AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054151

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054151.t1 MTR_1g029100 92.045 88 7 0 43 130 1 88 3.31e-57 173
MS.gene054151.t1 MTR_1g029070 38.028 142 80 2 1 134 1 142 1.75e-26 98.2
MS.gene054151.t1 MTR_7g061270 37.383 107 64 1 49 152 31 137 1.92e-20 82.8
MS.gene054151.t1 MTR_7g100650 37.383 107 64 1 49 152 31 137 2.22e-20 82.4
MS.gene054151.t1 MTR_1g072790 37.374 99 61 1 49 147 34 131 2.28e-20 82.8
MS.gene054151.t1 MTR_4g133952 39.286 84 51 0 49 132 63 146 7.18e-20 82.8
MS.gene054151.t1 MTR_3g058980 38.384 99 60 1 49 147 32 129 9.88e-20 81.3
MS.gene054151.t1 MTR_8g091720 38.614 101 61 1 49 149 33 132 3.35e-19 80.1
MS.gene054151.t1 MTR_5g095740 41.667 84 49 0 49 132 28 111 3.90e-19 79.7
MS.gene054151.t1 MTR_1g039040 36.538 104 56 1 29 132 1 94 6.69e-19 79.3
MS.gene054151.t1 MTR_1g088860 40.476 84 50 0 49 132 41 124 7.65e-19 79.3
MS.gene054151.t1 MTR_2g026710 40.449 89 52 1 49 137 22 109 1.15e-18 78.2
MS.gene054151.t1 MTR_4g133938 39.773 88 53 0 45 132 20 107 1.91e-18 76.6
MS.gene054151.t1 MTR_4g119500 34.259 108 70 1 26 132 3 110 3.10e-18 75.9
MS.gene054151.t1 MTR_0392s0020 38.095 84 52 0 49 132 23 106 1.71e-17 74.3
MS.gene054151.t1 MTR_1g083070 35.714 84 54 0 49 132 9 92 2.42e-17 73.6
MS.gene054151.t1 MTR_8g093920 40.000 85 51 0 49 133 45 129 4.27e-17 75.1
MS.gene054151.t1 MTR_1g028480 39.080 87 39 1 79 151 24 110 1.56e-15 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054151.t1 AT3G53340 41.509 106 59 1 49 151 34 139 6.77e-22 86.7
MS.gene054151.t1 AT3G53340 41.509 106 59 1 49 151 34 139 6.77e-22 86.7
MS.gene054151.t1 AT2G37060 40.566 106 60 1 49 151 35 140 1.80e-21 85.5
MS.gene054151.t1 AT2G37060 40.566 106 60 1 49 151 35 140 1.80e-21 85.5
MS.gene054151.t1 AT2G37060 40.566 106 60 1 49 151 35 140 1.80e-21 85.5
MS.gene054151.t1 AT2G38880 39.216 102 61 1 49 150 26 126 3.29e-21 84.0
MS.gene054151.t1 AT2G38880 38.835 103 62 1 49 150 26 128 3.97e-21 83.6
MS.gene054151.t1 AT2G38880 38.835 103 62 1 49 150 26 128 4.34e-21 83.6
MS.gene054151.t1 AT2G38880 38.835 103 62 1 49 150 26 128 4.34e-21 83.6
MS.gene054151.t1 AT2G38880 38.835 103 62 1 49 150 26 128 4.34e-21 83.6
MS.gene054151.t1 AT4G14540 41.667 84 49 0 49 132 26 109 1.59e-19 80.1
MS.gene054151.t1 AT2G38880 41.667 84 49 0 49 132 26 109 1.97e-19 78.6
MS.gene054151.t1 AT2G38880 41.667 84 49 0 49 132 26 109 3.51e-19 79.3
