AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene072178

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072178.t1 MTR_7g029400 91.146 192 15 2 1 190 1 192 5.89e-130 363
MS.gene072178.t1 MTR_8g015250 92.105 190 6 1 1 190 1 181 3.36e-128 358
MS.gene072178.t1 MTR_6g016375 47.030 202 73 5 1 184 1 186 9.74e-47 152
MS.gene072178.t1 MTR_7g017880 61.194 134 50 2 54 186 58 190 5.76e-44 145
MS.gene072178.t1 MTR_4g070860 53.425 73 34 0 79 151 26 98 3.85e-19 80.1
MS.gene072178.t1 MTR_1g022495 40.206 97 57 1 57 153 5 100 1.25e-16 73.6
MS.gene072178.t1 MTR_3g117120 49.315 73 37 0 79 151 26 98 3.53e-16 72.4
MS.gene072178.t1 MTR_8g086020 35.294 102 66 0 50 151 2 103 3.88e-15 69.7
MS.gene072178.t1 MTR_4g097440 44.706 85 47 0 71 155 63 147 4.45e-15 70.1
MS.gene072178.t1 MTR_5g015090 46.835 79 42 0 80 158 58 136 1.49e-13 65.5
MS.gene072178.t1 MTR_1g087040 43.478 92 46 3 60 151 10 95 7.53e-13 63.5
MS.gene072178.t1 MTR_3g109310 41.489 94 52 1 78 168 121 214 1.17e-11 62.4
MS.gene072178.t1 MTR_5g028850 40.426 94 51 2 58 146 280 373 1.30e-11 62.8
MS.gene072178.t1 MTR_5g028850 40.426 94 51 2 58 146 278 371 1.34e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072178.t1 AT3G30530 70.690 116 32 1 61 174 57 172 5.99e-52 164
MS.gene072178.t1 AT1G13600 46.409 181 78 5 2 170 4 177 2.03e-41 139
MS.gene072178.t1 AT5G38800 55.469 128 55 1 45 170 34 161 2.49e-40 135
MS.gene072178.t1 AT5G15830 50.000 144 67 3 47 190 40 178 9.06e-37 126
MS.gene072178.t1 AT2G04038 62.105 95 36 0 64 158 55 149 3.25e-35 122
MS.gene072178.t1 AT1G68880 51.250 80 39 0 81 160 45 124 2.42e-23 90.5
MS.gene072178.t1 AT1G75390 46.809 94 45 1 63 151 16 109 7.45e-17 74.7
MS.gene072178.t1 AT5G60830 47.500 80 42 0 81 160 69 148 8.23e-17 75.5
MS.gene072178.t1 AT2G18160 47.222 72 38 0 80 151 28 99 1.42e-15 71.2
MS.gene072178.t1 AT1G75390 45.055 91 46 1 61 147 15 105 1.78e-15 69.7
MS.gene072178.t1 AT3G62420 38.614 101 58 1 79 175 21 121 1.81e-14 67.8
MS.gene072178.t1 AT4G34590 43.243 74 42 0 78 151 22 95 3.08e-12 62.0
MS.gene072178.t1 AT4G37730 45.238 84 46 0 75 158 189 272 9.72e-12 62.8

