AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31840

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31840.t1 MTR_1g029100 92.222 90 7 0 41 130 1 90 8.15e-59 177
MS.gene31840.t1 MTR_1g029070 45.775 142 67 3 1 132 1 142 2.36e-33 115
MS.gene31840.t1 MTR_3g058980 41.414 99 57 1 47 145 32 129 8.37e-23 89.4
MS.gene31840.t1 MTR_7g100650 42.000 100 56 2 47 146 31 128 1.45e-21 85.5
MS.gene31840.t1 MTR_7g061270 42.000 100 56 2 47 146 31 128 1.50e-21 85.5
MS.gene31840.t1 MTR_4g133952 39.785 93 55 1 47 139 63 154 1.69e-21 87.0
MS.gene31840.t1 MTR_8g091720 40.594 101 59 1 47 147 33 132 1.88e-21 85.9
MS.gene31840.t1 MTR_1g072790 42.857 84 48 0 47 130 34 117 1.99e-21 85.5
MS.gene31840.t1 MTR_1g088860 42.857 84 48 0 47 130 41 124 3.72e-21 85.1
MS.gene31840.t1 MTR_5g095740 44.048 84 47 0 47 130 28 111 4.26e-21 84.7
MS.gene31840.t1 MTR_2g026710 40.860 93 54 1 47 139 22 113 8.41e-21 83.6
MS.gene31840.t1 MTR_4g133938 42.045 88 51 0 43 130 20 107 1.39e-20 82.0
MS.gene31840.t1 MTR_1g039040 42.857 84 48 0 47 130 11 94 2.40e-20 82.8
MS.gene31840.t1 MTR_8g093920 42.353 85 49 0 47 131 45 129 1.15e-19 81.6
MS.gene31840.t1 MTR_0392s0020 39.286 84 51 0 47 130 23 106 1.47e-19 79.7
MS.gene31840.t1 MTR_4g119500 39.286 84 51 0 47 130 27 110 1.51e-19 79.3
MS.gene31840.t1 MTR_1g083070 36.905 84 53 0 47 130 9 92 6.09e-19 77.8
MS.gene31840.t1 MTR_1g028480 38.824 85 38 1 77 147 24 108 6.44e-16 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31840.t1 AT2G38880 42.574 101 57 1 47 146 26 126 3.63e-23 89.0
MS.gene31840.t1 AT2G38880 41.748 103 57 1 47 146 26 128 7.28e-23 88.2
MS.gene31840.t1 AT2G38880 41.748 103 57 1 47 146 26 128 8.24e-23 88.2
MS.gene31840.t1 AT2G38880 41.748 103 57 1 47 146 26 128 8.24e-23 88.2
MS.gene31840.t1 AT2G38880 41.748 103 57 1 47 146 26 128 8.24e-23 88.2
MS.gene31840.t1 AT3G53340 42.308 104 57 1 47 147 34 137 3.64e-22 87.4
MS.gene31840.t1 AT3G53340 42.308 104 57 1 47 147 34 137 3.64e-22 87.4
MS.gene31840.t1 AT2G37060 41.121 107 60 1 47 150 35 141 6.96e-22 86.7
MS.gene31840.t1 AT2G37060 41.121 107 60 1 47 150 35 141 6.96e-22 86.7
MS.gene31840.t1 AT2G37060 41.121 107 60 1 47 150 35 141 6.96e-22 86.7
MS.gene31840.t1 AT4G14540 39.216 102 61 1 47 148 26 126 7.45e-22 86.3
MS.gene31840.t1 AT2G38880 44.048 84 47 0 47 130 26 109 2.31e-21 83.6
