AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52436

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52436.t1 MTR_0392s0020 98.551 138 2 0 1 138 1 138 4.94e-100 283
MS.gene52436.t1 MTR_4g119500 86.614 127 12 4 1 122 2 128 2.76e-72 212
MS.gene52436.t1 MTR_1g088860 79.208 101 21 0 12 112 30 130 1.12e-58 180
MS.gene52436.t1 MTR_4g133938 62.698 126 43 2 3 128 6 127 1.53e-51 160
MS.gene52436.t1 MTR_1g072790 60.317 126 42 2 7 132 22 139 6.91e-51 160
MS.gene52436.t1 MTR_2g026710 66.667 108 32 1 9 112 4 111 3.02e-50 158
MS.gene52436.t1 MTR_7g061270 60.000 115 42 1 16 130 24 134 4.22e-50 157
MS.gene52436.t1 MTR_7g100650 60.000 115 42 1 16 130 24 134 6.92e-50 157
MS.gene52436.t1 MTR_8g093920 66.019 103 35 0 17 119 39 141 1.18e-49 158
MS.gene52436.t1 MTR_1g083070 69.697 99 30 0 18 116 4 102 1.12e-48 152
MS.gene52436.t1 MTR_3g058980 63.303 109 37 1 7 112 13 121 1.60e-48 154
MS.gene52436.t1 MTR_8g091720 67.677 99 32 0 17 115 27 125 2.88e-48 154
MS.gene52436.t1 MTR_5g095740 62.385 109 39 1 6 112 9 117 9.94e-48 152
MS.gene52436.t1 MTR_4g133952 61.616 99 38 0 16 114 56 154 3.94e-45 147
MS.gene52436.t1 MTR_1g039040 62.500 96 36 0 14 109 2 97 1.79e-42 139
MS.gene52436.t1 MTR_1g029070 46.809 94 50 0 17 110 51 144 1.21e-25 95.5
MS.gene52436.t1 MTR_5g095900 45.055 91 50 0 17 107 15 105 3.53e-24 92.0
MS.gene52436.t1 MTR_1g028480 50.794 63 31 0 48 110 19 81 1.93e-18 75.5
MS.gene52436.t1 MTR_1g029100 38.356 73 45 0 23 95 7 79 4.95e-17 71.2
MS.gene52436.t1 MTR_4g112380 31.250 112 71 1 12 123 5 110 3.57e-16 70.9
MS.gene52436.t1 MTR_2g056000 33.333 105 64 1 19 123 42 140 8.14e-16 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52436.t1 AT2G47810 67.176 131 25 1 4 116 19 149 8.12e-58 177
MS.gene52436.t1 AT4G14540 61.404 114 44 0 6 119 9 122 1.23e-51 161
MS.gene52436.t1 AT2G38880 58.594 128 47 1 7 128 10 137 2.42e-51 160
MS.gene52436.t1 AT2G38880 58.594 128 47 1 7 128 10 137 2.88e-51 159
MS.gene52436.t1 AT2G38880 58.594 128 47 1 7 128 10 137 2.88e-51 159
MS.gene52436.t1 AT2G38880 58.594 128 47 1 7 128 10 137 2.88e-51 159
MS.gene52436.t1 AT3G53340 62.609 115 39 1 16 130 27 137 1.22e-50 159
MS.gene52436.t1 AT3G53340 62.609 115 39 1 16 130 27 137 1.22e-50 159
MS.gene52436.t1 AT5G47640 61.207 116 45 0 17 132 26 141 3.56e-50 158
MS.gene52436.t1 AT2G37060 55.639 133 47 2 6 130 10 138 7.22e-50 157