MS.gene054151.t1 AT2G38880 41.667 84 49 0 49 132 26 109 3.51e-19 79.3
MS.gene054151.t1 AT5G47640 40.860 93 54 1 49 141 32 123 7.96e-19 79.0
MS.gene054151.t1 AT1G21970 31.973 147 85 3 1 132 1 147 1.55e-18 79.3
MS.gene054151.t1 AT2G38880 41.667 84 49 0 49 132 26 109 2.55e-18 77.0
MS.gene054151.t1 AT2G38880 41.667 84 49 0 49 132 26 109 2.55e-18 77.0
MS.gene054151.t1 AT2G38880 41.667 84 49 0 49 132 26 109 2.55e-18 77.0
MS.gene054151.t1 AT3G53340 42.857 84 48 0 49 132 34 117 6.62e-18 75.1
MS.gene054151.t1 AT5G47670 36.905 84 53 0 49 132 34 117 1.00e-17 76.6
MS.gene054151.t1 AT2G47810 36.111 108 59 2 49 149 56 160 1.02e-17 75.5
MS.gene054151.t1 AT5G47670 36.905 84 53 0 49 132 63 146 1.31e-17 76.6
MS.gene054151.t1 AT5G47670 36.905 84 53 0 49 132 63 146 1.31e-17 76.6
MS.gene054151.t1 AT3G53340 41.304 92 53 1 49 140 34 124 9.71e-17 72.8
MS.gene054151.t1 AT3G53340 41.304 92 53 1 49 140 34 124 9.71e-17 72.8
MS.gene054151.t1 AT2G13570 40.000 85 51 0 49 133 41 125 1.78e-16 73.6
MS.gene054151.t1 AT1G09030 34.524 84 55 0 49 132 8 91 4.12e-16 70.9

Find 45 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCACTTCCTTGCCCATTGC+TGG 0.281318 1.3:-15110455 None:intergenic
ATTGTGTGTGTCTAAATTTA+TGG 0.291429 1.3:+15110565 MS.gene054151:CDS
GATGTTCTACATTGGCTTGC+TGG 0.319904 1.3:-15110610 None:intergenic
TTTCTGCTGATGATTTACTA+TGG 0.322953 1.3:+15110642 MS.gene054151:CDS
ATTTACTATGGACAATGAAT+AGG 0.383466 1.3:+15110654 MS.gene054151:CDS
ACCACCAACAACAACATTGC+CGG 0.398663 1.3:+15110404 MS.gene054151:CDS
AATGAATAGGTTGGGCTTTG+AGG 0.399900 1.3:+15110667 MS.gene054151:CDS
AGGAAATTGTTAGGTCTGTT+GGG 0.406172 1.3:+15110687 MS.gene054151:CDS
CTATGGACAATGAATAGGTT+GGG 0.416738 1.3:+15110659 MS.gene054151:CDS
TGGGCTTTGAGGAAATTGTT+AGG 0.419493 1.3:+15110678 MS.gene054151:CDS
GAGGAAATTGTTAGGTCTGT+TGG 0.425795 1.3:+15110686 MS.gene054151:CDS
GGAGTTGAATGTTGGTTCTC+AGG 0.440378 1.3:-15110434 None:intergenic
GACTCTTGTCACATGATTGA+TGG 0.464195 1.3:-15110483 None:intergenic
TTCCTTGTGTCGAATTGCTA+TGG 0.478381 1.3:-15110008 None:intergenic
AATGTTGTTGTTGGTGGTGG+TGG 0.480106 1.3:-15110399 None:intergenic
AATTCGACACAAGGAAACTT+TGG 0.480259 1.3:+15110015 MS.gene054151:CDS
CGCAACCACATGGATGGGTC+AGG 0.482696 1.3:+15110728 MS.gene054151:CDS
GGCAATGTTGTTGTTGGTGG+TGG 0.483702 1.3:-15110402 None:intergenic
TCAATGTTGGTCATCATCAT+TGG 0.483912 1.3:-15110771 None:intergenic
CCATTGCTGGAGTTGAATGT+TGG 0.485468 1.3:-15110442 None:intergenic