MS.gene31840.t1 AT2G38880 44.048 84 47 0 47 130 26 109 5.71e-21 84.0
MS.gene31840.t1 AT2G38880 44.048 84 47 0 47 130 26 109 5.71e-21 84.0
MS.gene31840.t1 AT5G47640 45.238 84 46 0 47 130 32 115 6.43e-21 84.3
MS.gene31840.t1 AT2G38880 44.048 84 47 0 47 130 26 109 1.91e-20 82.4
MS.gene31840.t1 AT2G38880 44.048 84 47 0 47 130 26 109 1.91e-20 82.4
MS.gene31840.t1 AT2G38880 44.048 84 47 0 47 130 26 109 1.91e-20 82.4
MS.gene31840.t1 AT2G47810 35.156 128 73 2 4 130 21 139 4.83e-20 81.3
MS.gene31840.t1 AT3G53340 45.238 84 46 0 47 130 34 117 5.47e-20 80.1
MS.gene31840.t1 AT5G47670 36.842 95 60 0 47 141 34 128 1.89e-19 80.9
MS.gene31840.t1 AT5G47670 36.842 95 60 0 47 141 63 157 3.36e-19 80.9
MS.gene31840.t1 AT5G47670 36.842 95 60 0 47 141 63 157 3.36e-19 80.9
MS.gene31840.t1 AT2G13570 42.353 85 49 0 47 131 41 125 8.31e-19 79.3
MS.gene31840.t1 AT1G21970 37.963 108 61 2 25 130 44 147 9.31e-19 79.7
MS.gene31840.t1 AT3G53340 43.158 95 53 1 47 141 34 127 1.14e-18 77.8
MS.gene31840.t1 AT3G53340 43.158 95 53 1 47 141 34 127 1.14e-18 77.8
MS.gene31840.t1 AT1G09030 33.663 101 60 1 47 140 8 108 5.86e-18 75.5

Find 40 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGTTCTACATTGGCTTTC+TGG 0.102414 1.1:-14622058 None:intergenic
ATTGTGTGTGTCTAAATTTA+TGG 0.291429 1.1:+14622013 MS.gene31840:CDS
TTTCTGCTGATGATTTACTA+TGG 0.320933 1.1:+14622090 MS.gene31840:CDS
CGCACTTCCTCGCCCATTGT+TGG 0.335463 1.1:-14621903 None:intergenic
GAGGAATTTGTTAGGTCTCT+TGG 0.362755 1.1:+14622134 MS.gene31840:CDS
ATTTACTATGGACGATGAAT+AGG 0.363355 1.1:+14622102 MS.gene31840:CDS
TGGGCTTTGAGGAATTTGTT+AGG 0.401864 1.1:+14622126 MS.gene31840:CDS
AGGAATTTGTTAGGTCTCTT+GGG 0.404606 1.1:+14622135 MS.gene31840:CDS
GGAGTTGAATGTTGGTTCTC+AGG 0.413844 1.1:-14621882 None:intergenic
GATGAATAGGTTGGGCTTTG+AGG 0.427694 1.1:+14622115 MS.gene31840:CDS
CTATGGACGATGAATAGGTT+GGG 0.452990 1.1:+14622107 MS.gene31840:CDS
TTCCTTGTGTCGAATTGCTA+TGG 0.461454 1.1:-14621458 None:intergenic
GACTCTTGTCACATGATTGA+TGG 0.464195 1.1:-14621931 None:intergenic
CCAACATTCAACTCCAACAA+TGG 0.484164 1.1:+14621890 MS.gene31840:CDS
AACGTCAATGTTGTTGTTGG+TGG 0.486276 1.1:-14621856 None:intergenic
AACTATCGCAACCACATGGA+TGG 0.490022 1.1:+14622170 MS.gene31840:CDS
CAACATTCAACTCCAACAAT+GGG 0.502283 1.1:+14621891 MS.gene31840:CDS
