AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045606.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045606.01.T01 MTR_8g075130 90.728 151 11 1 1 148 28 178 5.78e-94 269
MsG0880045606.01.T01 MTR_5g022780 36.872 179 65 4 15 145 68 246 1.20e-20 84.7
MsG0880045606.01.T01 MTR_7g015990 68.000 50 13 1 78 124 120 169 1.67e-13 65.1
MsG0880045606.01.T01 MTR_3g010660 46.250 80 42 1 70 148 243 322 2.28e-12 63.2
MsG0880045606.01.T01 MTR_7g088090 55.556 72 31 1 78 148 249 320 2.92e-12 63.2
MsG0880045606.01.T01 MTR_3g101780 46.914 81 32 3 78 148 352 431 4.41e-11 60.1
MsG0880045606.01.T01 MTR_4g085910 51.515 66 28 1 78 143 301 362 8.48e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045606.01.T01 AT4G35900 41.718 163 64 7 12 148 128 285 1.67e-19 82.4
MsG0880045606.01.T01 AT2G17770 30.769 195 88 4 1 148 1 195 1.49e-14 67.8
MsG0880045606.01.T01 AT3G56850 52.564 78 36 1 72 148 220 297 2.19e-14 68.9
MsG0880045606.01.T01 AT4G34000 50.000 68 33 1 66 133 361 427 6.66e-12 62.4
MsG0880045606.01.T01 AT1G45249 63.043 46 17 0 78 123 337 382 1.34e-11 61.6
MsG0880045606.01.T01 AT1G45249 63.043 46 17 0 78 123 352 397 1.60e-11 61.2
MsG0880045606.01.T01 AT1G45249 63.043 46 17 0 78 123 352 397 1.60e-11 61.2
MsG0880045606.01.T01 AT2G41070 57.407 54 23 0 72 125 185 238 2.54e-11 60.1
MsG0880045606.01.T01 AT2G41070 57.407 54 23 0 72 125 185 238 2.54e-11 60.1
MsG0880045606.01.T01 AT2G41070 57.407 54 23 0 72 125 185 238 2.54e-11 60.1
MsG0880045606.01.T01 AT2G41070 57.407 54 23 0 72 125 194 247 2.55e-11 60.1
MsG0880045606.01.T01 AT2G41070 60.000 50 20 0 72 121 185 234 3.67e-11 59.3
MsG0880045606.01.T01 AT4G34000 51.724 58 28 0 66 123 361 418 5.79e-11 59.7
MsG0880045606.01.T01 AT4G34000 51.724 58 28 0 66 123 361 418 5.79e-11 59.7
MsG0880045606.01.T01 AT4G34000 51.724 58 28 0 66 123 361 418 5.79e-11 59.7

Find 27 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAGAAGATGGTGTCATTA+AGG 0.250811 8:-61689046 None:intergenic
ATAAATAGTAGTTCTTAAAA+TGG 0.291074 8:-61690183 None:intergenic
AAAATACCATGGAAGATGTT+TGG 0.369539 8:+61688965 MsG0880045606.01.T01:intron
ACGATCAAGAGCAAGAAAAC+AGG 0.426638 8:+61689248 MsG0880045606.01.T01:CDS
CTCATGTGGTTTGGTAAGGA+AGG 0.447503 8:-61689003 None:intergenic
AGAAGATGGTGTCATTAAGG+AGG 0.464221 8:-61689043 None:intergenic
GGGTAGAGAGTTAAGGTTGA+TGG 0.464942 8:-61689076 None:intergenic
GAAACTCGGGTAGAGAGTTA+AGG 0.475393 8:-61689083 None:intergenic
GAAGATGGTGTCATTAAGGA+GGG 0.478300 8:-61689042 None:intergenic