AACTATCGCAACCACATGGA+TGG 0.490022 1.3:+15110722 MS.gene054151:CDS
AACAACAACATTGCCGGCGT+TGG 0.495844 1.3:+15110410 MS.gene054151:CDS
CACATGGATGGGTCAGGTGC+TGG 0.496487 1.3:+15110734 MS.gene054151:CDS
CAACATTCAACTCCAGCAAT+GGG 0.497597 1.3:+15110443 MS.gene054151:CDS
AACGCCGGCAATGTTGTTGT+TGG 0.501203 1.3:-15110408 None:intergenic
ATGGATGGGTCAGGTGCTGG+TGG 0.513148 1.3:+15110737 MS.gene054151:CDS
GCCGGCAATGTTGTTGTTGG+TGG 0.518356 1.3:-15110405 None:intergenic
TCATCGATGATTATTGTGTC+TGG 0.530097 1.3:-15110524 None:intergenic
AATCATTTGATGTTCTACAT+TGG 0.545949 1.3:-15110618 None:intergenic
CCAACATTCAACTCCAGCAA+TGG 0.549683 1.3:+15110442 MS.gene054151:CDS
AAGTTACTCCATATCAATGT+TGG 0.549768 1.3:-15110784 None:intergenic
ACTATGGACAATGAATAGGT+TGG 0.553647 1.3:+15110658 MS.gene054151:CDS
AATAATCATCGATGATGCTA+AGG 0.557598 1.3:+15110532 MS.gene054151:CDS
ACTCTTGTCACATGATTGAT+GGG 0.580392 1.3:-15110482 None:intergenic
TTCAACTCCAGCAATGGGCA+AGG 0.593157 1.3:+15110448 MS.gene054151:CDS
TATGGACATGGTCACAAGTG+AGG 0.597827 1.3:+15110583 MS.gene054151:CDS
ACTATCGCAACCACATGGAT+GGG 0.604393 1.3:+15110723 MS.gene054151:CDS
GAATTGCTATGGTTAGCAGA+GGG 0.608648 1.3:-15109997 None:intergenic
AACCATAGCAATTCGACACA+AGG 0.618498 1.3:+15110006 MS.gene054151:CDS
CGAATTGCTATGGTTAGCAG+AGG 0.624127 1.3:-15109998 None:intergenic
TCGATGATTATTGTGTCTGG+TGG 0.630419 1.3:-15110521 None:intergenic
AATTGCTATGGTTAGCAGAG+GGG 0.653798 1.3:-15109996 None:intergenic
TTGGTTCTCAGGTCCAACGC+CGG 0.657689 1.3:-15110423 None:intergenic
TGTGTCTAAATTTATGGACA+TGG 0.681958 1.3:+15110571 MS.gene054151:CDS
CAGCACCTGACCCATCCATG+TGG 0.709046 1.3:-15110733 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATATACAAATGAAAAAC+CGG - chr1.3:15110104-15110123 None:intergenic 15.0%
!! TTAATAATAGATTGTACTAA+AGG + chr1.3:15110190-15110209 MS.gene054151:intron 15.0%
!!! ATGTTTTTGATAGAGATAAA+AGG - chr1.3:15110365-15110384 None:intergenic 20.0%
! AATCATTTGATGTTCTACAT+TGG - chr1.3:15110621-15110640 None:intergenic 25.0%
! ATTAAAAGATTTAGTGCAAG+AGG - chr1.3:15110310-15110329 None:intergenic 25.0%
! ATTGTGTGTGTCTAAATTTA+TGG + chr1.3:15110565-15110584 MS.gene054151:CDS 25.0%
! ATTTACTATGGACAATGAAT+AGG + chr1.3:15110654-15110673 MS.gene054151:CDS 25.0%
!! ACTCAATCTTTTACAAAGTA+GGG - chr1.3:15110078-15110097 None:intergenic 25.0%
AATAATCATCGATGATGCTA+AGG + chr1.3:15110532-15110551 MS.gene054151:CDS 30.0%
TGTGTCTAAATTTATGGACA+TGG + chr1.3:15110571-15110590 MS.gene054151:CDS 30.0%