CGCAACCACATGGATGGGTC+AGG 0.508099 1.1:+14622176 MS.gene31840:CDS
CCATTGTTGGAGTTGAATGT+TGG 0.510977 1.1:-14621890 None:intergenic
TCCAACGTCAATGTTGTTGT+TGG 0.520741 1.1:-14621859 None:intergenic
CATTAACTCCTTAGCATCAC+CGG 0.525471 1.1:-14621988 None:intergenic
ACTATGGACGATGAATAGGT+TGG 0.532041 1.1:+14622106 MS.gene31840:CDS
TCACCGGTGATTATTGTGTC+CGG 0.543765 1.1:-14621972 None:intergenic
AATCATTTGATGTTCTACAT+TGG 0.545949 1.1:-14622066 None:intergenic
AATAATCACCGGTGATGCTA+AGG 0.556556 1.1:+14621980 MS.gene31840:CDS
AATTCGACACAAGGAAACTC+TGG 0.570594 1.1:+14621465 MS.gene31840:CDS
CATGCAGAGTGTTCTTCCAC+CGG 0.588890 1.1:+14621953 MS.gene31840:CDS
ACCAACAACAACATTGACGT+TGG 0.597534 1.1:+14621858 MS.gene31840:CDS
ACTCTTGTCACATGATTGAT+GGG 0.597608 1.1:-14621930 None:intergenic
TTCAACTCCAACAATGGGCG+AGG 0.597648 1.1:+14621896 MS.gene31840:CDS
ACTATCGCAACCACATGGAT+GGG 0.604393 1.1:+14622171 MS.gene31840:CDS
ATGGATGGGTCAGGTACTAG+TGG 0.605939 1.1:+14622185 MS.gene31840:CDS
GAATTGCTATGGTTAGCAGA+GGG 0.608648 1.1:-14621447 None:intergenic
CCGGTGATTATTGTGTCCGG+TGG 0.615417 1.1:-14621969 None:intergenic
AACCATAGCAATTCGACACA+AGG 0.618498 1.1:+14621456 MS.gene31840:CDS
CGAATTGCTATGGTTAGCAG+AGG 0.624127 1.1:-14621448 None:intergenic
CCACCGGACACAATAATCAC+CGG 0.624454 1.1:+14621969 MS.gene31840:CDS
AATTGCTATGGTTAGCAGAG+GGG 0.653798 1.1:-14621446 None:intergenic
TATGGACATAGTCACAAGTG+AGG 0.668100 1.1:+14622031 MS.gene31840:CDS
TAGTACCTGACCCATCCATG+TGG 0.736156 1.1:-14622181 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTAATTCTTTTTTTTTTTC+AGG - chr1.1:14621738-14621757 None:intergenic 10.0%
!! AATATATACAAATGAAAAAC+CGG - chr1.1:14621554-14621573 None:intergenic 15.0%
!! ATCTTCAAAATTAAAAGATT+TGG - chr1.1:14621772-14621791 None:intergenic 15.0%
!! TTAACAATAGATTGTACTAA+AGG + chr1.1:14621637-14621656 MS.gene31840:intron 20.0%
! AATCATTTGATGTTCTACAT+TGG - chr1.1:14622069-14622088 None:intergenic 25.0%
! ATTGTGTGTGTCTAAATTTA+TGG + chr1.1:14622013-14622032 MS.gene31840:CDS 25.0%
!! AACTCAATCTTTTACAAAGT+AGG - chr1.1:14621529-14621548 None:intergenic 25.0%
!! ACTCAATCTTTTACAAAGTA+GGG - chr1.1:14621528-14621547 None:intergenic 25.0%
!!! ATGTTTTTGACAGAGATAAA+AGG - chr1.1:14621819-14621838 None:intergenic 25.0%
ATTTACTATGGACGATGAAT+AGG + chr1.1:14622102-14622121 MS.gene31840:CDS 30.0%
