AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04932


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04932.t1 MTR_3g067270 75.000 136 32 2 1 135 1 135 2.42e-71 210
MS.gene04932.t1 MTR_3g467750 75.000 136 32 2 1 135 1 135 2.42e-71 210
MS.gene04932.t1 MTR_3g067280 75.000 136 32 2 1 135 1 135 1.90e-70 207
MS.gene04932.t1 MTR_3g467760 63.235 136 24 3 1 135 1 111 2.06e-52 161
MS.gene04932.t1 MTR_3g067437 61.538 130 43 3 1 125 1 128 1.51e-48 152
MS.gene04932.t1 MTR_3g067580 56.391 133 54 3 1 130 9 140 2.86e-45 144
MS.gene04932.t1 MTR_3g067510 55.970 134 47 5 1 130 1 126 3.62e-40 131
MS.gene04932.t1 MTR_3g067540 51.825 137 58 4 1 130 1 136 1.63e-39 129
MS.gene04932.t1 MTR_3g067555 51.825 137 58 4 1 130 1 136 1.63e-39 129
MS.gene04932.t1 MTR_3g067430 53.521 142 48 5 1 130 1 136 1.27e-38 127
MS.gene04932.t1 MTR_3g067510 53.237 139 48 6 1 130 1 131 2.17e-37 124
MS.gene04932.t1 MTR_3g463570 53.030 132 58 4 1 129 1 131 3.00e-35 119
MS.gene04932.t1 MTR_3g067535 50.000 140 52 5 1 130 1 132 3.13e-35 119
MS.gene04932.t1 MTR_3g067445 54.701 117 46 3 1 110 1 117 1.05e-32 112
MS.gene04932.t1 MTR_6g036620 49.254 134 60 5 1 130 1 130 1.17e-31 109
MS.gene04932.t1 MTR_6g017150 48.936 141 61 8 1 134 1 137 5.25e-31 108
MS.gene04932.t1 MTR_7g044980 45.865 133 64 5 1 131 1 127 6.10e-30 105
MS.gene04932.t1 MTR_3g067555 47.500 120 55 4 18 130 5 123 1.08e-29 104
MS.gene04932.t1 MTR_8g022400 44.203 138 71 5 1 134 1 136 2.70e-29 103
MS.gene04932.t1 MTR_8g022420 43.182 132 72 3 1 129 1 132 9.01e-29 102
MS.gene04932.t1 MTR_7g056803 45.588 136 66 5 1 130 1 134 1.54e-28 102
MS.gene04932.t1 MTR_3g067500 50.893 112 50 3 22 130 1 110 1.29e-27 99.0
MS.gene04932.t1 MTR_7g056817 44.118 136 69 4 1 130 1 135 1.44e-27 99.4
MS.gene04932.t1 MTR_3g067550 47.414 116 53 4 22 130 1 115 2.76e-27 98.2
MS.gene04932.t1 MTR_3g067555 47.414 116 53 4 22 130 1 115 2.76e-27 98.2
MS.gene04932.t1 MTR_3g067570 56.383 94 37 3 22 113 1 92 6.85e-27 96.3
MS.gene04932.t1 MTR_3g436100 40.000 150 68 5 1 130 1 148 9.62e-27 97.8
MS.gene04932.t1 MTR_7g044920 46.622 148 59 7 1 130 1 146 1.20e-26 97.4
MS.gene04932.t1 MTR_6g017170 45.299 117 61 1 1 114 1 117 1.90e-26 96.3
MS.gene04932.t1 MTR_8g022430 41.606 137 77 3 1 134 1 137 2.62e-25 94.0
MS.gene04932.t1 MTR_3g463570 46.218 119 61 3 13 129 34 151 3.24e-25 94.0
MS.gene04932.t1 MTR_4g026590 44.800 125 55 5 17 130 18 139 6.11e-25 92.8
MS.gene04932.t1 MTR_6g047900 42.222 135 70 5 1 131 1 131 2.91e-24 90.9
MS.gene04932.t1 MTR_6g047880 40.000 135 76 4 1 131 1 134 1.50e-23 89.4
MS.gene04932.t1 MTR_1g019650 43.548 124 53 4 1 120 1 111 3.00e-23 87.8
MS.gene04932.t1 MTR_8g461020 43.925 107 55 3 11 114 12 116 2.91e-22 85.9
MS.gene04932.t1 MTR_3g067830 51.923 104 42 5 1 97 1 103 3.38e-22 85.1
MS.gene04932.t1 MTR_7g029540 37.705 122 72 2 1 118 1 122 1.46e-19 78.6
MS.gene04932.t1 MTR_6g082060 38.281 128 65 3 1 117 1 125 1.67e-16 71.2
MS.gene04932.t1 MTR_8g056800 41.772 79 44 1 53 131 8 84 2.09e-14 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAATTCTGATATCAAATA+TGG 0.247187 3.3:-59420093 MS.gene04932:CDS
CTCCTTCTACTTTGTTCATT+GGG 0.296363 3.3:+59420313 None:intergenic
GCTGTCTTTCTTGAATTTAG+AGG 0.344386 3.3:+59420017 None:intergenic
TTTCTTGAATTTAGAGGTAA+TGG 0.350169 3.3:+59420023 None:intergenic
TCTCCTTCTACTTTGTTCAT+TGG 0.362323 3.3:+59420312 None:intergenic
AATTTATTCTATTGAAAAGA+AGG 0.426982 3.3:-59420193 MS.gene04932:CDS
TTCCCAATGAACAAAGTAGA+AGG 0.432028 3.3:-59420315 MS.gene04932:CDS
CTATGAGACATACATAAGTT+AGG 0.445121 3.3:+59420159 None:intergenic
GACAGCTTCTTGAAGATGCT+TGG 0.451362 3.3:-59420000 MS.gene04932:CDS
GACATTACATATTGTGAAGA+TGG 0.462660 3.3:-59420267 MS.gene04932:CDS
