AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23581

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23581.t1 MTR_1g023820 89.516 124 12 1 56 179 1 123 1.30e-75 222
MS.gene23581.t1 MTR_5g036670 58.824 153 8 2 72 169 73 225 1.15e-45 160
MS.gene23581.t1 MTR_8g062700 40.260 154 36 3 72 169 72 225 1.40e-22 94.4
MS.gene23581.t1 MTR_8g062700 40.260 154 36 3 72 169 72 225 1.40e-22 94.4
MS.gene23581.t1 MTR_6g008970 35.669 157 42 5 72 169 93 249 1.26e-17 80.1
MS.gene23581.t1 MTR_4g123730 96.875 32 1 0 1 32 240 271 1.56e-14 71.2
MS.gene23581.t1 MTR_6g008995 64.000 50 17 1 72 121 10 58 8.13e-14 68.6
MS.gene23581.t1 MTR_6g008995 64.000 50 17 1 72 121 67 115 8.29e-14 68.9
MS.gene23581.t1 MTR_1g105960 54.167 48 22 0 72 119 31 78 3.38e-13 63.2
MS.gene23581.t1 MTR_5g055670 68.293 41 13 0 75 115 89 129 6.26e-12 60.5
MS.gene23581.t1 MTR_2g097830 32.955 88 59 0 49 136 74 161 3.12e-11 59.3
MS.gene23581.t1 MTR_1g105955 62.162 37 14 0 72 108 46 82 5.19e-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
MS.gene23581.t1 AT3G01320 33.766 154 46 2 72 169 87 240 1.69e-17 79.7
MS.gene23581.t1 AT3G01320 33.766 154 46 2 72 169 87 240 1.78e-17 79.7
MS.gene23581.t1 AT1G59890 33.333 153 47 2 72 169 75 227 6.84e-17 78.2
MS.gene23581.t1 AT1G59890 33.333 153 47 2 72 169 75 227 6.85e-17 78.2
MS.gene23581.t1 AT1G59890 33.333 153 47 2 72 169 75 227 6.91e-17 77.8
MS.gene23581.t1 AT1G59890 33.333 153 47 2 72 169 75 227 7.82e-17 77.8
MS.gene23581.t1 AT1G70060 36.129 155 41 5 72 169 44 197 3.62e-16 75.9
MS.gene23581.t1 AT1G70060 36.129 155 41 5 72 169 44 197 3.62e-16 75.9
MS.gene23581.t1 AT1G24190 74.468 47 12 0 72 118 44 90 3.94e-16 75.9
MS.gene23581.t1 AT1G24190 74.468 47 12 0 72 118 44 90 4.14e-16 75.9
MS.gene23581.t1 AT1G24190 74.468 47 12 0 72 118 44 90 4.18e-16 75.9
MS.gene23581.t1 AT5G15020 35.714 154 42 5 72 169 82 234 4.74e-16 75.5
MS.gene23581.t1 AT5G15020 35.714 154 42 5 72 169 82 234 5.22e-16 75.5
MS.gene23581.t1 AT1G10450 62.500 48 18 0 72 119 63 110 1.50e-14 71.2
MS.gene23581.t1 AT1G10450 62.500 48 18 0 72 119 63 110 1.50e-14 71.2
MS.gene23581.t1 AT1G10450 62.500 48 18 0 72 119 114 161 1.52e-14 71.2

Find 38 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATGGCCCTTTGGCAAAA+AGG 0.248205 8.4:-61040951 None:intergenic
ATGCAGCATCCGGGTGGTTT+TGG 0.280374 8.4:-61041162 None:intergenic
ACTTCGATCTCTTTCTCGTT+TGG 0.311785 8.4:-61040643 None:intergenic
CTACTTTGAGAGGAAGGATT+TGG 0.359475 8.4:+61040588 MS.gene23581:CDS
CAAAGAAACACAAGGGTGTC+TGG 0.384175 8.4:+61039896 MS.gene23581:CDS
TTCTTTGATCTCATCCATCA+TGG 0.420160 8.4:-61039880 None:intergenic
CAAAGTAGTCGTACAATGAT+TGG 0.423831 8.4:-61040573 None:intergenic
GCATGAGTAGATGCAGCATC+CGG 0.446564 8.4:-61041172 None:intergenic