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCAAAAGTTTCTTCTTTA+AGG 0.049723 8.1:-82366874 None:intergenic
AGATTATTTATATGATAATT+TGG 0.173759 8.1:-82366542 None:intergenic
TTCTCAATCATGAACTTTAG+AGG 0.310979 8.1:-82366999 None:intergenic
TTCTGTGGCAAGACAAAGTT+TGG 0.311505 8.1:-82366512 None:intergenic
ATGGTAGCTGACATGCAAAT+TGG 0.415880 8.1:+82366905 MS.gene072178:CDS
AGACAAAGTTTGGTTGAACT+TGG 0.417616 8.1:-82366502 None:intergenic
TTTGCATGTCAGCTACCATT+TGG 0.441661 8.1:-82366901 None:intergenic
GCTGATGGGTAATGGAAGTT+TGG 0.447856 8.1:-82366578 None:intergenic
ACATAAATCTTCCATGCTGC+AGG 0.469344 8.1:-82366939 None:intergenic
ACGATGGTGGAGCAAATTCA+TGG 0.483705 8.1:-82366604 None:intergenic
GAGAATCAGCTAGGAGATCA+AGG 0.496394 8.1:+82366720 MS.gene072178:CDS
CATGGCCTGCTGATGGGTAA+TGG 0.501858 8.1:-82366586 None:intergenic
TGAACTTGGAATGAATTCTC+AGG 0.503018 8.1:-82366488 None:intergenic
TTAACTCCTCTGATCTCTCT+AGG 0.517612 8.1:-82366452 None:intergenic
CATGGTTGAGTTTGTCAACA+AGG 0.524031 8.1:-82366811 None:intergenic
CTCTGTTTGATATCATTCGC+CGG 0.528366 8.1:-82366700 None:intergenic
CAAATTCATGGCCTGCTGAT+GGG 0.533266 8.1:-82366592 None:intergenic
AACTTCCATTACCCATCAGC+AGG 0.542481 8.1:+82366581 MS.gene072178:CDS
TAATTTGGAATTTCATTCTG+TGG 0.545612 8.1:-82366527 None:intergenic
CAGCTAGGAGATCAAGGATG+AGG 0.553553 8.1:+82366726 MS.gene072178:CDS
GCAAATTCATGGCCTGCTGA+TGG 0.554547 8.1:-82366593 None:intergenic
TTGTGTTGAGATGTGTTGCA+TGG 0.567617 8.1:-82366968 None:intergenic
TCTGATCTCTCTAGGAACCA+TGG 0.617254 8.1:-82366444 None:intergenic
AGTTTAACATCATCGACGAA+AGG 0.620965 8.1:+82366672 MS.gene072178:CDS
TATCAAACAGAGAATCAGCT+AGG 0.629542 8.1:+82366711 MS.gene072178:CDS
TCATCGACGAAAGGAAGCAC+CGG 0.644213 8.1:+82366681 MS.gene072178:CDS
ACTTGGAATGAATTCTCAGG+AGG 0.648127 8.1:-82366485 None:intergenic
TTGCTGCTTAAACACGATGG+TGG 0.650100 8.1:-82366617 None:intergenic
ATGGTTCCTAGAGAGATCAG+AGG 0.663186 8.1:+82366446 MS.gene072178:CDS
TGTCATGTGACTCAGACGCA+TGG 0.679884 8.1:-82366829 None:intergenic
GAGTTGCTGCTTAAACACGA+TGG 0.774209 8.1:-82366620 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTATTTATATGATAATT+TGG - chr8.1:82366545-82366564 None:intergenic 10.0%
!!! TATCATATAAATAATCTTTT+AGG + chr8.1:82366548-82366567 MS.gene072178:CDS 10.0%
! GATCAAAAGTTTCTTCTTTA+AGG - chr8.1:82366877-82366896 None:intergenic 25.0%
!! TAATTTGGAATTTCATTCTG+TGG - chr8.1:82366530-82366549 None:intergenic 25.0%
AAAAACACTTGGATGAACTT+TGG + chr8.1:82366753-82366772 MS.gene072178:CDS 30.0%
AGACAAAGTTTGGTTGAACT+TGG - chr8.1:82366505-82366524 None:intergenic 35.0%
AGTTTAACATCATCGACGAA+AGG + chr8.1:82366672-82366691 MS.gene072178:CDS 35.0%
GATGAGGAAACAAAAACACT+TGG + chr8.1:82366742-82366761 MS.gene072178:CDS 35.0%
TATCAAACAGAGAATCAGCT+AGG + chr8.1:82366711-82366730 MS.gene072178:CDS 35.0%
TGAACTTGGAATGAATTCTC+AGG - chr8.1:82366491-82366510 None:intergenic 35.0%
! AACTTTTGATCTTCGCCAAA+TGG + chr8.1:82366886-82366905 MS.gene072178:CDS 35.0%
ACATAAATCTTCCATGCTGC+AGG - chr8.1:82366942-82366961 None:intergenic 40.0%
ACTTGGAATGAATTCTCAGG+AGG - chr8.1:82366488-82366507 None:intergenic 40.0%
ATGGTAGCTGACATGCAAAT+TGG + chr8.1:82366905-82366924 MS.gene072178:CDS 40.0%
CATGGTTGAGTTTGTCAACA+AGG - chr8.1:82366814-82366833 None:intergenic 40.0%
CTCTGTTTGATATCATTCGC+CGG - chr8.1:82366703-82366722 None:intergenic 40.0%
TTAACTCCTCTGATCTCTCT+AGG - chr8.1:82366455-82366474 None:intergenic 40.0%
TTCTGTGGCAAGACAAAGTT+TGG - chr8.1:82366515-82366534 None:intergenic 40.0%
TTGTGTTGAGATGTGTTGCA+TGG - chr8.1:82366971-82366990 None:intergenic 40.0%
TTTGCATGTCAGCTACCATT+TGG - chr8.1:82366904-82366923 None:intergenic 40.0%
! TAACTCTTTTACCTGCAGCA+TGG + chr8.1:82366928-82366947 MS.gene072178:CDS 40.0%
AACTTCCATTACCCATCAGC+AGG + chr8.1:82366581-82366600 MS.gene072178:CDS 45.0%
ATGGTTCCTAGAGAGATCAG+AGG + chr8.1:82366446-82366465 MS.gene072178:CDS 45.0%
CAAATTCATGGCCTGCTGAT+GGG - chr8.1:82366595-82366614 None:intergenic 45.0%
GAGAATCAGCTAGGAGATCA+AGG + chr8.1:82366720-82366739 MS.gene072178:CDS 45.0%
! GAGTTGCTGCTTAAACACGA+TGG - chr8.1:82366623-82366642 None:intergenic 45.0%
! TTGCTGCTTAAACACGATGG+TGG - chr8.1:82366620-82366639 None:intergenic 45.0%
!! ACGATGGTGGAGCAAATTCA+TGG - chr8.1:82366607-82366626 None:intergenic 45.0%
!! GCTGATGGGTAATGGAAGTT+TGG - chr8.1:82366581-82366600 None:intergenic 45.0%
CAGCTAGGAGATCAAGGATG+AGG + chr8.1:82366726-82366745 MS.gene072178:CDS 50.0%
GCAAATTCATGGCCTGCTGA+TGG - chr8.1:82366596-82366615 None:intergenic 50.0%
TGTCATGTGACTCAGACGCA+TGG - chr8.1:82366832-82366851 None:intergenic 50.0%
! TCATCGACGAAAGGAAGCAC+CGG + chr8.1:82366681-82366700 MS.gene072178:CDS 50.0%
! CATGGCCTGCTGATGGGTAA+TGG - chr8.1:82366589-82366608 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 82366446 82367018 82366446 ID=MS.gene072178
chr8.1 mRNA 82366446 82367018 82366446 ID=MS.gene072178.t1;Parent=MS.gene072178
chr8.1 exon 82366446 82367018 82366446 ID=MS.gene072178.t1.exon1;Parent=MS.gene072178.t1
chr8.1 CDS 82366446 82367018 82366446 ID=cds.MS.gene072178.t1;Parent=MS.gene072178.t1
Gene Sequence