TGCAAGTCATTGTGTGCAAG+AGG 0.493947 8:-61689114 None:intergenic
GATACTCATGTGGTTTGGTA+AGG 0.529985 8:-61689007 None:intergenic
ACAGTGATACTCATGTGGTT+TGG 0.530301 8:-61689012 None:intergenic
CAATCAGCAACAAAAGAGGA+AGG 0.535460 8:+61690134 MsG0880045606.01.T01:CDS
CAAGCAATCAGCAACAAAAG+AGG 0.548506 8:+61690130 MsG0880045606.01.T01:CDS
TAGAGAGTTAAGGTTGATGG+TGG 0.554082 8:-61689073 None:intergenic
CCACACTACTACTGTCTCAA+AGG 0.560000 8:+61689155 MsG0880045606.01.T01:CDS
ATGGTGGAGTGAAGAGAAGA+TGG 0.563168 8:-61689057 None:intergenic
AAGAGGGTCGAAATGAAACT+CGG 0.604368 8:-61689097 None:intergenic
TCATGTGGTTTGGTAAGGAA+GGG 0.609693 8:-61689002 None:intergenic
TGTGGTTTGGTAAGGAAGGG+AGG 0.621605 8:-61688999 None:intergenic
TATTAAGCAACTCAAAAGAG+AGG 0.623899 8:+61689187 MsG0880045606.01.T01:CDS
AATCAGCAACAAAAGAGGAA+GGG 0.625713 8:+61690135 MsG0880045606.01.T01:CDS
GCAAGTCATTGTGTGCAAGA+GGG 0.642237 8:-61689113 None:intergenic
AGAGGGTCGAAATGAAACTC+GGG 0.653904 8:-61689096 None:intergenic
AAGAGACAGTGATACTCATG+TGG 0.677597 8:-61689017 None:intergenic
CCTTTGAGACAGTAGTAGTG+TGG 0.684649 8:-61689155 None:intergenic
TTGAGACAGTAGTAGTGTGG+TGG 0.737275 8:-61689152 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAATATTTTTTTTTTTTTTA+GGG + Chr8:61689938-61689957 MsG0880045606.01.T01:intron 0.0%
!!! TATTTTATTAAGTATATGTT+TGG + Chr8:61689574-61689593 MsG0880045606.01.T01:intron 10.0%
!! AAATATTACCAAAGTACATA+TGG - Chr8:61689926-61689945 None:intergenic 20.0%
!! GGATTGAACTATAAATTTAT+GGG + Chr8:61689708-61689727 MsG0880045606.01.T01:intron 20.0%
!! TGGATTGAACTATAAATTTA+TGG + Chr8:61689707-61689726 MsG0880045606.01.T01:intron 20.0%
!!! TAGAAGCTTTAAATTGATTT+TGG - Chr8:61689830-61689849 None:intergenic 20.0%
! ATTAAGTATATGTTTGGTAC+TGG + Chr8:61689580-61689599 MsG0880045606.01.T01:intron 25.0%
! GTACTTTGGTTAATATTATC+AGG + Chr8:61689962-61689981 MsG0880045606.01.T01:intron 25.0%
! GTATAGAATTACTAGTAACA+GGG - Chr8:61689482-61689501 None:intergenic 25.0%
! TGTATAGAATTACTAGTAAC+AGG - Chr8:61689483-61689502 None:intergenic 25.0%
! TTTGTTTGGCTGATAATTAA+TGG - Chr8:61689286-61689305 None:intergenic 25.0%
!! AAATTTCAAGTCTTGTCATT+TGG - Chr8:61688833-61688852 None:intergenic 25.0%
!! AATTTCAAGTCTTGTCATTT+GGG - Chr8:61688832-61688851 None:intergenic 25.0%
!! CATGGTACTTAATTTTTGTT+TGG - Chr8:61689300-61689319 None:intergenic 25.0%
!! TATAGATTTTCGTCAAAACA+TGG - Chr8:61689740-61689759 None:intergenic 25.0%
!! TTTTTGTGTTTATTTCGTGT+AGG + Chr8:61689367-61689386 MsG0880045606.01.T01:intron 25.0%