TCATAGCGATTGCACAAAGA+AGG 0.499424 3.3:-59420142 MS.gene04932:CDS
AAAGTAGAAGGAGACTGTAC+GGG 0.562543 3.3:-59420303 MS.gene04932:CDS
ACATATCAATATTAATTAAG+CGG 0.565489 3.3:+59419972 None:intergenic
ACATATTGTGAAGATGGTTG+TGG 0.567653 3.3:-59420261 MS.gene04932:CDS
CAAAGTAGAAGGAGACTGTA+CGG 0.574901 3.3:-59420304 MS.gene04932:CDS
GATTGCACAAAGAAGGGTAG+TGG 0.585178 3.3:-59420135 MS.gene04932:CDS
GCAAGTAAGAAGACAACGAA+AGG 0.597344 3.3:+59420517 None:intergenic
CATAGCGATTGCACAAAGAA+GGG 0.599166 3.3:-59420141 MS.gene04932:CDS
AGCAGAAGACGCATACAAGA+TGG 0.599466 3.3:-59420046 MS.gene04932:CDS
TATCAATATTAATTAAGCGG+TGG 0.649392 3.3:+59419975 None:intergenic
GTCTTCTGCTTCAGTGACAG+AGG 0.660768 3.3:+59420059 None:intergenic
AAGTAGAAGGAGACTGTACG+GGG 0.665862 3.3:-59420302 MS.gene04932:CDS
AGTAGAAGGAGACTGTACGG+GGG 0.832627 3.3:-59420301 MS.gene04932:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTATTCTATTGAAAAGA+AGG - chr3.3:59420332-59420351 MS.gene04932:intron 15.0%
!!! TCTTTTCAATAGAATAAATT+GGG + chr3.3:59420332-59420351 None:intergenic 15.0%
!!! TTCTTTTCAATAGAATAAAT+TGG + chr3.3:59420333-59420352 None:intergenic 15.0%
!! CTTAATTCTGATATCAAATA+TGG - chr3.3:59420432-59420451 MS.gene04932:intron 20.0%
! AAAGATGGCTAAAATACAAA+AGG + chr3.3:59420051-59420070 None:intergenic 25.0%
! TTTCTTGAATTTAGAGGTAA+TGG + chr3.3:59420505-59420524 None:intergenic 25.0%
!! TGCGATGTCATATATTTTAT+GGG - chr3.3:59420288-59420307 MS.gene04932:CDS 25.0%
!! TTGCGATGTCATATATTTTA+TGG - chr3.3:59420287-59420306 MS.gene04932:CDS 25.0%
AAGCTCATTAGAAATTAGCT+TGG - chr3.3:59420109-59420128 MS.gene04932:CDS 30.0%
AATGCATCATATGACAAAGA+TGG + chr3.3:59420066-59420085 None:intergenic 30.0%
CTATGAGACATACATAAGTT+AGG + chr3.3:59420369-59420388 None:intergenic 30.0%
GACATTACATATTGTGAAGA+TGG - chr3.3:59420258-59420277 MS.gene04932:CDS 30.0%
! ATATATTTTATGGGTGGTGA+AGG - chr3.3:59420297-59420316 MS.gene04932:CDS 30.0%
! GATGTCATATATTTTATGGG+TGG - chr3.3:59420291-59420310 MS.gene04932:CDS 30.0%
ACATATTGTGAAGATGGTTG+TGG - chr3.3:59420264-59420283 MS.gene04932:CDS 35.0%
CTCCTTCTACTTTGTTCATT+GGG + chr3.3:59420215-59420234 None:intergenic 35.0%
GCTGTCTTTCTTGAATTTAG+AGG + chr3.3:59420511-59420530 None:intergenic 35.0%
TCTCCTTCTACTTTGTTCAT+TGG + chr3.3:59420216-59420235 None:intergenic 35.0%
TTCCCAATGAACAAAGTAGA+AGG - chr3.3:59420210-59420229 MS.gene04932:CDS 35.0%
AAAGTAGAAGGAGACTGTAC+GGG - chr3.3:59420222-59420241 MS.gene04932:CDS 40.0%
CAAAGTAGAAGGAGACTGTA+CGG - chr3.3:59420221-59420240 MS.gene04932:CDS 40.0%
CATAGCGATTGCACAAAGAA+GGG - chr3.3:59420384-59420403 MS.gene04932:intron 40.0%
GCAAGTAAGAAGACAACGAA+AGG + chr3.3:59420011-59420030 None:intergenic 40.0%
TCATAGCGATTGCACAAAGA+AGG - chr3.3:59420383-59420402 MS.gene04932:intron 40.0%
AAGTAGAAGGAGACTGTACG+GGG - chr3.3:59420223-59420242 MS.gene04932:CDS 45.0%
AGCAGAAGACGCATACAAGA+TGG - chr3.3:59420479-59420498 MS.gene04932:intron 45.0%
GACAGCTTCTTGAAGATGCT+TGG - chr3.3:59420525-59420544 MS.gene04932:CDS 45.0%
GATTGCACAAAGAAGGGTAG+TGG - chr3.3:59420390-59420409 MS.gene04932:intron 45.0%
AGTAGAAGGAGACTGTACGG+GGG - chr3.3:59420224-59420243 MS.gene04932:CDS 50.0%
GTCTTCTGCTTCAGTGACAG+AGG + chr3.3:59420469-59420488 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 59419987 59420560 59419987 ID=MS.gene04932
chr3.3 mRNA 59419987 59420560 59419987 ID=MS.gene04932.t1;Parent=MS.gene04932
chr3.3 exon 59420509 59420560 59420509 ID=MS.gene04932.t1.exon1;Parent=MS.gene04932.t1
chr3.3 CDS 59420509 59420560 59420509 ID=cds.MS.gene04932.t1;Parent=MS.gene04932.t1
chr3.3 exon 59419987 59420342 59419987 ID=MS.gene04932.t1.exon2;Parent=MS.gene04932.t1
chr3.3 CDS 59419987 59420342 59419987 ID=cds.MS.gene04932.t1;Parent=MS.gene04932.t1
Gene Sequence