>MS.gene072178

ATGGTTCCTAGAGAGATCAGAGGAGTTAATTATCTAACTCCTCCTGAGAATTCATTCCAAGTTCAACCAAACTTTGTCTTGCCACAGAATGAAATTCCAAATTATCATATAAATAATCTTTTAGGCAGCTTACCAAACTTCCATTACCCATCAGCAGGCCATGAATTTGCTCCACCATCGTGTTTAAGCAGCAACTCGACTACTTCTGATGAAGCAGATGAACTTCAGTTTAACATCATCGACGAAAGGAAGCACCGGCGAATGATATCAAACAGAGAATCAGCTAGGAGATCAAGGATGAGGAAACAAAAACACTTGGATGAACTTTGGTCACAAGTGATGAAACTCAGAACTGAAAATCACAACCTTGTTGACAAACTCAACCATGCGTCTGAGTCACATGACAAAGTTGTTCAAGAGAATGCACGCCTTAAAGAAGAAACTTTTGATCTTCGCCAAATGGTAGCTGACATGCAAATTGGTAACTCTTTTACCTGCAGCATGGAAGATTTATGTGAAATTCCATGCAACACATCTCAACACAAAGATGATTCCTCTAAAGTTCATGATTGA
Protein sequence

>MS.gene072178.t1

MVPREIRGVNYLTPPENSFQVQPNFVLPQNEIPNYHINNLLGSLPNFHYPSAGHEFAPPSCLSSNSTTSDEADELQFNIIDERKHRRMISNRESARRSRMRKQKHLDELWSQVMKLRTENHNLVDKLNHASESHDKVVQENARLKEETFDLRQMVADMQIGNSFTCSMEDLCEIPCNTSQHKDDSSKVHD