AGGGTAATCTCATGGCCCTT+TGG 0.451315 8.4:-61040959 None:intergenic
CACATACCTCTTTGTAGACC+AGG 0.459268 8.4:-61041021 None:intergenic
TAGACCAGGGTGTTAGACTT+TGG 0.465686 8.4:-61041007 None:intergenic
GGTCATAGAGACTTGATCTT+CGG 0.474274 8.4:+61040920 MS.gene23581:CDS
GGGTGTCTGGATGAAGATAG+TGG 0.475443 8.4:+61039909 MS.gene23581:CDS
ACGGCGAGTGCATGTTGAAA+AGG 0.478594 8.4:+61041246 MS.gene23581:CDS
TTTATTTATGAGGATTAAAG+AGG 0.480722 8.4:+61039956 MS.gene23581:CDS
GTACGACTACTTTGAGAGGA+AGG 0.540194 8.4:+61040582 MS.gene23581:CDS
AGGGTGTTAGACTTTGGTTG+AGG 0.550511 8.4:-61041001 None:intergenic
TTGCTCATCCTCAGACGAAA+GGG 0.552798 8.4:-61040978 None:intergenic
TGAGATTACCCTTTCGTCTG+AGG 0.555293 8.4:+61040970 MS.gene23581:CDS
CATTGTACGACTACTTTGAG+AGG 0.557667 8.4:+61040578 MS.gene23581:CDS
TATGCCTTTGACTACAGAAA+GGG 0.569780 8.4:-61041289 None:intergenic
ACATGCACTCGCCGTAGTGT+TGG 0.571378 8.4:-61041238 None:intergenic
GTATGCCTTTGACTACAGAA+AGG 0.574567 8.4:-61041290 None:intergenic
CATGAGTAGATGCAGCATCC+GGG 0.581255 8.4:-61041171 None:intergenic
CAGACGAAAGGGTAATCTCA+TGG 0.592774 8.4:-61040967 None:intergenic
GTTGCTCATCCTCAGACGAA+AGG 0.601293 8.4:-61040979 None:intergenic
GGTGTCTGGATGAAGATAGT+GGG 0.630845 8.4:+61039910 MS.gene23581:CDS
TGCACTCTACCAAAACCACC+CGG 0.633017 8.4:+61041153 MS.gene23581:CDS
ATTTGTAGAGTTGATACTGA+TGG 0.633224 8.4:+61040866 MS.gene23581:intron
AGAGCTCCTATCACAAAACA+TGG 0.657685 8.4:-61041209 None:intergenic
TAACACCCTGGTCTACAAAG+AGG 0.665433 8.4:+61041015 MS.gene23581:CDS
GCTCTGCAATGCCAACACTA+CGG 0.674753 8.4:+61041227 MS.gene23581:CDS
TCAACCAAAGTCTAACACCC+TGG 0.678062 8.4:+61041003 MS.gene23581:CDS
ACATACCTCTTTGTAGACCA+GGG 0.680303 8.4:-61041020 None:intergenic
TGGTGTCATTGAAAGAGTGA+AGG 0.685356 8.4:+61040886 MS.gene23581:CDS
GAGTAGATGCAGCATCCGGG+TGG 0.688313 8.4:-61041168 None:intergenic
GATGAGATCAAAGAAACACA+AGG 0.710655 8.4:+61039888 MS.gene23581:CDS
ATGAGATCAAAGAAACACAA+GGG 0.728499 8.4:+61039889 MS.gene23581:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAATAATATGCAAAAAAT+GGG + chr8.4:61040408-61040427 MS.gene23581:intron 15.0%
!!! CTTTTCAAATTTTTTTAATG+CGG + chr8.4:61040021-61040040 MS.gene23581:intron 15.0%
!!! TCTTTTTTTATCTTTTATGT+AGG + chr8.4:61040063-61040082 MS.gene23581:intron 15.0%
!!! TTTTTGACTATTTATTTATG+AGG + chr8.4:61039946-61039965 MS.gene23581:CDS 15.0%
!! AAATAATATGCAAAAAATGG+GGG + chr8.4:61040410-61040429 MS.gene23581:intron 20.0%
!! AACTATTAATTCGCTAAAAA+AGG - chr8.4:61040351-61040370 None:intergenic 20.0%
!! AATAAATAGTCAAAAACTCT+TGG - chr8.4:61039942-61039961 None:intergenic 20.0%
!! CAAATAATATGCAAAAAATG+GGG + chr8.4:61040409-61040428 MS.gene23581:intron 20.0%
!! GACAAATAATATGCAAAAAA+TGG + chr8.4:61040407-61040426 MS.gene23581:intron 20.0%