>MS.gene04932

ATGGCTTCTGTTAAGCTTGCTCCTTTCGTTGTCTTCTTACTTGCTGCATTCTGTATGTATTCCTTTTGTATTTTAGCCATCTTTGTCATATGATGCATTTCTGTTTATAAATATTTTCGATCAAGCTCATTAGAAATTAGCTTGGTCACTAATTTTCATTTCATTTAACAATAGTATGCGTATGTTGTTCAAACTTTAATTTGCTTTGTCATTTACAGTAATGTTCCCAATGAACAAAGTAGAAGGAGACTGTACGGGGGTGTATTGCGACGACATTACATATTGTGAAGATGGTTGTGGTTGCGATGTCATATATTTTATGGGTGGTGAAGGCATTTGTCTCCCAATTTATTCTATTGAAAAGAAGGTTGAAGAAAATCCTAACTTATGTATGTCTCATAGCGATTGCACAAAGAAGGGTAGTGGAAATTTCTGTGCTCGTCATCTTAATTCTGATATCAAATATGGCTTCTGTTTTGCCTCTGTCACTGAAGCAGAAGACGCATACAAGATGGCCATTACCTCTAAATTCAAGAAAGACAGCTTCTTGAAGATGCTTGGCACCACCGCTTAA

Protein sequence

>MS.gene04932.t1

MASVKLAPFVVFLLAAFLMFPMNKVEGDCTGVYCDDITYCEDGCGCDVIYFMGGEGICLPIYSIEKKVEENPNLCMSHSDCTKKGSGNFCARHLNSDIKYGFCFASVTEAEDAYKMAITSKFKKDSFLKMLGTTA