AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene006180

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene006180.t1 MTR_1g099010 96.396 222 2 2 1 221 1 217 1.61e-152 422
MS.gene006180.t1 MTR_6g034975 79.167 216 38 3 6 221 2 210 3.43e-107 307
MS.gene006180.t1 MTR_4g094328 64.019 214 76 1 8 221 12 224 1.04e-85 253
MS.gene006180.t1 MTR_4g094330 64.019 214 76 1 8 221 12 224 1.04e-85 253
MS.gene006180.t1 MTR_4g094332 66.832 202 66 1 20 221 24 224 1.98e-85 253
MS.gene006180.t1 MTR_4g094325 62.085 211 72 2 15 221 33 239 4.15e-84 249
MS.gene006180.t1 MTR_0119s0010 68.783 189 49 2 28 216 29 207 5.55e-79 236
MS.gene006180.t1 MTR_0119s0020 68.783 189 49 2 28 216 29 207 5.55e-79 236
MS.gene006180.t1 MTR_2g008110 68.783 189 49 2 28 216 29 207 6.19e-79 236
MS.gene006180.t1 MTR_4g094335 58.333 216 83 3 9 221 20 231 6.77e-71 216
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene006180.t1 AT3G43660 68.447 206 53 3 19 221 2 198 2.38e-100 290
MS.gene006180.t1 AT3G43630 72.549 204 42 4 18 218 2 194 7.78e-94 273
MS.gene006180.t1 AT1G21140 70.192 208 49 4 18 221 2 200 1.14e-93 273
MS.gene006180.t1 AT1G76800 71.707 205 48 1 17 221 2 196 1.16e-92 270
MS.gene006180.t1 AT3G25190 59.434 212 81 2 14 221 7 217 2.02e-68 209

Find 43 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATAAGGGTAGGTGTTGTTT+TGG 0.269938 1.4:-76981752 MS.gene006180:CDS
ATTGCTATGGCCATAACTTT+TGG 0.287767 1.4:-76981628 MS.gene006180:CDS
GGTTGGTTGGGTGCAGTGTT+GGG 0.338405 1.4:-76981700 MS.gene006180:CDS
TTTGGACTAACCAAGTTGAT+TGG 0.369529 1.4:-76981610 MS.gene006180:CDS
TGGTTGGTTGGGTGCAGTGT+TGG 0.376731 1.4:-76981701 MS.gene006180:CDS
TTTGGTTGTGTTTGGTTGGT+TGG 0.383193 1.4:-76981713 MS.gene006180:CDS
GCTGCTGCTTGTAAAGGATT+TGG 0.384499 1.4:+76981847 None:intergenic
ATTCATCACTTTCGATCTCT+AGG 0.393578 1.4:+76982160 None:intergenic
CTTGGTTAGTCCAAAAGTTA+TGG 0.395661 1.4:+76981618 None:intergenic
CATTAAAGATTATAAGATAA+GGG 0.398036 1.4:-76981767 MS.gene006180:CDS
TTGGTTGTGTTTGGTTGGTT+GGG 0.399852 1.4:-76981712 MS.gene006180:CDS
CAGTGGTAAGGTCTTGTTTG+AGG 0.403097 1.4:-76981669 MS.gene006180:CDS
AGTGGTAAGGTCTTGTTTGA+GGG 0.418892 1.4:-76981668 MS.gene006180:CDS
TTCAACAGCATCACTAATGA+TGG 0.422094 1.4:-76982073 MS.gene006180:CDS
GTTGGGTGCAGTGTTGGGTA+AGG 0.428457 1.4:-76981695 MS.gene006180:CDS
TCTTGTTTGAGGGTCTTGCT+TGG 0.436159 1.4:-76981658 MS.gene006180:CDS
ACCAAGTTGATTGGGTCAAG+TGG 0.451627 1.4:-76981601 MS.gene006180:CDS
TTGGACTAACCAAGTTGATT+GGG 0.452121 1.4:-76981609 MS.gene006180:CDS