!!! AATTTGACTTGTCTCTATTT+CGG + Chr8:61688848-61688867 MsG0880045606.01.T01:intron 25.0%
!!! TTTTTTTTTAGGGTGTACTT+TGG + Chr8:61689948-61689967 MsG0880045606.01.T01:intron 25.0%
AAAATACCATGGAAGATGTT+TGG + Chr8:61688965-61688984 MsG0880045606.01.T01:intron 30.0%
AAGGTGATAGTTAACACAAT+TGG - Chr8:61689896-61689915 None:intergenic 30.0%
CATAAACTATACACTCAACA+TGG - Chr8:61689318-61689337 None:intergenic 30.0%
TATTAAGCAACTCAAAAGAG+AGG + Chr8:61689187-61689206 MsG0880045606.01.T01:CDS 30.0%
TGGATACGTTCATATAAAAG+TGG + Chr8:61689687-61689706 MsG0880045606.01.T01:intron 30.0%
TTGTTAGTCCATATGTACTT+TGG + Chr8:61689915-61689934 MsG0880045606.01.T01:intron 30.0%
! AACATCTTCCATGGTATTTT+TGG - Chr8:61688965-61688984 None:intergenic 30.0%
! AAGTACATATGGACTAACAA+AGG - Chr8:61689915-61689934 None:intergenic 30.0%
! ACATCTTCCATGGTATTTTT+GGG - Chr8:61688964-61688983 None:intergenic 30.0%
!! AAATTGATTTTGGCATGGTT+GGG - Chr8:61689820-61689839 None:intergenic 30.0%
!! GCTTTAAATTGATTTTGGCA+TGG - Chr8:61689825-61689844 None:intergenic 30.0%
!! TAAATTGATTTTGGCATGGT+TGG - Chr8:61689821-61689840 None:intergenic 30.0%
AATCAGCAACAAAAGAGGAA+GGG + Chr8:61690135-61690154 MsG0880045606.01.T01:CDS 35.0%
ATTACTAGTAACAGGGAAAG+AGG - Chr8:61689475-61689494 None:intergenic 35.0%
GAAGAAAAAAGTCAAGAGCT+TGG + Chr8:61689403-61689422 MsG0880045606.01.T01:CDS 35.0%
GTGATAGTTAACACAATTGG+TGG - Chr8:61689893-61689912 None:intergenic 35.0%
! AACACAATTGGTGGATGTTT+GGG - Chr8:61689884-61689903 None:intergenic 35.0%
! TAACACAATTGGTGGATGTT+TGG - Chr8:61689885-61689904 None:intergenic 35.0%
!! AAGAGAAGATGGTGTCATTA+AGG - Chr8:61688706-61688725 None:intergenic 35.0%
!! CATCTTCCATGGTATTTTTG+GGG - Chr8:61688963-61688982 None:intergenic 35.0%
!!! ATCTTCCATGGTATTTTTGG+GGG - Chr8:61688962-61688981 None:intergenic 35.0%
AAGAGACAGTGATACTCATG+TGG - Chr8:61689020-61689039 None:intergenic 40.0%
AAGAGGGTCGAAATGAAACT+CGG - Chr8:61689100-61689119 None:intergenic 40.0%
ACAGTGATACTCATGTGGTT+TGG - Chr8:61689015-61689034 None:intergenic 40.0%
ACGATCAAGAGCAAGAAAAC+AGG + Chr8:61689248-61689267 MsG0880045606.01.T01:CDS 40.0%
CAAGCAATCAGCAACAAAAG+AGG + Chr8:61690130-61690149 MsG0880045606.01.T01:CDS 40.0%
CAATCAGCAACAAAAGAGGA+AGG + Chr8:61690134-61690153 MsG0880045606.01.T01:CDS 40.0%
GAGATTGTGATACTCATGTG+TGG - Chr8:61688675-61688694 None:intergenic 40.0%
GTCTTTCCAAACATCTTCCA+TGG - Chr8:61688630-61688649 None:intergenic 40.0%
TTGTGATACTCATGTGTGGT+TGG - Chr8:61688671-61688690 None:intergenic 40.0%
! AAACTCAGGTAGAGAGTGTA+AGG - Chr8:61688743-61688762 None:intergenic 40.0%
