AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75985

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75985.t1 MTR_7g017880 96.875 192 5 1 1 192 1 191 2.04e-136 379
MS.gene75985.t1 MTR_6g016375 66.484 182 56 4 1 178 1 181 2.02e-66 202
MS.gene75985.t1 MTR_7g029400 52.688 186 80 6 9 191 8 188 4.26e-50 160
MS.gene75985.t1 MTR_8g015250 52.151 186 70 8 9 191 8 177 1.32e-45 149
MS.gene75985.t1 MTR_4g070860 52.326 86 38 2 71 156 16 98 1.68e-17 75.9
MS.gene75985.t1 MTR_1g022495 44.330 97 54 0 62 158 4 100 8.51e-17 74.3
MS.gene75985.t1 MTR_3g117120 50.000 80 40 0 77 156 19 98 1.83e-16 73.2
MS.gene75985.t1 MTR_4g097440 35.256 156 83 4 38 175 7 162 9.73e-16 71.6
MS.gene75985.t1 MTR_1g087040 37.405 131 70 4 63 187 7 131 1.41e-13 65.5
MS.gene75985.t1 MTR_5g015090 36.885 122 72 1 57 173 25 146 2.23e-12 62.4
MS.gene75985.t1 MTR_5g028850 37.500 104 60 2 57 155 274 377 5.23e-11 60.8
MS.gene75985.t1 MTR_5g028850 37.500 104 60 2 57 155 272 375 6.55e-11 60.8
MS.gene75985.t1 MTR_8g086020 32.292 96 65 0 61 156 8 103 9.33e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75985.t1 AT3G30530 57.143 175 48 8 11 177 12 167 1.26e-48 156
MS.gene75985.t1 AT5G38800 57.042 142 56 3 40 177 20 160 2.83e-43 142
MS.gene75985.t1 AT2G04038 64.583 96 34 0 68 163 54 149 2.32e-36 125
MS.gene75985.t1 AT5G15830 61.616 99 38 0 66 164 52 150 5.45e-35 122
MS.gene75985.t1 AT1G13600 59.184 98 39 1 69 166 68 164 3.00e-34 120
MS.gene75985.t1 AT1G68880 45.217 115 58 1 52 166 16 125 1.23e-24 94.0
MS.gene75985.t1 AT5G60830 51.724 87 41 1 80 165 62 148 4.36e-19 81.3
MS.gene75985.t1 AT2G18160 50.000 72 36 0 85 156 28 99 2.22e-15 70.9
MS.gene75985.t1 AT1G75390 46.316 95 50 1 62 156 16 109 2.84e-15 70.5
MS.gene75985.t1 AT3G62420 46.575 73 39 0 84 156 21 93 4.50e-15 69.3
MS.gene75985.t1 AT1G75390 45.833 96 51 1 62 157 16 110 1.94e-14 67.0
MS.gene75985.t1 AT4G34590 45.946 74 40 0 83 156 22 95 2.63e-12 62.4

