743563-14743582 None:intergenic 25.0%
! TTTACCTAAAACAAAGAATG+AGG - chr1.2:14743653-14743672 MS.gene32952:intron 25.0%
!! TCAAACAAAATTGAGGTATT+TGG - chr1.2:14743176-14743195 MS.gene32952:CDS 25.0%
!!! TGTACAATTTTGGTTGTTTA+GGG + chr1.2:14742961-14742980 None:intergenic 25.0%
!!! TTTTACTTTGAAGAAGATTG+AGG - chr1.2:14743093-14743112 MS.gene32952:CDS 25.0%
AACAACAATAACTTTCACAC+CGG - chr1.2:14743618-14743637 MS.gene32952:intron 30.0%
AAGTGAGTCAAACAAAATTG+AGG - chr1.2:14743169-14743188 MS.gene32952:CDS 30.0%
AATGACATGCCAATTACAAT+TGG - chr1.2:14743954-14743973 MS.gene32952:intron 30.0%
AATTACAATTGGATTCGACA+AGG - chr1.2:14743965-14743984 MS.gene32952:intron 30.0%
AGCAAAAAGTAAGTCAAAGA+AGG + chr1.2:14743228-14743247 None:intergenic 30.0%
ATTTAATATGGGCAATGGAT+AGG - chr1.2:14743859-14743878 MS.gene32952:intron 30.0%
CAATCGTATCTTCGTTATTA+TGG - chr1.2:14742981-14743000 MS.gene32952:CDS 30.0%
CTTGTTAAACATCTTGTACA+GGG - chr1.2:14743445-14743464 MS.gene32952:intron 30.0%
TAATGCCTTAAGAATCCAAT+GGG + chr1.2:14743367-14743386 None:intergenic 30.0%
TACAGCGAACGATTTAATAT+GGG - chr1.2:14743848-14743867 MS.gene32952:intron 30.0%
TTACAGCGAACGATTTAATA+TGG - chr1.2:14743847-14743866 MS.gene32952:intron 30.0%
TTGTCGAATCCAATTGTAAT+TGG + chr1.2:14743966-14743985 None:intergenic 30.0%
! ACAGACAGAGTATTCAATTA+TGG + chr1.2:14743133-14743152 None:intergenic 30.0%
! ACTTGTTAAACATCTTGTAC+AGG - chr1.2:14743444-14743463 MS.gene32952:intron 30.0%
! GATACGATTGTGTACAATTT+TGG + chr1.2:14742971-14742990 None:intergenic 30.0%
!! TCAAAGAAGGTTGATGTATT+TGG + chr1.2:14743215-14743234 None:intergenic 30.0%
!!! GTGTACAATTTTGGTTGTTT+AGG + chr1.2:14742962-14742981 None:intergenic 30.0%
!!! TTAGGTTTTGAAGACTATGT+TGG - chr1.2:14743882-14743901 MS.gene32952:intron 30.0%
ATTCTTGTCAATTGCACGAT+GGG + chr1.2:14743690-14743709 None:intergenic 35.0%
GAACGATTTAATATGGGCAA+TGG - chr1.2:14743854-14743873 MS.gene32952:intron 35.0%
GTAATGCCTTAAGAATCCAA+TGG + chr1.2:14743368-14743387 None:intergenic 35.0%
TACTTCCCATTGGATTCTTA+AGG - chr1.2:14743359-14743378 MS.gene32952:intron 35.0%
TCGCATGTAAAAATCTCTGA+TGG - chr1.2:14743729-14743748 MS.gene32952:intron 35.0%
TGCAATTGACAAGAATCATG+CGG - chr1.2:14743694-14743713 MS.gene32952:intron 35.0%
TGTTGAACGACTAAGGTTAA+GGG + chr1.2:14742918-14742937 None:intergenic 35.0%
TTGATTGTGTTGAACGACTA+AGG + chr1.2:14742925-14742944 None:intergenic 35.0%
TTTGGAGGTAAAAGACTAGA+GGG + chr1.2:14743908-14743927 None:intergenic 35.0%
TTTGTTTCACATGTCCAAAG+AGG + chr1.2:14743394-14743413 None:intergenic 35.0%
! ATCAGAGATTTTTACATGCG+AGG + chr1.2:14743730-14743749 None:intergenic 35.0%
! TAAGGCATTACTTTCCTCTT+TGG - chr1.2:14743377-14743396 MS.gene32952:intron 35.0%
! TCAGAGATTTTTACATGCGA+GGG + chr1.2:14743729-14743748 None:intergenic 35.0%
!! AATCCAATGGGAAGTATTCA+AGG + chr1.2:14743355-14743374 None:intergenic 35.0%
!! ATCCAATGGGAAGTATTCAA+GGG + chr1.2:14743354-14743373 None:intergenic 35.0%
!! TTACTTAGCTCTGATCTGTT+TGG - chr1.2:14743531-14743550 MS.gene32952:intron 35.0%
!!! GGATTAGTCCATTTTGAAGT+AGG - chr1.2:14743552-14743571 MS.gene32952:intron 35.0%
!!! TGCTCCTCATTCTTTGTTTT+AGG + chr1.2:14743660-14743679 None:intergenic 35.0%
ACAATTGGATTCGACAAGGA+TGG - chr1.2:14743969-14743988 MS.gene32952:intron 40.0%
ATATGGGCAATGGATAGGTT+AGG - chr1.2:14743864-14743883 MS.gene32952:intron 40.0%
CATAGTTACGATACCTTTGG+AGG + chr1.2:14743923-14743942 None:intergenic 40.0%
CCACATAGTTACGATACCTT+TGG + chr1.2:14743926-14743945 None:intergenic 40.0%
GATTCTTGTCAATTGCACGA+TGG + chr1.2:14743691-14743710 None:intergenic 40.0%
GTGTTGAACGACTAAGGTTA+AGG + chr1.2:14742919-14742938 None:intergenic 40.0%
TTCCCTTGAATACTTCCCAT+TGG - chr1.2:14743349-14743368 MS.gene32952:intron 40.0%
! AGGTAAATGCTGCTTAGTTC+CGG + chr1.2:14743640-14743659 None:intergenic 40.0%
! CTTTGGAGGTAAAAGACTAG+AGG + chr1.2:14743909-14743928 None:intergenic 40.0%
!! CCAAAGGTATCGTAACTATG+TGG - chr1.2:14743923-14743942 MS.gene32952:intron 40.0%
!! CTCTAGTCTTTTACCTCCAA+AGG - chr1.2:14743907-14743926 MS.gene32952:intron 40.0%
AACGACTAAGGTTAAGGGAC+GGG + chr1.2:14742913-14742932 None:intergenic 45.0%
CGTTCAACACAATCAAGCTC+TGG - chr1.2:14742929-14742948 MS.gene32952:CDS 45.0%
GAACGACTAAGGTTAAGGGA+CGG + chr1.2:14742914-14742933 None:intergenic 45.0%
TGGATTCGACAAGGATGGAT+CGG - chr1.2:14743974-14743993 MS.gene32952:intron 45.0%
CATGAGCATCATCACGAGTG+AGG - chr1.2:14743788-14743807 MS.gene32952:intron 50.0%
GGATTCGACAAGGATGGATC+GGG - chr1.2:14743975-14743994 MS.gene32952:intron 50.0%
AAGGATGGATCGGGTGCTAG+TGG - chr1.2:14743984-14744003 MS.gene32952:intron 55.0%
GGTGCTAGTGGCTCGAACAA+TGG - chr1.2:14743996-14744015 MS.gene32952:CDS 55.0%
TCACGAGTGAGGCAAGCGAG+CGG - chr1.2:14743799-14743818 MS.gene32952:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 14742896 14744040 14742896 ID=MS.gene32952
chr1.2 mRNA 14742896 14744040 14742896 ID=MS.gene32952.t1;Parent=MS.gene32952
chr1.2 exon 14743986 14744040 14743986 ID=MS.gene32952.t1.exon1;Parent=MS.gene32952.t1
chr1.2 CDS 14743986 14744040 14743986 ID=cds.MS.gene32952.t1;Parent=MS.gene32952.t1
chr1.2 exon 14742896 14743362 14742896 ID=MS.gene32952.t1.exon2;Parent=MS.gene32952.t1
chr1.2 CDS 14742896 14743362 14742896 ID=cds.MS.gene32952.t1;Parent=MS.gene32952.t1
Gene Sequence

