AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene060074

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060074.t1 MTR_7g029400 95.833 192 7 1 1 191 1 192 1.19e-136 380
MS.gene060074.t1 MTR_8g015250 90.576 191 8 1 1 191 1 181 7.81e-126 352
MS.gene060074.t1 MTR_6g016375 52.632 171 52 3 8 161 9 167 5.37e-47 153
MS.gene060074.t1 MTR_7g017880 52.174 184 82 5 8 187 9 190 1.67e-44 146
MS.gene060074.t1 MTR_4g070860 52.055 73 35 0 80 152 26 98 1.17e-18 79.0
MS.gene060074.t1 MTR_1g022495 40.206 97 57 1 58 154 5 100 1.63e-16 73.6
MS.gene060074.t1 MTR_3g117120 49.315 73 37 0 80 152 26 98 5.44e-16 72.0
MS.gene060074.t1 MTR_4g097440 34.646 127 71 2 42 156 21 147 1.54e-15 71.2
MS.gene060074.t1 MTR_5g015090 42.708 96 48 1 81 169 58 153 1.86e-15 70.5
MS.gene060074.t1 MTR_8g086020 34.375 96 63 0 57 152 8 103 5.08e-13 64.3
MS.gene060074.t1 MTR_1g087040 41.667 72 42 0 81 152 24 95 3.30e-12 61.6
MS.gene060074.t1 MTR_5g028850 39.362 94 52 2 59 147 280 373 1.50e-11 62.4
MS.gene060074.t1 MTR_5g028850 39.362 94 52 2 59 147 278 371 1.59e-11 62.4
MS.gene060074.t1 MTR_3g103360 36.283 113 68 1 47 159 23 131 2.51e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060074.t1 AT3G30530 68.966 116 34 1 62 175 57 172 2.97e-50 160
MS.gene060074.t1 AT1G13600 48.352 182 74 7 2 171 4 177 9.61e-42 139
MS.gene060074.t1 AT5G38800 63.208 106 39 0 61 166 49 154 2.92e-39 132
MS.gene060074.t1 AT5G15830 58.824 119 41 3 61 172 52 169 3.73e-37 127
MS.gene060074.t1 AT2G04038 60.360 111 40 1 65 171 55 165 2.29e-36 125
MS.gene060074.t1 AT1G68880 48.485 99 49 1 63 161 28 124 3.26e-23 90.5
MS.gene060074.t1 AT5G60830 48.718 78 40 0 82 159 69 146 6.85e-17 75.5
MS.gene060074.t1 AT1G75390 45.745 94 46 1 64 152 16 109 2.83e-16 73.2
MS.gene060074.t1 AT2G18160 47.222 72 38 0 81 152 28 99 2.93e-15 70.5
MS.gene060074.t1 AT1G75390 43.956 91 47 1 62 148 15 105 9.17e-15 67.8
MS.gene060074.t1 AT3G62420 37.719 114 65 3 69 176 8 121 7.01e-14 66.2
MS.gene060074.t1 AT4G37730 48.750 80 41 0 80 159 193 272 2.87e-12 64.3
MS.gene060074.t1 AT4G34590 43.243 74 42 0 79 152 22 95 2.92e-12 62.4