TGTTTGAGGGTCTTGCTTGG+AGG 0.456354 1.4:-76981655 MS.gene006180:CDS
TTGCTTTGGTTGTGTTTGGT+TGG 0.457210 1.4:-76981717 MS.gene006180:CDS
TCATTAAAGATTATAAGATA+AGG 0.464621 1.4:-76981768 MS.gene006180:CDS
GCTTGGAGGTTGGATTGCTA+TGG 0.470569 1.4:-76981641 MS.gene006180:CDS
CCCACTTGACCCAATCAACT+TGG 0.477807 1.4:+76981600 None:intergenic
AAAAGAGACAATATTGAAAG+AGG 0.486922 1.4:-76981913 MS.gene006180:CDS
ATAAAAGCCATGATCTTGTC+GGG 0.488331 1.4:-76982027 MS.gene006180:CDS
TGAGGGTCTTGCTTGGAGGT+TGG 0.503434 1.4:-76981651 MS.gene006180:CDS
CATAAAAGCCATGATCTTGT+CGG 0.507773 1.4:-76982028 MS.gene006180:CDS
TTCATCACTTTCGATCTCTA+GGG 0.515825 1.4:+76982161 None:intergenic
AGCAAAACCCGACAAGATCA+TGG 0.526585 1.4:+76982020 None:intergenic
GGTGCATGTAGCATGGCAAT+AGG 0.539596 1.4:-76981985 MS.gene006180:CDS
GAAGCTGCTGCTGCTTGTAA+AGG 0.540279 1.4:+76981841 None:intergenic
ATGAAAGATGCTGCAAGAAG+TGG 0.543716 1.4:+76981787 None:intergenic
TGGGTAAGGCACCAGTGGTA+AGG 0.548709 1.4:-76981681 MS.gene006180:CDS
AAGAGGTAATAATATTGAAG+AGG 0.573020 1.4:-76981896 MS.gene006180:CDS
AAAGATTATAAGATAAGGGT+AGG 0.576224 1.4:-76981763 MS.gene006180:CDS
CCAAGTTGATTGGGTCAAGT+GGG 0.582206 1.4:-76981600 MS.gene006180:CDS
ATCACAATGGCTACGTGCCG+CGG 0.590039 1.4:-76982121 MS.gene006180:CDS
GCATCACTAATGATGGGTGT+AGG 0.595742 1.4:-76982066 MS.gene006180:CDS
CTCAAACAAGACCTTACCAC+TGG 0.603707 1.4:+76981670 None:intergenic
ATCATTAGCTCCTAAAACCG+CGG 0.609497 1.4:+76982104 None:intergenic
TCAACAGCATCACTAATGAT+GGG 0.621364 1.4:-76982072 MS.gene006180:CDS
AGTGTTGGGTAAGGCACCAG+TGG 0.645814 1.4:-76981686 MS.gene006180:CDS
TGTAGCTGGTGCATGTAGCA+TGG 0.650697 1.4:-76981992 MS.gene006180:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATTAAAGATTATAAGATAA+GGG - chr1.4:76982064-76982083 MS.gene006180:CDS 15.0%
!! TCATTAAAGATTATAAGATA+AGG - chr1.4:76982063-76982082 MS.gene006180:CDS 15.0%
!!! TACAAATTTTGTTTGGTTAA+GGG + chr1.4:76981616-76981635 None:intergenic 20.0%
!!! TTTGATGTACAAATTTTGTT+TGG + chr1.4:76981623-76981642 None:intergenic 20.0%
! AAAAGAGACAATATTGAAAG+AGG - chr1.4:76981918-76981937 MS.gene006180:CDS 25.0%
! AAAGATTATAAGATAAGGGT+AGG - chr1.4:76982068-76982087 MS.gene006180:CDS 25.0%
! AAGAGGTAATAATATTGAAG+AGG - chr1.4:76981935-76981954 MS.gene006180:CDS 25.0%
! ATTACTCAAAAAGATCACAA+TGG - chr1.4:76981697-76981716 MS.gene006180:CDS 25.0%
!!! GTACAAATTTTGTTTGGTTA+AGG + chr1.4:76981617-76981636 None:intergenic 25.0%
!! TCAGCTTTAGCATTTTCAAT+TGG - chr1.4:76982011-76982030 MS.gene006180:CDS 30.0%