!! GATATACATTGTAGAAATTA+AGG - chr8.4:61040220-61040239 None:intergenic 20.0%
!! TTTATTTATGAGGATTAAAG+AGG + chr8.4:61039956-61039975 MS.gene23581:CDS 20.0%
!!! AATTGATTTGTTTATCCTTT+TGG + chr8.4:61040840-61040859 MS.gene23581:intron 20.0%
! AGCGAATTAATAGTTATTGT+TGG + chr8.4:61040356-61040375 MS.gene23581:intron 25.0%
! CAAGTGCATCAAATATAAAA+TGG - chr8.4:61040244-61040263 None:intergenic 25.0%
! TGGTGAAATTTAACTATCAA+AGG - chr8.4:61040556-61040575 None:intergenic 25.0%
! TTATCAAACTGCATATAGTT+GGG - chr8.4:61040283-61040302 None:intergenic 25.0%
!! CATTTTATATTTGATGCACT+TGG + chr8.4:61040242-61040261 MS.gene23581:intron 25.0%
!!! CATTTTTTGAGAAGTTCTAT+GGG + chr8.4:61040713-61040732 MS.gene23581:intron 25.0%
ATGAGATCAAAGAAACACAA+GGG + chr8.4:61039889-61039908 MS.gene23581:CDS 30.0%
CCATAGAACTTCTCAAAAAA+TGG - chr8.4:61040715-61040734 None:intergenic 30.0%
CTTATCAAACTGCATATAGT+TGG - chr8.4:61040284-61040303 None:intergenic 30.0%
GTCAGGTAAATTTGTAATGT+TGG + chr8.4:61041052-61041071 MS.gene23581:intron 30.0%
TATCAAACTGCATATAGTTG+GGG - chr8.4:61040282-61040301 None:intergenic 30.0%
! AGAATTCCATGTTTTGTGAT+AGG + chr8.4:61041203-61041222 MS.gene23581:CDS 30.0%
! ATTTAACACCTTTTTGCCAA+AGG + chr8.4:61040943-61040962 MS.gene23581:CDS 30.0%
! CTTGATAGTAGCTTATATCA+TGG + chr8.4:61040463-61040482 MS.gene23581:intron 30.0%
! TTTAACACCTTTTTGCCAAA+GGG + chr8.4:61040944-61040963 MS.gene23581:CDS 30.0%
!! ATAACTGATTTGGTTGTTAC+TGG + chr8.4:61040160-61040179 MS.gene23581:intron 30.0%
!! ATTTGTAGAGTTGATACTGA+TGG + chr8.4:61040866-61040885 MS.gene23581:intron 30.0%
!! CTTACTGTTTTTCTTTTCGA+CGG - chr8.4:61040671-61040690 None:intergenic 30.0%
!!! CCATTTTTTGAGAAGTTCTA+TGG + chr8.4:61040712-61040731 MS.gene23581:intron 30.0%
AACTCTACAAATGCACCAAA+AGG - chr8.4:61040858-61040877 None:intergenic 35.0%
AATCATAATTGCACTTCTCC+AGG + chr8.4:61041126-61041145 MS.gene23581:intron 35.0%
CAAAGTAGTCGTACAATGAT+TGG - chr8.4:61040576-61040595 None:intergenic 35.0%
CAACGAGCAAATAACTGATT+TGG + chr8.4:61040150-61040169 MS.gene23581:intron 35.0%
CGTCGAAAAGAAAAACAGTA+AGG + chr8.4:61040669-61040688 MS.gene23581:CDS 35.0%
CTCGTTGTATATCTCCAAAA+AGG - chr8.4:61040137-61040156 None:intergenic 35.0%
GATGAGATCAAAGAAACACA+AGG + chr8.4:61039888-61039907 MS.gene23581:CDS 35.0%
TGTAAATGCTAATGAGAGCA+AGG + chr8.4:61040528-61040547 MS.gene23581:intron 35.0%
TTAGCATTTACAGCTGCTTA+AGG - chr8.4:61040520-61040539 None:intergenic 35.0%
! AGAGTGAAGGAACTTTTTAG+AGG + chr8.4:61040899-61040918 MS.gene23581:CDS 35.0%
! AGGTATGTGTTGTTATAGTC+AGG + chr8.4:61041035-61041054 MS.gene23581:intron 35.0%
! CACTTGCAAATGTTCCTTTT+TGG + chr8.4:61040120-61040139 MS.gene23581:intron 35.0%