TTTCTGCTGATGATTTACTA+TGG + chr1.3:15110642-15110661 MS.gene054151:CDS 30.0%
! CACTCAATCTTTTACAAAGT+AGG - chr1.3:15110079-15110098 None:intergenic 30.0%
AATTCGACACAAGGAAACTT+TGG + chr1.3:15110015-15110034 MS.gene054151:CDS 35.0%
ACTATGGACAATGAATAGGT+TGG + chr1.3:15110658-15110677 MS.gene054151:CDS 35.0%
ACTCTTGTCACATGATTGAT+GGG - chr1.3:15110485-15110504 None:intergenic 35.0%
AGGAAATTGTTAGGTCTGTT+GGG + chr1.3:15110687-15110706 MS.gene054151:CDS 35.0%
CTATGGACAATGAATAGGTT+GGG + chr1.3:15110659-15110678 MS.gene054151:CDS 35.0%
TCAATGTTGGTCATCATCAT+TGG - chr1.3:15110774-15110793 None:intergenic 35.0%
TCATCGATGATTATTGTGTC+TGG - chr1.3:15110527-15110546 None:intergenic 35.0%
TTGTAAAAGATTGAGTGTGC+CGG + chr1.3:15110082-15110101 MS.gene054151:intron 35.0%
AACCATAGCAATTCGACACA+AGG + chr1.3:15110006-15110025 MS.gene054151:CDS 40.0%
AATTGCTATGGTTAGCAGAG+GGG - chr1.3:15109999-15110018 None:intergenic 40.0%
CAAAAACTATCGCAACCACA+TGG + chr1.3:15110718-15110737 MS.gene054151:CDS 40.0%
CAACATTCAACTCCAGCAAT+GGG + chr1.3:15110443-15110462 MS.gene054151:CDS 40.0%
GAATTGCTATGGTTAGCAGA+GGG - chr1.3:15110000-15110019 None:intergenic 40.0%
GACTCTTGTCACATGATTGA+TGG - chr1.3:15110486-15110505 None:intergenic 40.0%
GAGGAAATTGTTAGGTCTGT+TGG + chr1.3:15110686-15110705 MS.gene054151:CDS 40.0%
TCGATGATTATTGTGTCTGG+TGG - chr1.3:15110524-15110543 None:intergenic 40.0%
TTCCTTGTGTCGAATTGCTA+TGG - chr1.3:15110011-15110030 None:intergenic 40.0%
! AATGAATAGGTTGGGCTTTG+AGG + chr1.3:15110667-15110686 MS.gene054151:CDS 40.0%
! TGTGGTTGCGATAGTTTTTG+AGG - chr1.3:15110718-15110737 None:intergenic 40.0%
!! TGGGCTTTGAGGAAATTGTT+AGG + chr1.3:15110678-15110697 MS.gene054151:CDS 40.0%
AACTATCGCAACCACATGGA+TGG + chr1.3:15110722-15110741 MS.gene054151:CDS 45.0%
ACCACCAACAACAACATTGC+CGG + chr1.3:15110404-15110423 MS.gene054151:CDS 45.0%
ACTATCGCAACCACATGGAT+GGG + chr1.3:15110723-15110742 MS.gene054151:CDS 45.0%
CCAACATTCAACTCCAGCAA+TGG + chr1.3:15110442-15110461 MS.gene054151:CDS 45.0%
CCATTGCTGGAGTTGAATGT+TGG - chr1.3:15110445-15110464 None:intergenic 45.0%
CGAATTGCTATGGTTAGCAG+AGG - chr1.3:15110001-15110020 None:intergenic 45.0%
TATGGACATGGTCACAAGTG+AGG + chr1.3:15110583-15110602 MS.gene054151:CDS 45.0%
!! AATGTTGTTGTTGGTGGTGG+TGG - chr1.3:15110402-15110421 None:intergenic 45.0%
!! GATGTTCTACATTGGCTTGC+TGG - chr1.3:15110613-15110632 None:intergenic 45.0%
!! GGAGTTGAATGTTGGTTCTC+AGG - chr1.3:15110437-15110456 None:intergenic 45.0%