MS.gene52436.t1 AT2G37060 55.639 133 47 2 6 130 10 138 7.22e-50 157
MS.gene52436.t1 AT2G37060 55.639 133 47 2 6 130 10 138 7.22e-50 157
MS.gene52436.t1 AT1G09030 65.138 109 38 0 16 124 1 109 1.07e-49 155
MS.gene52436.t1 AT2G38880 65.049 103 36 0 6 108 9 111 2.18e-49 154
MS.gene52436.t1 AT2G38880 66.337 101 34 0 7 107 10 110 4.06e-49 154
MS.gene52436.t1 AT2G13570 68.687 99 31 0 17 115 35 133 4.88e-49 156
MS.gene52436.t1 AT3G53340 70.526 95 28 0 16 110 27 121 6.08e-49 154
MS.gene52436.t1 AT3G53340 70.526 95 28 0 16 110 27 121 6.08e-49 154
MS.gene52436.t1 AT2G38880 65.686 102 35 0 7 108 10 111 7.71e-49 154
MS.gene52436.t1 AT2G38880 65.686 102 35 0 7 108 10 111 7.71e-49 154
MS.gene52436.t1 AT2G38880 65.049 103 36 0 6 108 9 111 1.09e-48 153
MS.gene52436.t1 AT2G38880 65.049 103 36 0 6 108 9 111 1.09e-48 153
MS.gene52436.t1 AT2G38880 65.049 103 36 0 6 108 9 111 1.09e-48 153
MS.gene52436.t1 AT3G53340 69.892 93 28 0 16 108 27 119 5.05e-48 151
MS.gene52436.t1 AT5G47670 55.752 113 45 1 5 112 11 123 2.73e-44 144
MS.gene52436.t1 AT5G47670 55.752 113 45 1 5 112 40 152 5.34e-44 144
MS.gene52436.t1 AT5G47670 55.752 113 45 1 5 112 40 152 5.34e-44 144
MS.gene52436.t1 AT1G21970 57.292 96 41 0 17 112 58 153 6.76e-40 134
MS.gene52436.t1 AT5G08190 33.000 100 65 1 12 109 5 104 3.39e-16 71.2
MS.gene52436.t1 AT5G08190 33.000 100 65 1 12 109 5 104 4.11e-16 70.9
MS.gene52436.t1 AT5G23090 32.039 103 68 1 12 112 5 107 2.49e-15 68.6
MS.gene52436.t1 AT5G23090 33.000 100 65 1 12 109 5 104 2.92e-15 68.6
MS.gene52436.t1 AT5G23090 33.000 100 65 1 12 109 5 104 2.92e-15 68.6
MS.gene52436.t1 AT5G23090 33.000 100 65 1 12 109 5 104 2.92e-15 68.6

Find 31 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCCGACCAACATTGGCTAT+TGG 0.352636 2.3:+54318550 None:intergenic
ATGAAATTTATAGAGGTGTT+AGG 0.374658 2.3:-54318231 MS.gene52436:CDS
GATACCGCCATTGTCGTTAG+AGG 0.377941 2.3:+54318594 None:intergenic
ACTAATAATCAAGAAATTAG+AGG 0.408687 2.3:-54318277 MS.gene52436:CDS
CTTCGTAACGAGTGAAGCTT+CGG 0.427925 2.3:-54318443 MS.gene52436:CDS
GAATGGTGATGATATTTGTT+GGG 0.439258 2.3:-54318389 MS.gene52436:CDS
GAGAGAGATGAAATTTATAG+AGG 0.466053 2.3:-54318238 MS.gene52436:CDS
CTATGCAAGTACCTTCTCAT+TGG 0.485808 2.3:+54318331 None:intergenic
TAACGACAATGGCGGTATCA+AGG 0.502142 2.3:-54318590 MS.gene52436:CDS
TGTTGGGCTTTAGCAACACT+TGG 0.507469 2.3:-54318373 MS.gene52436:CDS