TTGTAAAAGATTGAGTTTGC+CGG + chr1.1:14621532-14621551 MS.gene31840:intron 30.0%
TTTCTGCTGATGATTTACTA+TGG + chr1.1:14622090-14622109 MS.gene31840:CDS 30.0%
ACTCTTGTCACATGATTGAT+GGG - chr1.1:14621933-14621952 None:intergenic 35.0%
CAACATTCAACTCCAACAAT+GGG + chr1.1:14621891-14621910 MS.gene31840:CDS 35.0%
!! AGGAATTTGTTAGGTCTCTT+GGG + chr1.1:14622135-14622154 MS.gene31840:CDS 35.0%
AACCATAGCAATTCGACACA+AGG + chr1.1:14621456-14621475 MS.gene31840:CDS 40.0%
AATAATCACCGGTGATGCTA+AGG + chr1.1:14621980-14621999 MS.gene31840:CDS 40.0%
AATTCGACACAAGGAAACTC+TGG + chr1.1:14621465-14621484 MS.gene31840:CDS 40.0%
AATTGCTATGGTTAGCAGAG+GGG - chr1.1:14621449-14621468 None:intergenic 40.0%
ACCAACAACAACATTGACGT+TGG + chr1.1:14621858-14621877 MS.gene31840:CDS 40.0%
ACTATGGACGATGAATAGGT+TGG + chr1.1:14622106-14622125 MS.gene31840:CDS 40.0%
CAAAAACTATCGCAACCACA+TGG + chr1.1:14622166-14622185 MS.gene31840:CDS 40.0%
CATTAACTCCTTAGCATCAC+CGG - chr1.1:14621991-14622010 None:intergenic 40.0%
CCAACATTCAACTCCAACAA+TGG + chr1.1:14621890-14621909 MS.gene31840:CDS 40.0%
CCATTGTTGGAGTTGAATGT+TGG - chr1.1:14621893-14621912 None:intergenic 40.0%
CTATGGACGATGAATAGGTT+GGG + chr1.1:14622107-14622126 MS.gene31840:CDS 40.0%
GAATTGCTATGGTTAGCAGA+GGG - chr1.1:14621450-14621469 None:intergenic 40.0%
GACTCTTGTCACATGATTGA+TGG - chr1.1:14621934-14621953 None:intergenic 40.0%
TATGGACATAGTCACAAGTG+AGG + chr1.1:14622031-14622050 MS.gene31840:CDS 40.0%
TCCAACGTCAATGTTGTTGT+TGG - chr1.1:14621862-14621881 None:intergenic 40.0%
TTCCTTGTGTCGAATTGCTA+TGG - chr1.1:14621461-14621480 None:intergenic 40.0%
! AACGTCAATGTTGTTGTTGG+TGG - chr1.1:14621859-14621878 None:intergenic 40.0%
! TGTGGTTGCGATAGTTTTTG+AGG - chr1.1:14622166-14622185 None:intergenic 40.0%
!! GAGGAATTTGTTAGGTCTCT+TGG + chr1.1:14622134-14622153 MS.gene31840:CDS 40.0%
!! GATGTTCTACATTGGCTTTC+TGG - chr1.1:14622061-14622080 None:intergenic 40.0%
!! TGGGCTTTGAGGAATTTGTT+AGG + chr1.1:14622126-14622145 MS.gene31840:CDS 40.0%
AACTATCGCAACCACATGGA+TGG + chr1.1:14622170-14622189 MS.gene31840:CDS 45.0%
ACTATCGCAACCACATGGAT+GGG + chr1.1:14622171-14622190 MS.gene31840:CDS 45.0%
CGAATTGCTATGGTTAGCAG+AGG - chr1.1:14621451-14621470 None:intergenic 45.0%
TCACCGGTGATTATTGTGTC+CGG - chr1.1:14621975-14621994 None:intergenic 45.0%