Find 30 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATTATTTAGATGGTAATT+TGG 0.231479 7.1:-67277967 None:intergenic
TTCCTAAAAGATTATTTAGA+TGG 0.288426 7.1:-67277975 None:intergenic
AATTGATCATGGCCTGCTAA+TGG 0.346031 7.1:-67278018 None:intergenic
CAGTTCTGAGTCTCACCACT+TGG 0.349701 7.1:-67278206 None:intergenic
GCTAATGGGTAGTGGAAGTT+TGG 0.389519 7.1:-67278003 None:intergenic
ATGGTAGCTGACATGCAAAT+TGG 0.415880 7.1:+67278333 MS.gene060074:CDS
ATTGATCATGGCCTGCTAAT+GGG 0.427113 7.1:-67278017 None:intergenic
TTTGCATGTCAGCTACCATT+TGG 0.441661 7.1:-67278329 None:intergenic
GAGAATCAGCTAGGAGATCA+AGG 0.496394 7.1:+67278148 MS.gene060074:CDS
AACTTCCACTACCCATTAGC+AGG 0.516381 7.1:+67278006 MS.gene060074:CDS
CATAAATCTTCCATGTTGCA+AGG 0.518307 7.1:-67278366 None:intergenic
CATGGTTTAGTTTGTCAACA+AGG 0.532995 7.1:-67278239 None:intergenic
CTCTATTTGATATCATTCGC+CGG 0.533745 7.1:-67278128 None:intergenic
CTGATGAAGCAGATGAACTT+CGG 0.535688 7.1:+67278079 MS.gene060074:CDS
AGTTCTGAGTCTCACCACTT+GGG 0.541035 7.1:-67278205 None:intergenic
TAATTTGGAATTTCATTCTG+TGG 0.545612 7.1:-67277952 None:intergenic
CAGCTAGGAGATCAAGGATG+AGG 0.553553 7.1:+67278154 MS.gene060074:CDS
CATGGCCTGCTAATGGGTAG+TGG 0.565162 7.1:-67278011 None:intergenic
TTGTGTTGAGATGTGTTGCA+TGG 0.567617 7.1:-67278396 None:intergenic
AAGGTGGAGCAAATTGATCA+TGG 0.575829 7.1:-67278029 None:intergenic
TTAACTCCTCTCATCTCACT+AGG 0.608373 7.1:-67277877 None:intergenic
TATCAAATAGAGAATCAGCT+AGG 0.626195 7.1:+67278139 MS.gene060074:CDS
TCTCATCTCACTAGGAACCA+TGG 0.643297 7.1:-67277869 None:intergenic
TCATCGACGAAAGGAAGCAC+CGG 0.644213 7.1:+67278109 MS.gene060074:CDS
TGTCATGTGACTCAGACACA+TGG 0.644643 7.1:-67278257 None:intergenic
ATGGTTCCTAGTGAGATGAG+AGG 0.653972 7.1:+67277871 MS.gene060074:CDS
GGTTCAACATCATCGACGAA+AGG 0.656884 7.1:+67278100 MS.gene060074:CDS
GAGTTGCTGCTTAAACATGA+AGG 0.662541 7.1:-67278048 None:intergenic
TTGCTGCTTAAACATGAAGG+TGG 0.674452 7.1:-67278045 None:intergenic
GGATGAACTTTGGTCCCAAG+TGG 0.706245 7.1:+67278191 MS.gene060074:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTATTTAGATGGTAATT+TGG - chr7.1:67277970-67277989 None:intergenic 20.0%
!! TTCCTAAAAGATTATTTAGA+TGG - chr7.1:67277978-67277997 None:intergenic 20.0%
!!! TACCATCTAAATAATCTTTT+AGG + chr7.1:67277973-67277992 MS.gene060074:CDS 20.0%
!! TAATTTGGAATTTCATTCTG+TGG - chr7.1:67277955-67277974 None:intergenic 25.0%
AAAAACACTTGGATGAACTT+TGG + chr7.1:67278181-67278200 MS.gene060074:CDS 30.0%
TATCAAATAGAGAATCAGCT+AGG + chr7.1:67278139-67278158 MS.gene060074:CDS 30.0%
!! ACTTGGAATGAATTTTCAAG+AGG - chr7.1:67277913-67277932 None:intergenic 30.0%
!!! AGACAAAGTTTTGTTGAACT+TGG - chr7.1:67277930-67277949 None:intergenic 30.0%
CATAAATCTTCCATGTTGCA+AGG - chr7.1:67278369-67278388 None:intergenic 35.0%
CTCTATTTGATATCATTCGC+CGG - chr7.1:67278131-67278150 None:intergenic 35.0%
GATGAGGAAACAAAAACACT+TGG + chr7.1:67278170-67278189 MS.gene060074:CDS 35.0%
! AACTTTTGATCTTCGCCAAA+TGG + chr7.1:67278314-67278333 MS.gene060074:CDS 35.0%
! TAACTCTTTTCCTTGCAACA+TGG + chr7.1:67278356-67278375 MS.gene060074:CDS 35.0%
!! CATGGTTTAGTTTGTCAACA+AGG - chr7.1:67278242-67278261 None:intergenic 35.0%
AAGGTGGAGCAAATTGATCA+TGG - chr7.1:67278032-67278051 None:intergenic 40.0%
AATTGATCATGGCCTGCTAA+TGG - chr7.1:67278021-67278040 None:intergenic 40.0%
ATGGTAGCTGACATGCAAAT+TGG + chr7.1:67278333-67278352 MS.gene060074:CDS 40.0%
ATTGATCATGGCCTGCTAAT+GGG - chr7.1:67278020-67278039 None:intergenic 40.0%
CTGATGAAGCAGATGAACTT+CGG + chr7.1:67278079-67278098 MS.gene060074:CDS 40.0%
TTAACTCCTCTCATCTCACT+AGG - chr7.1:67277880-67277899 None:intergenic 40.0%
TTGTGTTGAGATGTGTTGCA+TGG - chr7.1:67278399-67278418 None:intergenic 40.0%
TTTGCATGTCAGCTACCATT+TGG - chr7.1:67278332-67278351 None:intergenic 40.0%
! GAGTTGCTGCTTAAACATGA+AGG - chr7.1:67278051-67278070 None:intergenic 40.0%
! TTGCTGCTTAAACATGAAGG+TGG - chr7.1:67278048-67278067 None:intergenic 40.0%
AACTTCCACTACCCATTAGC+AGG + chr7.1:67278006-67278025 MS.gene060074:CDS 45.0%
ATGGTTCCTAGTGAGATGAG+AGG + chr7.1:67277871-67277890 MS.gene060074:CDS 45.0%
GAGAATCAGCTAGGAGATCA+AGG + chr7.1:67278148-67278167 MS.gene060074:CDS 45.0%
GGTTCAACATCATCGACGAA+AGG + chr7.1:67278100-67278119 MS.gene060074:CDS 45.0%
TGTCATGTGACTCAGACACA+TGG - chr7.1:67278260-67278279 None:intergenic 45.0%
!! AGTTCTGAGTCTCACCACTT+GGG - chr7.1:67278208-67278227 None:intergenic 45.0%
!! GCTAATGGGTAGTGGAAGTT+TGG - chr7.1:67278006-67278025 None:intergenic 45.0%
CAGCTAGGAGATCAAGGATG+AGG + chr7.1:67278154-67278173 MS.gene060074:CDS 50.0%
GGATGAACTTTGGTCCCAAG+TGG + chr7.1:67278191-67278210 MS.gene060074:CDS 50.0%
! TCATCGACGAAAGGAAGCAC+CGG + chr7.1:67278109-67278128 MS.gene060074:CDS 50.0%
!! CAGTTCTGAGTCTCACCACT+TGG - chr7.1:67278209-67278228 None:intergenic 50.0%
! CATGGCCTGCTAATGGGTAG+TGG - chr7.1:67278014-67278033 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 67277871 67278446 67277871 ID=MS.gene060074
chr7.1 mRNA 67277871 67278446 67277871 ID=MS.gene060074.t1;Parent=MS.gene060074
chr7.1 exon 67277871 67278446 67277871 ID=MS.gene060074.t1.exon1;Parent=MS.gene060074.t1
chr7.1 CDS 67277871 67278446 67277871 ID=cds.MS.gene060074.t1;Parent=MS.gene060074.t1
Gene Sequence

