AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64117

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64117.t1 MTR_3g050390 80.435 184 27 1 17 200 3 177 5.27e-108 310
MS.gene64117.t1 MTR_4g113970 54.812 239 73 7 3 207 17 254 6.96e-78 234
MS.gene64117.t1 MTR_4g113860 50.000 226 84 5 3 200 17 241 2.31e-65 205
MS.gene64117.t1 MTR_4g113940 48.357 213 90 7 1 199 1 207 8.24e-56 179
MS.gene64117.t1 MTR_4g113890 41.121 214 72 6 1 199 1 175 5.46e-41 139
MS.gene64117.t1 MTR_8g066730 32.161 199 89 4 42 197 86 281 6.03e-26 102
MS.gene64117.t1 MTR_8g066730 31.132 212 100 4 42 210 86 294 1.21e-25 102
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64117.t1 AT3G19360 37.344 241 92 7 8 200 68 297 1.17e-45 155
MS.gene64117.t1 AT3G19360 37.344 241 92 7 8 200 68 297 1.17e-45 155
MS.gene64117.t1 AT1G32360 29.817 218 102 4 41 210 84 298 1.82e-24 99.8

Find 70 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACGAATGGATGCAGTTTC+TGG 0.174701 5.1:+50122008 MS.gene64117:CDS
CGGAGATGGTTCTAATAATT+TGG 0.195023 5.1:+50122185 MS.gene64117:CDS
CTGCCTGTTTCTTTGTTTGA+TGG 0.234171 5.1:-50121847 None:intergenic
CTAATAATTTGGAAGGCAAT+AGG 0.289690 5.1:+50122196 MS.gene64117:CDS
AAACAGGGCGCTGTCCCTTT+GGG 0.311148 5.1:+50122280 MS.gene64117:CDS
CTCGTATTTGTCATAAGTTC+AGG 0.326388 5.1:+50121884 MS.gene64117:CDS
CTCTTGTTCATTGGAAATTG+AGG 0.339686 5.1:-50121775 None:intergenic
ATAGGCTTAGGGATGATTCT+TGG 0.341417 5.1:+50122124 MS.gene64117:CDS
CAAACAGGGCGCTGTCCCTT+TGG 0.343335 5.1:+50122279 MS.gene64117:CDS
ATTATTGGCCTCTTGTTCAT+TGG 0.344534 5.1:-50121784 None:intergenic
TAGTTACAATATCCACCTTT+AGG 0.349503 5.1:-50121919 None:intergenic
TGTCCCATGTGGCAGCAAAC+AGG 0.365446 5.1:+50122264 MS.gene64117:CDS
AGGCAGCAAGGGGAACTTAC+TGG 0.380896 5.1:+50122229 MS.gene64117:CDS
GGTAATGATAATACTGGTCT+TGG 0.407298 5.1:+50122333 MS.gene64117:CDS
TTTGGGGAGGACTGTCACTA+TGG 0.414198 5.1:+50122297 MS.gene64117:CDS
TAAGGCAGCTACCACCGAAT+TGG 0.416824 5.1:+50121962 MS.gene64117:CDS
AAGATATTGTTATGGTGGTC+TGG 0.424026 5.1:-50121742 None:intergenic
TCTTGTTCATTGGAAATTGA+GGG 0.426338 5.1:-50121774 None:intergenic
GTTTCTTTGTTTGATGGAGG+AGG 0.433415 5.1:-50121841 None:intergenic
TAATAATTTGGAAGGCAATA+GGG 0.433859 5.1:+50122197 MS.gene64117:CDS
AGGTTTGGTAATTGTCCTAA+AGG 0.435581 5.1:+50121904 MS.gene64117:CDS
ATTTGTCATAAGTTCAGGTT+TGG 0.439137 5.1:+50121889 MS.gene64117:CDS
AGGCAATAGGGCTGTGATCA+AGG 0.451978 5.1:+50122209 MS.gene64117:CDS
AATGGTGAGGAATGTCCTTA+TGG 0.454214 5.1:+50122081 MS.gene64117:CDS