ATAAAAGCCATGATCTTGTC+GGG - chr1.4:76981804-76981823 MS.gene006180:CDS 35.0%
ATTCATCACTTTCGATCTCT+AGG + chr1.4:76981674-76981693 None:intergenic 35.0%
CATAAAAGCCATGATCTTGT+CGG - chr1.4:76981803-76981822 MS.gene006180:CDS 35.0%
TCAACAGCATCACTAATGAT+GGG - chr1.4:76981759-76981778 MS.gene006180:CDS 35.0%
TTCAACAGCATCACTAATGA+TGG - chr1.4:76981758-76981777 MS.gene006180:CDS 35.0%
TTCATCACTTTCGATCTCTA+GGG + chr1.4:76981673-76981692 None:intergenic 35.0%
! AGCATTTTCAATTGGTGCAA+TGG - chr1.4:76982019-76982038 MS.gene006180:CDS 35.0%
! AGTTTTGCTTTGGTTGTGTT+TGG - chr1.4:76982110-76982129 MS.gene006180:CDS 35.0%
! ATTGCTATGGCCATAACTTT+TGG - chr1.4:76982203-76982222 MS.gene006180:CDS 35.0%
! CTTGGTTAGTCCAAAAGTTA+TGG + chr1.4:76982216-76982235 None:intergenic 35.0%
!! TTGGACTAACCAAGTTGATT+GGG - chr1.4:76982222-76982241 MS.gene006180:CDS 35.0%
!! TTTGGACTAACCAAGTTGAT+TGG - chr1.4:76982221-76982240 MS.gene006180:CDS 35.0%
!!! ATAAGGGTAGGTGTTGTTTT+GGG - chr1.4:76982080-76982099 MS.gene006180:CDS 35.0%
ATCATTAGCTCCTAAAACCG+CGG + chr1.4:76981730-76981749 None:intergenic 40.0%
ATGAAAGATGCTGCAAGAAG+TGG + chr1.4:76982047-76982066 None:intergenic 40.0%
TTGCTTTGGTTGTGTTTGGT+TGG - chr1.4:76982114-76982133 MS.gene006180:CDS 40.0%
TTTGGTTGTGTTTGGTTGGT+TGG - chr1.4:76982118-76982137 MS.gene006180:CDS 40.0%
! GGGTTGCATTTTGTTGATCA+TGG + chr1.4:76981653-76981672 None:intergenic 40.0%
! TTGGTTGTGTTTGGTTGGTT+GGG - chr1.4:76982119-76982138 MS.gene006180:CDS 40.0%
!! AGTGGTAAGGTCTTGTTTGA+GGG - chr1.4:76982163-76982182 MS.gene006180:CDS 40.0%
!!! GATAAGGGTAGGTGTTGTTT+TGG - chr1.4:76982079-76982098 MS.gene006180:CDS 40.0%
AGCAAAACCCGACAAGATCA+TGG + chr1.4:76981814-76981833 None:intergenic 45.0%
CTCAAACAAGACCTTACCAC+TGG + chr1.4:76982164-76982183 None:intergenic 45.0%
! ATGATCTTGTCGGGTTTTGC+TGG - chr1.4:76981813-76981832 MS.gene006180:CDS 45.0%
! GCTGCTGCTTGTAAAGGATT+TGG + chr1.4:76981987-76982006 None:intergenic 45.0%
! TCTTGTTTGAGGGTCTTGCT+TGG - chr1.4:76982173-76982192 MS.gene006180:CDS 45.0%
!! ACCAAGTTGATTGGGTCAAG+TGG - chr1.4:76982230-76982249 MS.gene006180:CDS 45.0%
!! CAGTGGTAAGGTCTTGTTTG+AGG - chr1.4:76982162-76982181 MS.gene006180:CDS 45.0%
!! CCAAGTTGATTGGGTCAAGT+GGG - chr1.4:76982231-76982250 MS.gene006180:CDS 45.0%
!! GCATCACTAATGATGGGTGT+AGG - chr1.4:76981765-76981784 MS.gene006180:CDS 45.0%
!!! GCGGTTTTAGGAGCTAATGA+TGG - chr1.4:76981729-76981748 MS.gene006180:CDS 45.0%
!!! GGGAGCAGTTAGTTTTGCTT+TGG - chr1.4:76982100-76982119 MS.gene006180:CDS 45.0%