! TGAGAAGTTCTATGGGATTT+TGG + chr8.4:61040720-61040739 MS.gene23581:intron 35.0%
ACATACCTCTTTGTAGACCA+GGG - chr8.4:61041023-61041042 None:intergenic 40.0%
ACTTCGATCTCTTTCTCGTT+TGG - chr8.4:61040646-61040665 None:intergenic 40.0%
AGAGCTCCTATCACAAAACA+TGG - chr8.4:61041212-61041231 None:intergenic 40.0%
AGTAGCTTATATCATGGTGC+AGG + chr8.4:61040469-61040488 MS.gene23581:intron 40.0%
CATTGTACGACTACTTTGAG+AGG + chr8.4:61040578-61040597 MS.gene23581:CDS 40.0%
CTCCAGTACTTGACATATTG+CGG + chr8.4:61041090-61041109 MS.gene23581:intron 40.0%
GGTCATAGAGACTTGATCTT+CGG + chr8.4:61040920-61040939 MS.gene23581:CDS 40.0%
! CTACTTTGAGAGGAAGGATT+TGG + chr8.4:61040588-61040607 MS.gene23581:CDS 40.0%
!! AAGTTCTATGGGATTTTGGC+TGG + chr8.4:61040724-61040743 MS.gene23581:intron 40.0%
!! TGGTGTCATTGAAAGAGTGA+AGG + chr8.4:61040886-61040905 MS.gene23581:CDS 40.0%
CACATACCTCTTTGTAGACC+AGG - chr8.4:61041024-61041043 None:intergenic 45.0%
CACCGCAATATGTCAAGTAC+TGG - chr8.4:61041095-61041114 None:intergenic 45.0%
CAGACGAAAGGGTAATCTCA+TGG - chr8.4:61040970-61040989 None:intergenic 45.0%
GGTGTCTGGATGAAGATAGT+GGG + chr8.4:61039910-61039929 MS.gene23581:CDS 45.0%
TAACACCCTGGTCTACAAAG+AGG + chr8.4:61041015-61041034 MS.gene23581:CDS 45.0%
TCAACCAAAGTCTAACACCC+TGG + chr8.4:61041003-61041022 MS.gene23581:CDS 45.0%
TGAGATTACCCTTTCGTCTG+AGG + chr8.4:61040970-61040989 MS.gene23581:CDS 45.0%
TTGCTCATCCTCAGACGAAA+GGG - chr8.4:61040981-61041000 None:intergenic 45.0%
! AGGGTGTTAGACTTTGGTTG+AGG - chr8.4:61041004-61041023 None:intergenic 45.0%
! GTACGACTACTTTGAGAGGA+AGG + chr8.4:61040582-61040601 MS.gene23581:CDS 45.0%
! TAGACCAGGGTGTTAGACTT+TGG - chr8.4:61041010-61041029 None:intergenic 45.0%
!! CAAAGAAACACAAGGGTGTC+TGG + chr8.4:61039896-61039915 MS.gene23581:CDS 45.0%
!! CGCAATATGTCAAGTACTGG+AGG - chr8.4:61041092-61041111 None:intergenic 45.0%
!!! ATGGGATTTTGGCTGGTACT+TGG + chr8.4:61040731-61040750 MS.gene23581:intron 45.0%
ACGGCGAGTGCATGTTGAAA+AGG + chr8.4:61041246-61041265 MS.gene23581:CDS 50.0%
AGGGTAATCTCATGGCCCTT+TGG - chr8.4:61040962-61040981 None:intergenic 50.0%
CATGAGTAGATGCAGCATCC+GGG - chr8.4:61041174-61041193 None:intergenic 50.0%
CTCATGGCCCTTTGGCAAAA+AGG - chr8.4:61040954-61040973 None:intergenic 50.0%
GCATGAGTAGATGCAGCATC+CGG - chr8.4:61041175-61041194 None:intergenic 50.0%
GCTCTGCAATGCCAACACTA+CGG + chr8.4:61041227-61041246 MS.gene23581:CDS 50.0%
GGGTGTCTGGATGAAGATAG+TGG + chr8.4:61039909-61039928 MS.gene23581:CDS 50.0%
GTTGCTCATCCTCAGACGAA+AGG - chr8.4:61040982-61041001 None:intergenic 50.0%
TGCACTCTACCAAAACCACC+CGG + chr8.4:61041153-61041172 MS.gene23581:CDS 50.0%
TTTGGTAGAGTGCAGCAACC+TGG - chr8.4:61041147-61041166 None:intergenic 50.0%
ACATGCACTCGCCGTAGTGT+TGG - chr8.4:61041241-61041260 None:intergenic 55.0%