GAAGCAGGTAATGATAATAC+TGG 0.456961 5.1:+50122327 MS.gene64117:CDS
AGGAGGGCATATGAATTCAT+TGG 0.458224 5.1:-50121824 None:intergenic
CCTCCATCAAACAAAGAAAC+AGG 0.458374 5.1:+50121844 MS.gene64117:CDS
TCGCTTCAAAGATATTGTTA+TGG 0.462515 5.1:-50121750 None:intergenic
CAGAAAATCATTCACAAGAT+GGG 0.463529 5.1:+50122039 MS.gene64117:CDS
CTCATGGGGTTGGTGAGATA+AGG 0.466573 5.1:+50121944 MS.gene64117:CDS
TCAGAAAATCATTCACAAGA+TGG 0.468298 5.1:+50122038 MS.gene64117:CDS
CCAGCTACCTCCTTCCAATT+CGG 0.472104 5.1:-50121976 None:intergenic
CCTGTTTCTTTGTTTGATGG+AGG 0.476598 5.1:-50121844 None:intergenic
CACTATGGTCATGCAGAAGC+AGG 0.481354 5.1:+50122312 MS.gene64117:CDS
TTTCTTTGTTTGATGGAGGA+GGG 0.488896 5.1:-50121840 None:intergenic
AAACTACACTTATCACCATA+AGG 0.492600 5.1:-50122096 None:intergenic
CGCCCTGTTTGCTGCCACAT+GGG 0.493119 5.1:-50122267 None:intergenic
GATATTGTAACTATGCTCAT+GGG 0.511020 5.1:+50121929 MS.gene64117:CDS
GGATATTGTAACTATGCTCA+TGG 0.512690 5.1:+50121928 MS.gene64117:CDS
CTGGCCCTCGCAACGACGAA+TGG 0.515528 5.1:+50121995 MS.gene64117:CDS
GCGCCCTGTTTGCTGCCACA+TGG 0.515715 5.1:-50122268 None:intergenic
GATGGTTCTAATAATTTGGA+AGG 0.521303 5.1:+50122189 MS.gene64117:CDS
GTCCCATGTGGCAGCAAACA+GGG 0.525337 5.1:+50122265 MS.gene64117:CDS
CCGAATTGGAAGGAGGTAGC+TGG 0.528816 5.1:+50121976 MS.gene64117:CDS
CTCAATTTCCAATGAACAAG+AGG 0.531343 5.1:+50121776 MS.gene64117:CDS
GCATTAAGCATTGGAAGTAT+CGG 0.533941 5.1:+50122165 MS.gene64117:CDS
GGCTGTGATCAAGGCAGCAA+GGG 0.543600 5.1:+50122218 MS.gene64117:CDS
TAGTGACAGTCCTCCCCAAA+GGG 0.553368 5.1:-50122294 None:intergenic
CTTCAAAGATATTGTTATGG+TGG 0.555249 5.1:-50121747 None:intergenic
AACAGGGCGCTGTCCCTTTG+GGG 0.556253 5.1:+50122281 MS.gene64117:CDS
GAGGCCTATGCATTAAGCAT+TGG 0.556818 5.1:+50122156 MS.gene64117:CDS
ACTTCCAATGCTTAATGCAT+AGG 0.559099 5.1:-50122160 None:intergenic
GGGCTGTGATCAAGGCAGCA+AGG 0.562998 5.1:+50122217 MS.gene64117:CDS
GCATCCATTCGTCGTTGCGA+GGG 0.574844 5.1:-50121999 None:intergenic
TGCATCCATTCGTCGTTGCG+AGG 0.576815 5.1:-50122000 None:intergenic
TTTGGTAATTGTCCTAAAGG+TGG 0.589355 5.1:+50121907 MS.gene64117:CDS
AGCATTGGAAGTATCGGAGA+TGG 0.590771 5.1:+50122171 MS.gene64117:CDS
TGTAACTATGCTCATGGGGT+TGG 0.592945 5.1:+50121934 MS.gene64117:CDS
AGGGCGCTGTCCCTTTGGGG+AGG 0.602360 5.1:+50122284 MS.gene64117:CDS
AGAAAATCATTCACAAGATG+GGG 0.602501 5.1:+50122040 MS.gene64117:CDS
GCAGCTACCACCGAATTGGA+AGG 0.620245 5.1:+50121966 MS.gene64117:CDS
GCTACCTCCTTCCAATTCGG+TGG 0.638241 5.1:-50121973 None:intergenic