Find 41 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGGGAGATGGATCTGAATA+TGG 0.215024 7.3:+80619815 None:intergenic
TATAGTTGGTTGGAGAGTTT+TGG 0.282356 7.3:+80619737 None:intergenic
GGAGGATTTGAAAAGGGTTT+TGG 0.298291 7.3:+80619705 None:intergenic
GAAGAATCAGATTTAACATT+TGG 0.320345 7.3:+80619308 None:intergenic
GAGTCCTGAATTAATCTCTT+TGG 0.334240 7.3:+80619850 None:intergenic
AGCTTTGGTCACAGGTGGTT+TGG 0.340519 7.3:-80619520 MS.gene75985:CDS
CTTTCAATTGAACATTCTCT+TGG 0.350205 7.3:+80619429 None:intergenic
AAACTCTCCAACCAACTATA+TGG 0.354645 7.3:-80619734 MS.gene75985:CDS
CAAACCAAAGAGATTAATTC+AGG 0.365256 7.3:-80619854 MS.gene75985:CDS
GAGGTGTTTGGATGGTGTTT+TGG 0.378558 7.3:+80619765 None:intergenic
AAGTCTTGGAGGATTTGAAA+AGG 0.435873 7.3:+80619698 None:intergenic
GCTTGATGAGCTTTGGTCAC+AGG 0.439356 7.3:-80619528 MS.gene75985:CDS
TTTGGTTAAAACCATATAGT+TGG 0.439584 7.3:+80619723 None:intergenic
AGGGAGATGGATCTGAATAT+GGG 0.460373 7.3:+80619816 None:intergenic
AGCTTCAGAACTTCGACAAA+TGG 0.463372 7.3:-80619402 MS.gene75985:CDS
ATTAATCTCTTTGGTTTGCA+TGG 0.465724 7.3:+80619859 None:intergenic
TGGATGTTGAGGTGTTTGGA+TGG 0.476729 7.3:+80619757 None:intergenic
ATGTTATAGTTACATGATGA+TGG 0.477265 7.3:+80619791 None:intergenic
ATAGTTACATGATGATGGAT+AGG 0.478143 7.3:+80619796 None:intergenic
TTTGTTTCCTCATTCGTGAC+CGG 0.488943 7.3:+80619555 None:intergenic
GGTCACAGGTGGTTTGGCTA+AGG 0.490458 7.3:-80619514 MS.gene75985:CDS
AGGATGGAGGACTGAAGTCT+TGG 0.496834 7.3:+80619684 None:intergenic
GTGACCGGCGTGCTGACTCT+CGG 0.498415 7.3:+80619570 None:intergenic
ATGGAGGACTGAAGTCTTGG+AGG 0.500414 7.3:+80619687 None:intergenic
AGTCTTGGAGGATTTGAAAA+GGG 0.502731 7.3:+80619699 None:intergenic
GTTAAAACCATATAGTTGGT+TGG 0.514391 7.3:+80619727 None:intergenic
CGAAAGAAAACATCGAAGAA+TGG 0.528388 7.3:-80619600 MS.gene75985:CDS
ACATTTGGTGAAGTGATGCT+AGG 0.529651 7.3:+80619323 None:intergenic
TGATGAGCTTTGGTCACAGG+TGG 0.534117 7.3:-80619525 MS.gene75985:CDS
CATGATGATGGATAGGGAGA+TGG 0.535502 7.3:+80619803 None:intergenic
TAGTTACATGATGATGGATA+GGG 0.553972 7.3:+80619797 None:intergenic
CAGCACGCCGGTCACGAATG+AGG 0.563223 7.3:-80619562 MS.gene75985:CDS
TTCTTTCGTTGATTAGACCT+AGG 0.573011 7.3:+80619615 None:intergenic
ACATCTTCAAGAGGACTCAA+AGG 0.584334 7.3:+80619347 None:intergenic
TTGCTGCTTATGCATGAGGA+TGG 0.607001 7.3:+80619668 None:intergenic
CAACTCAACTTCCGACGAAG+CGG 0.609407 7.3:-80619648 MS.gene75985:CDS
CTGCTTATGCATGAGGATGG+AGG 0.633472 7.3:+80619671 None:intergenic
ATGCTAGGAACATCTTCAAG+AGG 0.640644 7.3:+80619338 None:intergenic
TGAGTTGCTGCTTATGCATG+AGG 0.648721 7.3:+80619664 None:intergenic
GAAGCGGACGAACAAAACCT+AGG 0.674445 7.3:-80619632 MS.gene75985:CDS
CGAACCGAGAGTCAGCACGC+CGG 0.752861 7.3:-80619574 MS.gene75985:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTTATAGTTACATGATGA+TGG + chr7.3:80619370-80619389 None:intergenic 25.0%
! GAAGAATCAGATTTAACATT+TGG + chr7.3:80619853-80619872 None:intergenic 25.0%
! TTTGGTTAAAACCATATAGT+TGG + chr7.3:80619438-80619457 None:intergenic 25.0%
CAAACCAAAGAGATTAATTC+AGG - chr7.3:80619304-80619323 MS.gene75985:CDS 30.0%
CTTTCAATTGAACATTCTCT+TGG + chr7.3:80619732-80619751 None:intergenic 30.0%
GTTAAAACCATATAGTTGGT+TGG + chr7.3:80619434-80619453 None:intergenic 30.0%
!! ATAGTTACATGATGATGGAT+AGG + chr7.3:80619365-80619384 None:intergenic 30.0%
!! TAGTTACATGATGATGGATA+GGG + chr7.3:80619364-80619383 None:intergenic 30.0%
AAAAACAGCTTGATGAGCTT+TGG - chr7.3:80619623-80619642 MS.gene75985:CDS 35.0%
AAACTCTCCAACCAACTATA+TGG - chr7.3:80619424-80619443 MS.gene75985:CDS 35.0%
AAGTCTTGGAGGATTTGAAA+AGG + chr7.3:80619463-80619482 None:intergenic 35.0%
AGTCTTGGAGGATTTGAAAA+GGG + chr7.3:80619462-80619481 None:intergenic 35.0%
CGAAAGAAAACATCGAAGAA+TGG - chr7.3:80619558-80619577 MS.gene75985:CDS 35.0%
GAGTCCTGAATTAATCTCTT+TGG + chr7.3:80619311-80619330 None:intergenic 35.0%
! TATAGTTGGTTGGAGAGTTT+TGG + chr7.3:80619424-80619443 None:intergenic 35.0%
! TTCTTTCGTTGATTAGACCT+AGG + chr7.3:80619546-80619565 None:intergenic 35.0%
ACATCTTCAAGAGGACTCAA+AGG + chr7.3:80619814-80619833 None:intergenic 40.0%
AGCTTCAGAACTTCGACAAA+TGG - chr7.3:80619756-80619775 MS.gene75985:CDS 40.0%
AGGGAGATGGATCTGAATAT+GGG + chr7.3:80619345-80619364 None:intergenic 40.0%
ATGCTAGGAACATCTTCAAG+AGG + chr7.3:80619823-80619842 None:intergenic 40.0%
TAGGGAGATGGATCTGAATA+TGG + chr7.3:80619346-80619365 None:intergenic 40.0%
TTTGTTTCCTCATTCGTGAC+CGG + chr7.3:80619606-80619625 None:intergenic 40.0%
! ACATTTGGTGAAGTGATGCT+AGG + chr7.3:80619838-80619857 None:intergenic 40.0%
! GGAGGATTTGAAAAGGGTTT+TGG + chr7.3:80619456-80619475 None:intergenic 40.0%
!! GTTTTGGATGTTGAGGTGTT+TGG + chr7.3:80619408-80619427 None:intergenic 40.0%
!!! TTGGAGAGTTTTGGATGTTG+AGG + chr7.3:80619415-80619434 None:intergenic 40.0%
! TGAGTTGCTGCTTATGCATG+AGG + chr7.3:80619497-80619516 None:intergenic 45.0%
! TGGATGTTGAGGTGTTTGGA+TGG + chr7.3:80619404-80619423 None:intergenic 45.0%
! TTGCTGCTTATGCATGAGGA+TGG + chr7.3:80619493-80619512 None:intergenic 45.0%
!! CATGATGATGGATAGGGAGA+TGG + chr7.3:80619358-80619377 None:intergenic 45.0%
!! GAGGTGTTTGGATGGTGTTT+TGG + chr7.3:80619396-80619415 None:intergenic 45.0%
AGGATGGAGGACTGAAGTCT+TGG + chr7.3:80619477-80619496 None:intergenic 50.0%
ATGGAGGACTGAAGTCTTGG+AGG + chr7.3:80619474-80619493 None:intergenic 50.0%
CAACTCAACTTCCGACGAAG+CGG - chr7.3:80619510-80619529 MS.gene75985:CDS 50.0%
CTGCTTATGCATGAGGATGG+AGG + chr7.3:80619490-80619509 None:intergenic 50.0%
GAAGCGGACGAACAAAACCT+AGG - chr7.3:80619526-80619545 MS.gene75985:CDS 50.0%
! AGCTTTGGTCACAGGTGGTT+TGG - chr7.3:80619638-80619657 MS.gene75985:CDS 50.0%
! GCTTGATGAGCTTTGGTCAC+AGG - chr7.3:80619630-80619649 MS.gene75985:CDS 50.0%
! TGATGAGCTTTGGTCACAGG+TGG - chr7.3:80619633-80619652 MS.gene75985:CDS 50.0%
!! GTTTTGTTCGTCCGCTTCGT+CGG + chr7.3:80619524-80619543 None:intergenic 50.0%
! GGTCACAGGTGGTTTGGCTA+AGG - chr7.3:80619644-80619663 MS.gene75985:CDS 55.0%
CAGCACGCCGGTCACGAATG+AGG - chr7.3:80619596-80619615 MS.gene75985:CDS 65.0%
CGAACCGAGAGTCAGCACGC+CGG - chr7.3:80619584-80619603 MS.gene75985:CDS 65.0%
!! GTGACCGGCGTGCTGACTCT+CGG + chr7.3:80619591-80619610 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 80619301 80619879 80619301 ID=MS.gene75985
chr7.3 mRNA 80619301 80619879 80619301 ID=MS.gene75985.t1;Parent=MS.gene75985
chr7.3 exon 80619301 80619879 80619301 ID=MS.gene75985.t1.exon1;Parent=MS.gene75985.t1
chr7.3 CDS 80619301 80619879 80619301 ID=cds.MS.gene75985.t1;Parent=MS.gene75985.t1
Gene Sequence