! ATGCAGCATCCGGGTGGTTT+TGG - chr8.4:61041165-61041184 None:intergenic 55.0%
GAGTAGATGCAGCATCCGGG+TGG - chr8.4:61041171-61041190 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 61039882 61041300 61039882 ID=MS.gene23581
chr8.4 mRNA 61039882 61041300 61039882 ID=MS.gene23581.t1;Parent=MS.gene23581
chr8.4 exon 61039882 61039977 61039882 ID=MS.gene23581.t1.exon1;Parent=MS.gene23581.t1
chr8.4 CDS 61039882 61039977 61039882 ID=cds.MS.gene23581.t1;Parent=MS.gene23581.t1
chr8.4 exon 61040563 61040690 61040563 ID=MS.gene23581.t1.exon2;Parent=MS.gene23581.t1
chr8.4 CDS 61040563 61040690 61040563 ID=cds.MS.gene23581.t1;Parent=MS.gene23581.t1
chr8.4 exon 61040874 61041036 61040874 ID=MS.gene23581.t1.exon3;Parent=MS.gene23581.t1
chr8.4 CDS 61040874 61041036 61040874 ID=cds.MS.gene23581.t1;Parent=MS.gene23581.t1
chr8.4 exon 61041148 61041300 61041148 ID=MS.gene23581.t1.exon4;Parent=MS.gene23581.t1
chr8.4 CDS 61041148 61041300 61041148 ID=cds.MS.gene23581.t1;Parent=MS.gene23581.t1
Gene Sequence

>MS.gene23581

ATGATGGATGAGATCAAAGAAACACAAGGGTGTCTGGATGAAGATAGTGGGATAACACCAAGAGTTTTTGACTATTTATTTATGAGGATTAAAGAGGTGTGTGATAGTTAGAACAATGTTTCAATGTTAACAGCATGATCTTTTCAAATTTTTTTAATGCGGTTTCTAAGTCATTGTTATTTCTTTTTTTATCTTTTATGTAGGAAGAAGAAAACATGAAAGATTGTAGATTGAAATACACTTGCAAATGTTCCTTTTTGGAGATATACAACGAGCAAATAACTGATTTGGTTGTTACTGGCAATTATTGCATATTGTAGCAGTACAACAGTTTGCCTTAATTTCTACAATGTATATCTCCATTTTATATTTGATGCACTTGGCATTACTCTCTTCTCCCCAACTATATGCAGTTTGATAAGTTTTGTATCAATTTTTAAACTAAAATGAAAATTTTACTTTCATTCCTTTTTTAGCGAATTAATAGTTATTGTTGGACATGCTAAAATGCTACATCTTGCTATTGACAAATAATATGCAAAAAATGGGGGATTTAAATCATTGTATGCTAATGATATATTCTTGATAGTAGCTTATATCATGGTGCAGGAAGTAGAAAAAAATTAAAAATGATTCCTTAAGCAGCTGTAAATGCTAATGAGAGCAAGGAGCCTTTGATAGTTAAATTTCACCAATCATTGTACGACTACTTTGAGAGGAAGGATTTGGTTTACAAGTGCTCGATTTGCGATGTGCGTGATCCAAACGAGAAAGAGATCGAAGTTGCCGTCGAAAAGAAAAACAGTAAGGTATATTTTGCTGACGATTGTCCATTTTTTGAGAAGTTCTATGGGATTTTGGCTGGTACTTGGATCACAATTATTTTTTCAAATCGACACATTTTTCTGTTTGAAGTTAGAAATATGCATGTGAGAGAGATTATGAATTTGTTAGTTGTAATTGATTTGTTTATCCTTTTGGTGCATTTGTAGAGTTGATACTGATGGTGTCATTGAAAGAGTGAAGGAACTTTTTAGAGGTCATAGAGACTTGATCTTCGGATTTAACACCTTTTTGCCAAAGGGCCATGAGATTACCCTTTCGTCTGAGGATGAGCAACCTCAACCAAAGTCTAACACCCTGGTCTACAAAGAGGTATGTGTTGTTATAGTCAGGTAAATTTGTAATGTTGGTTTTTTTTTTATTTCCTCCAGTACTTGACATATTGCGGTGATACACATTTTAATCATAATTGCACTTCTCCAGGTTGCTGCACTCTACCAAAACCACCCGGATGCTGCATCTACTCATGCTTTTGCTCAGAATTCCATGTTTTGTGATAGGAGCTCTGCAATGCCAACACTACGGCGAGTGCATGTTGAAAAGGTTTGTCTTCAGTTCTTATGTCCCTTTCTGTAG
Protein sequence

>MS.gene23581.t1

MMDEIKETQGCLDEDSGITPRVFDYLFMRIKELNFTNHCTTTLRGRIWFTSARFAMCVIQTRKRSKLPSKRKTVRVDTDGVIERVKELFRGHRDLIFGFNTFLPKGHEITLSSEDEQPQPKSNTLVYKEVAALYQNHPDAASTHAFAQNSMFCDRSSAMPTLRRVHVEKVCLQFLCPFL