ATAGTGACAGTCCTCCCCAA+AGG 0.646765 5.1:-50122295 None:intergenic
CAAGAAATACTACAATGGTG+AGG 0.666991 5.1:+50122068 MS.gene64117:CDS
GCTGTGATCAAGGCAGCAAG+GGG 0.668444 5.1:+50122219 MS.gene64117:CDS
CTATGCAAGAAATACTACAA+TGG 0.669884 5.1:+50122063 MS.gene64117:CDS
TGATTCTTGGAAATCAAGAG+AGG 0.676002 5.1:+50122137 MS.gene64117:CDS
GCTACCACCGAATTGGAAGG+AGG 0.676137 5.1:+50121969 MS.gene64117:CDS
ATATTGTAACTATGCTCATG+GGG 0.682160 5.1:+50121930 MS.gene64117:CDS
AGATTAAGCTGTGTCCCATG+TGG 0.762737 5.1:+50122253 MS.gene64117:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATTGTTTTCAGAAATTAT+TGG - chr5.1:50121802-50121821 None:intergenic 20.0%
! TAATAATTTGGAAGGCAATA+GGG + chr5.1:50122197-50122216 MS.gene64117:CDS 25.0%
!! ATAAGTGTAGTTTTCTTCAT+AGG + chr5.1:50122106-50122125 MS.gene64117:CDS 25.0%
AAACTACACTTATCACCATA+AGG - chr5.1:50122099-50122118 None:intergenic 30.0%
AGAAAATCATTCACAAGATG+GGG + chr5.1:50122040-50122059 MS.gene64117:CDS 30.0%
ATATTGTAACTATGCTCATG+GGG + chr5.1:50121930-50121949 MS.gene64117:CDS 30.0%
CAGAAAATCATTCACAAGAT+GGG + chr5.1:50122039-50122058 MS.gene64117:CDS 30.0%
CTAATAATTTGGAAGGCAAT+AGG + chr5.1:50122196-50122215 MS.gene64117:CDS 30.0%
CTATGCAAGAAATACTACAA+TGG + chr5.1:50122063-50122082 MS.gene64117:CDS 30.0%
CTTCAAAGATATTGTTATGG+TGG - chr5.1:50121750-50121769 None:intergenic 30.0%
GATATTGTAACTATGCTCAT+GGG + chr5.1:50121929-50121948 MS.gene64117:CDS 30.0%
TAGTTACAATATCCACCTTT+AGG - chr5.1:50121922-50121941 None:intergenic 30.0%
TCAGAAAATCATTCACAAGA+TGG + chr5.1:50122038-50122057 MS.gene64117:CDS 30.0%
TCGCTTCAAAGATATTGTTA+TGG - chr5.1:50121753-50121772 None:intergenic 30.0%
TCTTGTTCATTGGAAATTGA+GGG - chr5.1:50121777-50121796 None:intergenic 30.0%
! ATTTGTCATAAGTTCAGGTT+TGG + chr5.1:50121889-50121908 MS.gene64117:CDS 30.0%
! TAGTTTTCTTCATAGGCTTA+GGG + chr5.1:50122113-50122132 MS.gene64117:CDS 30.0%
!! GATGGTTCTAATAATTTGGA+AGG + chr5.1:50122189-50122208 MS.gene64117:CDS 30.0%
AAGATATTGTTATGGTGGTC+TGG - chr5.1:50121745-50121764 None:intergenic 35.0%
ACTTCCAATGCTTAATGCAT+AGG - chr5.1:50122163-50122182 None:intergenic 35.0%
CAAGAAATACTACAATGGTG+AGG + chr5.1:50122068-50122087 MS.gene64117:CDS 35.0%
CTCAATTTCCAATGAACAAG+AGG + chr5.1:50121776-50121795 MS.gene64117:CDS 35.0%
CTCGTATTTGTCATAAGTTC+AGG + chr5.1:50121884-50121903 MS.gene64117:CDS 35.0%
CTCTTGTTCATTGGAAATTG+AGG - chr5.1:50121778-50121797 None:intergenic 35.0%
GAAGCAGGTAATGATAATAC+TGG + chr5.1:50122327-50122346 MS.gene64117:CDS 35.0%
GGATATTGTAACTATGCTCA+TGG + chr5.1:50121928-50121947 MS.gene64117:CDS 35.0%