>MS.gene75985

ATGCAAACCAAAGAGATTAATTCAGGACTCAATTATTTACTCCCATATTCAGATCCATCTCCCTATCCATCATCATGTAACTATAACATGATCCAAAACACCATCCAAACACCTCAACATCCAAAACTCTCCAACCAACTATATGGTTTTAACCAAAACCCTTTTCAAATCCTCCAAGACTTCAGTCCTCCATCCTCATGCATAAGCAGCAACTCAACTTCCGACGAAGCGGACGAACAAAACCTAGGTCTAATCAACGAAAGAAAACATCGAAGAATGGTATCGAACCGAGAGTCAGCACGCCGGTCACGAATGAGGAAACAAAAACAGCTTGATGAGCTTTGGTCACAGGTGGTTTGGCTAAGGAATGAGAATCATCAATTACTAGATAAGCTCAACAATTTCTGTGAGACTCATGATAAAGTTGTCCAAGAGAATGTTCAATTGAAAGAACAAGCTTCAGAACTTCGACAAATGGTGTGTGATATGCAGTTACATAGTACTTGTCTTCCTTTGAGTCCTCTTGAAGATGTTCCTAGCATCACTTCACCAAATGTTAAATCTGATTCTTCAAACTAA
Protein sequence

>MS.gene75985.t1

MQTKEINSGLNYLLPYSDPSPYPSSCNYNMIQNTIQTPQHPKLSNQLYGFNQNPFQILQDFSPPSSCISSNSTSDEADEQNLGLINERKHRRMVSNRESARRSRMRKQKQLDELWSQVVWLRNENHQLLDKLNNFCETHDKVVQENVQLKEQASELRQMVCDMQLHSTCLPLSPLEDVPSITSPNVKSDSSN