! ATACTCATGTGTGGTTGGTA+AGG - Chr8:61688666-61688685 None:intergenic 40.0%
! CAATGACTTGCATTTAGAGC+AGG + Chr8:61688787-61688806 MsG0880045606.01.T01:intron 40.0%
! GTGGATGTTTGGGTTACTTT+GGG - Chr8:61689874-61689893 None:intergenic 40.0%
! TTGTCATTTGGGTAGTAGTG+TGG - Chr8:61688821-61688840 None:intergenic 40.0%
!! AGAAGATGGTGTCATTAAGG+AGG - Chr8:61688703-61688722 None:intergenic 40.0%
!! GAAGATGGTGTCATTAAGGA+GGG - Chr8:61688702-61688721 None:intergenic 40.0%
!! GATACTCATGTGGTTTGGTA+AGG - Chr8:61689010-61689029 None:intergenic 40.0%
!! TAGAGAGTTAAGGTTGATGG+TGG - Chr8:61689076-61689095 None:intergenic 40.0%
!! TCATGTGGTTTGGTAAGGAA+GGG - Chr8:61689005-61689024 None:intergenic 40.0%
!!! TCTTCCATGGTATTTTTGGG+GGG - Chr8:61688961-61688980 None:intergenic 40.0%
!!! TGTGGGGTTTGTTTTTGTAG+AGG - Chr8:61688915-61688934 None:intergenic 40.0%
AGAGGGTCGAAATGAAACTC+GGG - Chr8:61689099-61689118 None:intergenic 45.0%
CAAACCCCCCAAAAATACCA+TGG + Chr8:61688954-61688973 MsG0880045606.01.T01:intron 45.0%
CCACACTACTACTGTCTCAA+AGG + Chr8:61689155-61689174 MsG0880045606.01.T01:CDS 45.0%
GAAACTCGGGTAGAGAGTTA+AGG - Chr8:61689086-61689105 None:intergenic 45.0%
GCAAGTCATTGTGTGCAAGA+GGG - Chr8:61689116-61689135 None:intergenic 45.0%
GCAAGTCATTGTGTGCTAGA+GGG - Chr8:61688778-61688797 None:intergenic 45.0%
GGGTAGAGAGTTAAGGTTGA+TGG - Chr8:61689079-61689098 None:intergenic 45.0%
TGCAAGTCATTGTGTGCAAG+AGG - Chr8:61689117-61689136 None:intergenic 45.0%
TGCAAGTCATTGTGTGCTAG+AGG - Chr8:61688779-61688798 None:intergenic 45.0%
TTGAGACAGTAGTAGTGTGG+TGG - Chr8:61689155-61689174 None:intergenic 45.0%
! ATGGTGGAGTGAAGAGAAGA+TGG - Chr8:61688717-61688736 None:intergenic 45.0%
! GGTAGAGAGTGTAAGGTTGA+TGG - Chr8:61688736-61688755 None:intergenic 45.0%
! GGTGGATGTTTGGGTTACTT+TGG - Chr8:61689875-61689894 None:intergenic 45.0%
!! AGAGAGTGTAAGGTTGATGG+TGG - Chr8:61688733-61688752 None:intergenic 45.0%
!! CATGTGTGGTTGGTAAGGAA+GGG - Chr8:61688661-61688680 None:intergenic 45.0%
!! CCTTTGAGACAGTAGTAGTG+TGG - Chr8:61689158-61689177 None:intergenic 45.0%
!! CTCATGTGGTTTGGTAAGGA+AGG - Chr8:61689006-61689025 None:intergenic 45.0%
!! GGTTGAAGATGGTGTTGTGT+GGG - Chr8:61688932-61688951 None:intergenic 45.0%
!! GTTGAAGATGGTGTTGTGTG+GGG - Chr8:61688931-61688950 None:intergenic 45.0%
!! TCATGTGTGGTTGGTAAGGA+AGG - Chr8:61688662-61688681 None:intergenic 45.0%
!! TGGTTGAAGATGGTGTTGTG+TGG - Chr8:61688933-61688952 None:intergenic 45.0%
!!! GGTATTTTTGGGGGGTTTGT+TGG - Chr8:61688953-61688972 None:intergenic 45.0%