CCCACTTGACCCAATCAACT+TGG + chr1.4:76982234-76982253 None:intergenic 50.0%
GCTTGGAGGTTGGATTGCTA+TGG - chr1.4:76982190-76982209 MS.gene006180:CDS 50.0%
GGTGCATGTAGCATGGCAAT+AGG - chr1.4:76981846-76981865 MS.gene006180:CDS 50.0%
TGTAGCTGGTGCATGTAGCA+TGG - chr1.4:76981839-76981858 MS.gene006180:CDS 50.0%
TGTTTGAGGGTCTTGCTTGG+AGG - chr1.4:76982176-76982195 MS.gene006180:CDS 50.0%
! GAAGCTGCTGCTGCTTGTAA+AGG + chr1.4:76981993-76982012 None:intergenic 50.0%
! GGTTTTGCTGGACTTGTAGC+TGG - chr1.4:76981825-76981844 MS.gene006180:CDS 50.0%
ATCACAATGGCTACGTGCCG+CGG - chr1.4:76981710-76981729 MS.gene006180:CDS 55.0%
TGAGGGTCTTGCTTGGAGGT+TGG - chr1.4:76982180-76982199 MS.gene006180:CDS 55.0%
! AGTGTTGGGTAAGGCACCAG+TGG - chr1.4:76982145-76982164 MS.gene006180:CDS 55.0%
! GGTTGGTTGGGTGCAGTGTT+GGG - chr1.4:76982131-76982150 MS.gene006180:CDS 55.0%
! GTTGGGTGCAGTGTTGGGTA+AGG - chr1.4:76982136-76982155 MS.gene006180:CDS 55.0%
! TGGGTAAGGCACCAGTGGTA+AGG - chr1.4:76982150-76982169 MS.gene006180:CDS 55.0%
! TGGTTGGTTGGGTGCAGTGT+TGG - chr1.4:76982130-76982149 MS.gene006180:CDS 55.0%
! TGGCTACGTGCCGCGGTTTT+AGG - chr1.4:76981717-76981736 MS.gene006180:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 76981594 76982259 76981594 ID=MS.gene006180
chr1.4 mRNA 76981594 76982259 76981594 ID=MS.gene006180.t1;Parent=MS.gene006180
chr1.4 exon 76981594 76982259 76981594 ID=MS.gene006180.t1.exon1;Parent=MS.gene006180.t1
chr1.4 CDS 76981594 76982259 76981594 ID=cds.MS.gene006180.t1;Parent=MS.gene006180.t1
Gene Sequence

>MS.gene006180

ATGGCATCTAATAATTCATCCCTTAACCAAACAAAATTTGTACATCAAAACAATGACCATGATCAACAAAATGCAACCCTAGAGATCGAAAGTGATGAATTTGATTACTCAAAAAGATCACAATGGCTACGTGCCGCGGTTTTAGGAGCTAATGATGGATTAGTTTCAACAGCATCACTAATGATGGGTGTAGGAGCAGTGAAACAAGACATAAAAGCCATGATCTTGTCGGGTTTTGCTGGACTTGTAGCTGGTGCATGTAGCATGGCAATAGGTGAGTTTGTATCTGTTTACTCACAACTTGACATTGAAATTGCTCAATTAAAAAGAGACAATATTGAAAGAGGTAATAATATTGAAGAGGAAGATGTCATTGAGAAAGAAAGTTTGCCAAATCCTTTACAAGCAGCAGCAGCTTCAGCTTTAGCATTTTCAATTGGTGCAATGGTGCCACTTCTTGCAGCATCTTTCATTAAAGATTATAAGATAAGGGTAGGTGTTGTTTTGGGAGCAGTTAGTTTTGCTTTGGTTGTGTTTGGTTGGTTGGGTGCAGTGTTGGGTAAGGCACCAGTGGTAAGGTCTTGTTTGAGGGTCTTGCTTGGAGGTTGGATTGCTATGGCCATAACTTTTGGACTAACCAAGTTGATTGGGTCAAGTGGGCTATAG
Protein sequence

>MS.gene006180.t1

MASNNSSLNQTKFVHQNNDHDQQNATLEIESDEFDYSKRSQWLRAAVLGANDGLVSTASLMMGVGAVKQDIKAMILSGFAGLVAGACSMAIGEFVSVYSQLDIEIAQLKRDNIERGNNIEEEDVIEKESLPNPLQAAAASALAFSIGAMVPLLAASFIKDYKIRVGVVLGAVSFALVVFGWLGAVLGKAPVVRSCLRVLLGGWIAMAITFGLTKLIGSSGL