>MS.gene32952

ATGGAGAATGGAATCCCGTCCCTTAACCTTAGTCGTTCAACACAATCAAGCTCTGGTAAGCACCCTAAACAACCAAAATTGTACACAATCGTATCTTCGTTATTATGGGTTTAGATCCTCTTATTTCTCAAAAATAATCAAGAATTATTATTTTTAAAAGGAGTGATGATACATATTTTAAATATTCTTTTTTTTTTTTTTACTTTGAAGAAGATTGAGGAATAAAGATGATCTCCATAATTGAATACTCTGTCTGTTACAAAAAATAAACAAAAGTGAGTCAAACAAAATTGAGGTATTTGGTTTAAAATTTAGTCCAAATACATCAACCTTCTTTGACTTACTTTTTGCTTATATTTTTTTTTTGAGGGATGCTTATATTTTGTTATAGAGTGAATAATATACAATATTATTTCAATTTTTTTACTAGTATTTTTCTTTGTTTATTTGTTATTCCCTTGAATACTTCCCATTGGATTCTTAAGGCATTACTTTCCTCTTTGGACATGTGAAACAAAGATCTAAAAAATAAGGTTTGATTTTGCATCACTTGTTAAACATCTTGTACAGGGATAAATATTTGATTTTTGAATGAAATTTTCAATCATAAATTACAAAACTATTTTTTGTCTAAATTACTTAGCTCTGATCTGTTTGGATTAGTCCATTTTGAAGTAGGTAATTCATCAACAAACATTGAATCTCAAAGCAACGTCGACAACAACAACAATAACTTTCACACCGGAACTAAGCAGCATTTACCTAAAACAAAGAATGAGGAGCAGCACATTCCCATCGTGCAATTGACAAGAATCATGCGGCGTGCTCTTCCCTCGCATGTAAAAATCTCTGATGGTGCTAAAGAGTCAATTCAATTGTGTTTATCTGAATTCATGAGCATCATCACGAGTGAGGCAAGCGAGCGGTGCAAGATAGAGCATCGAAAGATCGTTACAGCGAACGATTTAATATGGGCAATGGATAGGTTAGGTTTTGAAGACTATGTTGGCCCTCTAGTCTTTTACCTCCAAAGGTATCGTAACTATGTGGCTCAGCTAAATGACATGCCAATTACAATTGGATTCGACAAGGATGGATCGGGTGCTAGTGGCTCGAACAATGGCAGTGACAATGTTCACCATTGA
Protein sequence

>MS.gene32952.t1

MENGIPSLNLSRSTQSSSGNSSTNIESQSNVDNNNNNFHTGTKQHLPKTKNEEQHIPIVQLTRIMRRALPSHVKISDGAKESIQLCLSEFMSIITSEASERCKIEHRKIVTANDLIWAMDRLGFEDYVGPLVFYLQRYRNYVAQLNDMPITIGFDKDGSGASGSNNGSDNVHH