!! AAAACAAAATAATTTATATT+TGG + Chr8:61689667-61689686 MsG0880045606.01.T01:intron 5.0%
!! AATAATTCTAATTTAAATTT+AGG - Chr8:61689766-61689785 None:intergenic 5.0%
!! ATAAATAATATTTATAGAAA+TGG - Chr8:61689545-61689564 None:intergenic 5.0%
!!! GATATAATAAATATTTTTAA+CGG - Chr8:61690013-61690032 None:intergenic 5.0%
!!! GTAATATTTTTTTTTTTTTT+AGG + Chr8:61689937-61689956 MsG0880045606.01.T01:intron 5.0%
GGTCGGTCGAAATGAAACTC+AGG - Chr8:61688757-61688776 None:intergenic 50.0%
GTCATTGTGTGCTAGAGGGT+CGG - Chr8:61688774-61688793 None:intergenic 50.0%
!! GGGGGTTTGTTGGTTGAAGA+TGG - Chr8:61688943-61688962 None:intergenic 50.0%
!! TGTGGTTTGGTAAGGAAGGG+AGG - Chr8:61689002-61689021 None:intergenic 50.0%
!! GTGTGGTTGGTAAGGAAGGG+AGG - Chr8:61688658-61688677 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 61688629 61690191 61688629 ID=MsG0880045606.01;Name=MsG0880045606.01
Chr8 mRNA 61688629 61690191 61688629 ID=MsG0880045606.01.T01;Parent=MsG0880045606.01;Name=MsG0880045606.01.T01;_AED=0.49;_eAED=0.49;_QI=0|0|0|1|0|0|4|0|148
Chr8 exon 61688629 61688630 61688629 ID=MsG0880045606.01.T01:exon:23576;Parent=MsG0880045606.01.T01
Chr8 exon 61688975 61689272 61688975 ID=MsG0880045606.01.T01:exon:23577;Parent=MsG0880045606.01.T01
Chr8 exon 61689389 61689469 61689389 ID=MsG0880045606.01.T01:exon:23578;Parent=MsG0880045606.01.T01
Chr8 exon 61690126 61690191 61690126 ID=MsG0880045606.01.T01:exon:23579;Parent=MsG0880045606.01.T01
Chr8 CDS 61688629 61688630 61688629 ID=MsG0880045606.01.T01:cds;Parent=MsG0880045606.01.T01
Chr8 CDS 61688975 61689272 61688975 ID=MsG0880045606.01.T01:cds;Parent=MsG0880045606.01.T01
Chr8 CDS 61689389 61689469 61689389 ID=MsG0880045606.01.T01:cds;Parent=MsG0880045606.01.T01
Chr8 CDS 61690126 61690191 61690126 ID=MsG0880045606.01.T01:cds;Parent=MsG0880045606.01.T01
Gene Sequence

>MsG0880045606.01.T01

ATGGAAGATGTTTGGAAAGACATCAACCTCCCTTCCTTACCAAACCACATGAGTATCACTGTCTCTTCTCCCTCCTTAATGACACCATCTTCTCTTCACTCCACCATCAACCTTAACTCTCTACCCGAGTTTCATTTCGACCCTCTTGCACACAATGACTTGCAATTAGAGCAAAATCACCACCACACTACTACTGTCTCAAAGGTTGAAGCATTATTAAGCAACTCAAAAGAGAGGCGACATAAGCGAATAATGAAGAATAGAGAATCTGCAGCACGATCAAGAGCAAGAAAACAGGAAGATATATTTGAGTTGAAGAAAAAAGTCAAGAGCTTGGAAGAAGAGAATGACAGACTTAAAAGACAACAACATGTTTGTTTTTATGCAAGCAATCAGCAACAAAAGAGGAAGGGAAATCTGTATCGAACATCAACAGCTCCATTTTAA
Protein sequence

>MsG0880045606.01.T01

MEDVWKDINLPSLPNHMSITVSSPSLMTPSSLHSTINLNSLPEFHFDPLAHNDLQLEQNHHHTTTVSKVEALLSNSKERRHKRIMKNRESAARSRARKQEDIFELKKKVKSLEEENDRLKRQQHVCFYASNQQQKRKGNLYRTSTAPF*