TGATTCTTGGAAATCAAGAG+AGG + chr5.1:50122137-50122156 MS.gene64117:CDS 35.0%
! AGGTTTGGTAATTGTCCTAA+AGG + chr5.1:50121904-50121923 MS.gene64117:CDS 35.0%
! ATTATTGGCCTCTTGTTCAT+TGG - chr5.1:50121787-50121806 None:intergenic 35.0%
! GGTAATGATAATACTGGTCT+TGG + chr5.1:50122333-50122352 MS.gene64117:CDS 35.0%
! GTAGTTTTCTTCATAGGCTT+AGG + chr5.1:50122112-50122131 MS.gene64117:CDS 35.0%
! TTTCTTTGTTTGATGGAGGA+GGG - chr5.1:50121843-50121862 None:intergenic 35.0%
! TTTGGTAATTGTCCTAAAGG+TGG + chr5.1:50121907-50121926 MS.gene64117:CDS 35.0%
!! CGGAGATGGTTCTAATAATT+TGG + chr5.1:50122185-50122204 MS.gene64117:CDS 35.0%
!! GCATTAAGCATTGGAAGTAT+CGG + chr5.1:50122165-50122184 MS.gene64117:CDS 35.0%
AATGGTGAGGAATGTCCTTA+TGG + chr5.1:50122081-50122100 MS.gene64117:CDS 40.0%
ATAGGCTTAGGGATGATTCT+TGG + chr5.1:50122124-50122143 MS.gene64117:CDS 40.0%
CCTCCATCAAACAAAGAAAC+AGG + chr5.1:50121844-50121863 MS.gene64117:CDS 40.0%
! AGGAGGGCATATGAATTCAT+TGG - chr5.1:50121827-50121846 None:intergenic 40.0%
! CCTGTTTCTTTGTTTGATGG+AGG - chr5.1:50121847-50121866 None:intergenic 40.0%
! CTGCCTGTTTCTTTGTTTGA+TGG - chr5.1:50121850-50121869 None:intergenic 40.0%
! GTTTCTTTGTTTGATGGAGG+AGG - chr5.1:50121844-50121863 None:intergenic 40.0%
AGATTAAGCTGTGTCCCATG+TGG + chr5.1:50122253-50122272 MS.gene64117:CDS 45.0%
GAGGCCTATGCATTAAGCAT+TGG + chr5.1:50122156-50122175 MS.gene64117:CDS 45.0%
TGTAACTATGCTCATGGGGT+TGG + chr5.1:50121934-50121953 MS.gene64117:CDS 45.0%
!! AGCATTGGAAGTATCGGAGA+TGG + chr5.1:50122171-50122190 MS.gene64117:CDS 45.0%
AGGCAATAGGGCTGTGATCA+AGG + chr5.1:50122209-50122228 MS.gene64117:CDS 50.0%
ATAGTGACAGTCCTCCCCAA+AGG - chr5.1:50122298-50122317 None:intergenic 50.0%
CACTATGGTCATGCAGAAGC+AGG + chr5.1:50122312-50122331 MS.gene64117:CDS 50.0%
CCAGCTACCTCCTTCCAATT+CGG - chr5.1:50121979-50121998 None:intergenic 50.0%
CGACGAATGGATGCAGTTTC+TGG + chr5.1:50122008-50122027 MS.gene64117:CDS 50.0%
TAAGGCAGCTACCACCGAAT+TGG + chr5.1:50121962-50121981 MS.gene64117:CDS 50.0%
TAGTGACAGTCCTCCCCAAA+GGG - chr5.1:50122297-50122316 None:intergenic 50.0%
TTTGGGGAGGACTGTCACTA+TGG + chr5.1:50122297-50122316 MS.gene64117:CDS 50.0%
!! CTCATGGGGTTGGTGAGATA+AGG + chr5.1:50121944-50121963 MS.gene64117:CDS 50.0%
AGGCAGCAAGGGGAACTTAC+TGG + chr5.1:50122229-50122248 MS.gene64117:CDS 55.0%
CCGAATTGGAAGGAGGTAGC+TGG + chr5.1:50121976-50121995 MS.gene64117:CDS 55.0%
GCAGCTACCACCGAATTGGA+AGG + chr5.1:50121966-50121985 MS.gene64117:CDS 55.0%