TGAATGGTGATGATATTTGT+TGG 0.508420 2.3:-54318390 MS.gene52436:CDS
GTGAAGCTTCGGAGAAATGC+AGG 0.510847 2.3:-54318432 MS.gene52436:CDS
CTTCATTATCCGACCAACAT+TGG 0.513248 2.3:+54318543 None:intergenic
AAAATGGTTGATAACTTTGG+AGG 0.516859 2.3:-54318622 MS.gene52436:CDS
GAAAGGAGAAAGACTGTGAA+TGG 0.518544 2.3:-54318406 MS.gene52436:CDS
TAAATTTCATCTCTCTCTTG+AGG 0.531287 2.3:+54318244 None:intergenic
TTCGATACTTTCGCATTCTG+AGG 0.534092 2.3:+54318511 None:intergenic
CAATGAGAAGGTACTTGCAT+AGG 0.552859 2.3:-54318330 MS.gene52436:CDS
CGGAGAAATGCAGGAAGGAA+AGG 0.555191 2.3:-54318423 MS.gene52436:CDS
CAAGTACCTTCTCATTGGCT+CGG 0.563177 2.3:+54318336 None:intergenic
CGTTACGAAGCTTATGAACT+CGG 0.570732 2.3:+54318456 None:intergenic
TTGCTTCCAATAGCCAATGT+TGG 0.590887 2.3:-54318556 MS.gene52436:CDS
TTCCAATAGCCAATGTTGGT+CGG 0.592047 2.3:-54318552 MS.gene52436:CDS
GCGGTATCAAGGAACAAGAC+AGG 0.602800 2.3:-54318579 MS.gene52436:CDS
TCAGAATGCGAAAGTATCGA+AGG 0.631763 2.3:-54318509 MS.gene52436:CDS
GAAAGTATCGAAGGAAGCAA+AGG 0.632226 2.3:-54318500 MS.gene52436:CDS
GGTAGTTCCTCTAACGACAA+TGG 0.647778 2.3:-54318601 MS.gene52436:CDS
AATAATCAAGAAATTAGAGG+AGG 0.649585 2.3:-54318274 MS.gene52436:CDS
ATTATGCCGAGCCAATGAGA+AGG 0.662962 2.3:-54318342 MS.gene52436:CDS
AGCTTCGGAGAAATGCAGGA+AGG 0.709567 2.3:-54318428 MS.gene52436:CDS
AGTTCCTCTAACGACAATGG+CGG 0.733992 2.3:-54318598 MS.gene52436:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAATAATCAAGAAATTAG+AGG - chr2.3:54318567-54318586 MS.gene52436:CDS 20.0%
! AATAATCAAGAAATTAGAGG+AGG - chr2.3:54318570-54318589 MS.gene52436:CDS 25.0%
!!! ATGAAATTTATAGAGGTGTT+AGG - chr2.3:54318613-54318632 MS.gene52436:CDS 25.0%
GAGAGAGATGAAATTTATAG+AGG - chr2.3:54318606-54318625 MS.gene52436:CDS 30.0%
TAAATTTCATCTCTCTCTTG+AGG + chr2.3:54318603-54318622 None:intergenic 30.0%
! GAATGGTGATGATATTTGTT+GGG - chr2.3:54318455-54318474 MS.gene52436:CDS 30.0%
! TGAATGGTGATGATATTTGT+TGG - chr2.3:54318454-54318473 MS.gene52436:CDS 30.0%
CGTTACGAAGCTTATGAACT+CGG + chr2.3:54318391-54318410 None:intergenic 40.0%
CTATGCAAGTACCTTCTCAT+TGG + chr2.3:54318516-54318535 None:intergenic 40.0%
CTTCATTATCCGACCAACAT+TGG + chr2.3:54318304-54318323 None:intergenic 40.0%
GAAAGGAGAAAGACTGTGAA+TGG - chr2.3:54318438-54318457 MS.gene52436:CDS 40.0%
TTCCAATAGCCAATGTTGGT+CGG - chr2.3:54318292-54318311 MS.gene52436:CDS 40.0%