! GATGAATAGGTTGGGCTTTG+AGG + chr1.1:14622115-14622134 MS.gene31840:CDS 45.0%
!! GGAGTTGAATGTTGGTTCTC+AGG - chr1.1:14621885-14621904 None:intergenic 45.0%
ATGGATGGGTCAGGTACTAG+TGG + chr1.1:14622185-14622204 MS.gene31840:CDS 50.0%
CCACCGGACACAATAATCAC+CGG + chr1.1:14621969-14621988 MS.gene31840:CDS 50.0%
TAGTACCTGACCCATCCATG+TGG - chr1.1:14622184-14622203 None:intergenic 50.0%
TTCAACTCCAACAATGGGCG+AGG + chr1.1:14621896-14621915 MS.gene31840:CDS 50.0%
! CATGCAGAGTGTTCTTCCAC+CGG + chr1.1:14621953-14621972 MS.gene31840:CDS 50.0%
CCGGTGATTATTGTGTCCGG+TGG - chr1.1:14621972-14621991 None:intergenic 55.0%
CGCAACCACATGGATGGGTC+AGG + chr1.1:14622176-14622195 MS.gene31840:CDS 60.0%
CGCACTTCCTCGCCCATTGT+TGG - chr1.1:14621906-14621925 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 14621432 14622241 14621432 ID=MS.gene31840
chr1.1 mRNA 14621432 14622241 14621432 ID=MS.gene31840.t1;Parent=MS.gene31840
chr1.1 exon 14621432 14621486 14621432 ID=MS.gene31840.t1.exon1;Parent=MS.gene31840.t1
chr1.1 CDS 14621432 14621486 14621432 ID=cds.MS.gene31840.t1;Parent=MS.gene31840.t1
chr1.1 exon 14621844 14622241 14621844 ID=MS.gene31840.t1.exon2;Parent=MS.gene31840.t1
chr1.1 CDS 14621844 14622241 14621844 ID=cds.MS.gene31840.t1;Parent=MS.gene31840.t1
Gene Sequence

>MS.gene31840

ATGGAGCATGGAAGCCCCTCTGCTAACCATAGCAATTCGACACAAGGAAACTCTGGTAAGCACTCTAAACAACATTTTTAGATATTCTAACTTCCCTACTTTGTAAAAGATTGAGTTTGCCGGTTTTTCATTTGTATATATTCAATCACATCAAAAGCTGATTTTTATTATCGTGCAAGAAATAAATATTTTCTCAATATTTAATTTAACAATAGATTGTACTAAAGGAAAAAAAAATTAAGCTTACTAACATATATTTTTATTATCTTATACTAGATTTTTATCTATGAAGTTTTGTTAAAACCTGAAAAAAAAAAAGAATTAATTTTCTCTTGCACCAAATCTTTTAATTTTGAAGATTTAAATTGATTTCATTTTTTTTTTCCTTTTATCTCTGTCAAAAACATTGTAGCTGAAAGAAACACCACCAACAACAACATTGACGTTGGACCTGAGAACCAACATTCAACTCCAACAATGGGCGAGGAAGTGCGTATGCCCATCAATCATGTGACAAGAGTCATGCAGAGTGTTCTTCCACCGGACACAATAATCACCGGTGATGCTAAGGAGTTAATGCAATTGTGTGTGTCTAAATTTATGGACATAGTCACAAGTGAGGCTTTCCAGAAAGCCAATGTAGAACATCAAATGATTGTTTCTGCTGATGATTTACTATGGACGATGAATAGGTTGGGCTTTGAGGAATTTGTTAGGTCTCTTGGGAAAGACCTCAAAAACTATCGCAACCACATGGATGGGTCAGGTACTAGTGGCTCAAACAATGCAAATGATGATGACCTAAGTTAA
Protein sequence

>MS.gene31840.t1

MEHGSPSANHSNSTQGNSAERNTTNNNIDVGPENQHSTPTMGEEVRMPINHVTRVMQSVLPPDTIITGDAKELMQLCVSKFMDIVTSEAFQKANVEHQMIVSADDLLWTMNRLGFEEFVRSLGKDLKNYRNHMDGSGTSGSNNANDDDLS