>MS.gene060074

ATGGTTCCTAGTGAGATGAGAGGAGTTAATTATCTAACTCCTCTTGAAAATTCATTCCAAGTTCAACAAAACTTTGTCTTGCCACAGAATGAAATTCCAAATTACCATCTAAATAATCTTTTAGGAAGCTTGCCAAACTTCCACTACCCATTAGCAGGCCATGATCAATTTGCTCCACCTTCATGTTTAAGCAGCAACTCAACTACTTCTGATGAAGCAGATGAACTTCGGTTCAACATCATCGACGAAAGGAAGCACCGGCGAATGATATCAAATAGAGAATCAGCTAGGAGATCAAGGATGAGGAAACAAAAACACTTGGATGAACTTTGGTCCCAAGTGGTGAGACTCAGAACTGAAAATCACAACCTTGTTGACAAACTAAACCATGTGTCTGAGTCACATGACAAAGTTGTTCAAGAGAATGCAAGACTTAAAGAAGAAACTTTTGATCTTCGCCAAATGGTAGCTGACATGCAAATTGGTAACTCTTTTCCTTGCAACATGGAAGATTTATGTGAAATTCCATGCAACACATCTCAACACAAAGATGATTCCTCTAAAATTCATGATTGA
Protein sequence

>MS.gene060074.t1

MVPSEMRGVNYLTPLENSFQVQQNFVLPQNEIPNYHLNNLLGSLPNFHYPLAGHDQFAPPSCLSSNSTTSDEADELRFNIIDERKHRRMISNRESARRSRMRKQKHLDELWSQVVRLRTENHNLVDKLNHVSESHDKVVQENARLKEETFDLRQMVADMQIGNSFPCNMEDLCEIPCNTSQHKDDSSKIHD