TTCGATACTTTCGCATTCTG+AGG + chr2.3:54318336-54318355 None:intergenic 40.0%
TTGCTTCCAATAGCCAATGT+TGG - chr2.3:54318288-54318307 MS.gene52436:CDS 40.0%
!! CAATGAGAAGGTACTTGCAT+AGG - chr2.3:54318514-54318533 MS.gene52436:CDS 40.0%
!! GAAAGTATCGAAGGAAGCAA+AGG - chr2.3:54318344-54318363 MS.gene52436:CDS 40.0%
!! TCAGAATGCGAAAGTATCGA+AGG - chr2.3:54318335-54318354 MS.gene52436:CDS 40.0%
AGTTCCTCTAACGACAATGG+CGG - chr2.3:54318246-54318265 MS.gene52436:CDS 45.0%
ATTATGCCGAGCCAATGAGA+AGG - chr2.3:54318502-54318521 MS.gene52436:CDS 45.0%
CTTCGTAACGAGTGAAGCTT+CGG - chr2.3:54318401-54318420 MS.gene52436:CDS 45.0%
GGTAGTTCCTCTAACGACAA+TGG - chr2.3:54318243-54318262 MS.gene52436:CDS 45.0%
TAACGACAATGGCGGTATCA+AGG - chr2.3:54318254-54318273 MS.gene52436:CDS 45.0%
! ATCCGACCAACATTGGCTAT+TGG + chr2.3:54318297-54318316 None:intergenic 45.0%
! CAAGTACCTTCTCATTGGCT+CGG + chr2.3:54318511-54318530 None:intergenic 45.0%
! TGTTGGGCTTTAGCAACACT+TGG - chr2.3:54318471-54318490 MS.gene52436:CDS 45.0%
AGCTTCGGAGAAATGCAGGA+AGG - chr2.3:54318416-54318435 MS.gene52436:CDS 50.0%
CGGAGAAATGCAGGAAGGAA+AGG - chr2.3:54318421-54318440 MS.gene52436:CDS 50.0%
GATACCGCCATTGTCGTTAG+AGG + chr2.3:54318253-54318272 None:intergenic 50.0%
GCGGTATCAAGGAACAAGAC+AGG - chr2.3:54318265-54318284 MS.gene52436:CDS 50.0%
GTGAAGCTTCGGAGAAATGC+AGG - chr2.3:54318412-54318431 MS.gene52436:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 54318225 54318641 54318225 ID=MS.gene52436
chr2.3 mRNA 54318225 54318641 54318225 ID=MS.gene52436.t1;Parent=MS.gene52436
chr2.3 exon 54318225 54318641 54318225 ID=MS.gene52436.t1.exon1;Parent=MS.gene52436.t1
chr2.3 CDS 54318225 54318641 54318225 ID=cds.MS.gene52436.t1;Parent=MS.gene52436.t1
Gene Sequence

>MS.gene52436

ATGGTTGATAACTTTGGAGGTAGTTCCTCTAACGACAATGGCGGTATCAAGGAACAAGACAGGTTGCTTCCAATAGCCAATGTTGGTCGGATAATGAAGCAGATTTTGCCTCAGAATGCGAAAGTATCGAAGGAAGCAAAGGAAACAATGCAAGAATGTGTGTCCGAGTTCATAAGCTTCGTAACGAGTGAAGCTTCGGAGAAATGCAGGAAGGAAAGGAGAAAGACTGTGAATGGTGATGATATTTGTTGGGCTTTAGCAACACTTGGTTTTGATGATTATGCCGAGCCAATGAGAAGGTACTTGCATAGGTATAGAGAGTTAGAAGTTGATAAAATTAATACTAATAATCAAGAAATTAGAGGAGGAAATAGTCCTCAAGAGAGAGATGAAATTTATAGAGGTGTTAGGCTGTAA
Protein sequence

>MS.gene52436.t1

MVDNFGGSSSNDNGGIKEQDRLLPIANVGRIMKQILPQNAKVSKEAKETMQECVSEFISFVTSEASEKCRKERRKTVNGDDICWALATLGFDDYAEPMRRYLHRYRELEVDKINTNNQEIRGGNSPQERDEIYRGVRL