GCATCCATTCGTCGTTGCGA+GGG - chr5.1:50122002-50122021 None:intergenic 55.0%
GCTACCACCGAATTGGAAGG+AGG + chr5.1:50121969-50121988 MS.gene64117:CDS 55.0%
GCTACCTCCTTCCAATTCGG+TGG - chr5.1:50121976-50121995 None:intergenic 55.0%
GCTGTGATCAAGGCAGCAAG+GGG + chr5.1:50122219-50122238 MS.gene64117:CDS 55.0%
GGCTGTGATCAAGGCAGCAA+GGG + chr5.1:50122218-50122237 MS.gene64117:CDS 55.0%
GTCCCATGTGGCAGCAAACA+GGG + chr5.1:50122265-50122284 MS.gene64117:CDS 55.0%
TGCATCCATTCGTCGTTGCG+AGG - chr5.1:50122003-50122022 None:intergenic 55.0%
TGTCCCATGTGGCAGCAAAC+AGG + chr5.1:50122264-50122283 MS.gene64117:CDS 55.0%
!! AAACAGGGCGCTGTCCCTTT+GGG + chr5.1:50122280-50122299 MS.gene64117:CDS 55.0%
GGGCTGTGATCAAGGCAGCA+AGG + chr5.1:50122217-50122236 MS.gene64117:CDS 60.0%
! CGCCCTGTTTGCTGCCACAT+GGG - chr5.1:50122270-50122289 None:intergenic 60.0%
!! AACAGGGCGCTGTCCCTTTG+GGG + chr5.1:50122281-50122300 MS.gene64117:CDS 60.0%
!! CAAACAGGGCGCTGTCCCTT+TGG + chr5.1:50122279-50122298 MS.gene64117:CDS 60.0%
CTGGCCCTCGCAACGACGAA+TGG + chr5.1:50121995-50122014 MS.gene64117:CDS 65.0%
! GCGCCCTGTTTGCTGCCACA+TGG - chr5.1:50122271-50122290 None:intergenic 65.0%
!! AGGGCGCTGTCCCTTTGGGG+AGG + chr5.1:50122284-50122303 MS.gene64117:CDS 70.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 50121733 50122389 50121733 ID=MS.gene64117
chr5.1 mRNA 50121733 50122389 50121733 ID=MS.gene64117.t1;Parent=MS.gene64117
chr5.1 exon 50121733 50122389 50121733 ID=MS.gene64117.t1.exon1;Parent=MS.gene64117.t1
chr5.1 CDS 50121733 50122389 50121733 ID=cds.MS.gene64117.t1;Parent=MS.gene64117.t1
Gene Sequence

>MS.gene64117

ATGACTTTTCCAGACCACCATAACAATATCTTTGAAGCGAGCCCTCAATTTCCAATGAACAAGAGGCCAATAATTTCTGAAAACAATCATTCCAATGAATTCATATGCCCTCCTCCATCAAACAAAGAAACAGGCAGCATTTTCTTCAAGACTCGTATTTGTCATAAGTTCAGGTTTGGTAATTGTCCTAAAGGTGGATATTGTAACTATGCTCATGGGGTTGGTGAGATAAGGCAGCTACCACCGAATTGGAAGGAGGTAGCTGGCCCTCGCAACGACGAATGGATGCAGTTTCTGGATGATGATCAGAAAATCATTCACAAGATGGGGCTATGCAAGAAATACTACAATGGTGAGGAATGTCCTTATGGTGATAAGTGTAGTTTTCTTCATAGGCTTAGGGATGATTCTTGGAAATCAAGAGAGGCCTATGCATTAAGCATTGGAAGTATCGGAGATGGTTCTAATAATTTGGAAGGCAATAGGGCTGTGATCAAGGCAGCAAGGGGAACTTACTGGAAGATTAAGCTGTGTCCCATGTGGCAGCAAACAGGGCGCTGTCCCTTTGGGGAGGACTGTCACTATGGTCATGCAGAAGCAGGTAATGATAATACTGGTCTTGGTTTTTTATCATATAACTCAACTGTTATGTTTTAG
Protein sequence

>MS.gene64117.t1

MTFPDHHNNIFEASPQFPMNKRPIISENNHSNEFICPPPSNKETGSIFFKTRICHKFRFGNCPKGGYCNYAHGVGEIRQLPPNWKEVAGPRNDEWMQFLDDDQKIIHKMGLCKKYYNGEECPYGDKCSFLHRLRDDSWKSREAYALSIGSIGDGSNNLEGNRAVIKAARGTYWKIKLCPMWQQTGRCPFGEDCHYGHAEAGNDNTGLGFLSYNSTVMF