AACAACAACATTGCCGGCGT+TGG + chr1.3:15110410-15110429 MS.gene054151:CDS 50.0%
AACGCCGGCAATGTTGTTGT+TGG - chr1.3:15110411-15110430 None:intergenic 50.0%
TTCAACTCCAGCAATGGGCA+AGG + chr1.3:15110448-15110467 MS.gene054151:CDS 50.0%
! GGCAATGTTGTTGTTGGTGG+TGG - chr1.3:15110405-15110424 None:intergenic 50.0%
! GCCGGCAATGTTGTTGTTGG+TGG - chr1.3:15110408-15110427 None:intergenic 55.0%
! TTGGTTCTCAGGTCCAACGC+CGG - chr1.3:15110426-15110445 None:intergenic 55.0%
CACATGGATGGGTCAGGTGC+TGG + chr1.3:15110734-15110753 MS.gene054151:CDS 60.0%
CAGCACCTGACCCATCCATG+TGG - chr1.3:15110736-15110755 None:intergenic 60.0%
CGCAACCACATGGATGGGTC+AGG + chr1.3:15110728-15110747 MS.gene054151:CDS 60.0%
CGCACTTCCTTGCCCATTGC+TGG - chr1.3:15110458-15110477 None:intergenic 60.0%
!! ATGGATGGGTCAGGTGCTGG+TGG + chr1.3:15110737-15110756 MS.gene054151:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 15109982 15110793 15109982 ID=MS.gene054151
chr1.3 mRNA 15109982 15110793 15109982 ID=MS.gene054151.t1;Parent=MS.gene054151
chr1.3 exon 15109982 15110036 15109982 ID=MS.gene054151.t1.exon1;Parent=MS.gene054151.t1
chr1.3 CDS 15109982 15110036 15109982 ID=cds.MS.gene054151.t1;Parent=MS.gene054151.t1
chr1.3 exon 15110390 15110793 15110390 ID=MS.gene054151.t1.exon2;Parent=MS.gene054151.t1
chr1.3 CDS 15110390 15110793 15110390 ID=cds.MS.gene054151.t1;Parent=MS.gene054151.t1
Gene Sequence

>MS.gene054151

ATGGAGCATGGAAGCCCCTCTGCTAACCATAGCAATTCGACACAAGGAAACTTTGGTAAGCACTCTAAACAACATTTTTAGATATTCTAACTTCCCTACTTTGTAAAAGATTGAGTGTGCCGGTTTTTCATTTGTATATATTCAATCACATCAAAAGCTGATTTTTATTATCGTGCAAGAAATTATAAATATTTTCTCAATATTTAATTTAATAATAGATTGTACTAAAGGAAAAAAAAAAAAAAAAAGCTTACTAACATATATTTTTATTATCTTATACTAGATTTTTATCTGTGAAGTTACTTGAAAAAAAAATAATTAATTTCCTCTTGCACTAAATCTTTTAATTTTGAAGATTTAAATTGATTTGATTTTTTTTTCCTTTTATCTCTATCAAAAACATTGTAGCTGAAATAGCCACCACCACCAACAACAACATTGCCGGCGTTGGACCTGAGAACCAACATTCAACTCCAGCAATGGGCAAGGAAGTGCGTATTCCCATCAATCATGTGACAAGAGTCATGCAGAGTGTTCTTCCACCAGACACAATAATCATCGATGATGCTAAGGAGTTAATGCAATTGTGTGTGTCTAAATTTATGGACATGGTCACAAGTGAGGCTTTCCAGCAAGCCAATGTAGAACATCAAATGATTGTTTCTGCTGATGATTTACTATGGACAATGAATAGGTTGGGCTTTGAGGAAATTGTTAGGTCTGTTGGGAAAGACCTCAAAAACTATCGCAACCACATGGATGGGTCAGGTGCTGGTGGCTCAAACAATGCCAATGATGATGACCAACATTGA
Protein sequence

>MS.gene054151.t1

MEHGSPSANHSNSTQGNFAEIATTTNNNIAGVGPENQHSTPAMGKEVRIPINHVTRVMQSVLPPDTIIIDDAKELMQLCVSKFMDMVTSEAFQQANVEHQMIVSADDLLWTMNRLGFEEIVRSVGKDLKNYRNHMDGSGAGGSNNANDDDQH