AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene65605

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65605.t1 MTR_8g064320 95.238 63 3 0 78 140 10 72 2.10e-40 132
MS.gene65605.t1 MTR_8g064250 89.062 64 7 0 77 140 7 70 2.02e-38 127
MS.gene65605.t1 MTR_7g109560 84.615 65 10 0 77 141 699 763 1.24e-33 125
MS.gene65605.t1 MTR_8g064310 83.607 61 10 0 77 137 7 67 3.78e-33 112
MS.gene65605.t1 MTR_8g064240 85.000 60 9 0 78 137 26 85 4.75e-33 113
MS.gene65605.t1 MTR_1g086980 59.091 66 24 2 77 142 769 831 2.14e-17 79.0
MS.gene65605.t1 MTR_1g086980 45.283 106 48 5 38 142 715 811 2.61e-17 78.6
MS.gene65605.t1 MTR_1g086980 59.091 66 24 2 77 142 759 821 2.66e-17 78.6
MS.gene65605.t1 MTR_1g086980 59.091 66 24 2 77 142 718 780 2.67e-17 78.6
MS.gene65605.t1 MTR_1g086980 59.091 66 24 2 77 142 697 759 2.84e-17 78.6
MS.gene65605.t1 MTR_1g086980 59.091 66 24 2 77 142 569 631 3.50e-17 78.2
MS.gene65605.t1 MTR_5g016870 54.839 62 27 1 77 138 801 861 1.01e-14 71.2
MS.gene65605.t1 MTR_7g055660 53.226 62 27 2 78 138 670 730 2.83e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65605.t1 AT2G23380 56.452 62 27 0 77 138 839 900 3.07e-16 75.9
MS.gene65605.t1 AT2G23380 56.452 62 27 0 77 138 612 673 3.42e-16 75.5
MS.gene65605.t1 AT4G02020 53.030 66 28 2 77 142 794 856 1.02e-13 68.6

Find 39 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTCTCACTTGAGGAAATT+TGG 0.131738 8.2:-37561572 MS.gene65605:CDS
CAAGTGAGAGCAATGTTTCT+TGG 0.232152 8.2:+37561583 None:intergenic
CAGAATTCAGCTCAGCAATT+TGG 0.247609 8.2:+37562797 None:intergenic
GAAGCTTGAGGAAGAATTAA+TGG 0.278658 8.2:-37562830 MS.gene65605:CDS
TTGTAGGTTGTGCTTGTTAA+TGG 0.284481 8.2:-37561767 MS.gene65605:intron
TTGTTGTACTGCAGTGTCTT+TGG 0.325940 8.2:+37562771 None:intergenic
TGTAGGTTGTGCTTGTTAAT+GGG 0.345826 8.2:-37561766 MS.gene65605:intron
CAAAGGAACGTATTGAAGTT+GGG 0.371751 8.2:-37561721 MS.gene65605:CDS
GCAAAGGAACGTATTGAAGT+TGG 0.419225 8.2:-37561722 MS.gene65605:CDS
CCTGTCTGTGGAACACCCTT+TGG 0.422322 8.2:-37561530 MS.gene65605:CDS
CCTGTCTGTGGAACACCCTT+TGG 0.422322 8.2:+37562657 None:intergenic
CTTCATAAACTTATAGATGA+TGG 0.430748 8.2:-37561647 MS.gene65605:CDS
TGTTTGATCATCATCTTCCT+TGG 0.431875 8.2:+37561622 None:intergenic
CCTTTGGACAGAGTGATGTT+CGG 0.489650 8.2:-37561514 MS.gene65605:CDS
TTATGTCATGCAGGAGTTCA+CGG 0.512323 8.2:-37562855 MS.gene65605:CDS
CCGAGTCATCACTCATGTAA+TGG 0.524250 8.2:+37562713 None:intergenic
CTCATCATATTATGTCATGC+AGG 0.524762 8.2:-37562864 None:intergenic
TTCCACAGACAGGACATTTG+CGG 0.530952 8.2:+37561540 None:intergenic
TTCCACAGACAGGACATTTG+CGG 0.530952 8.2:-37562647 MS.gene65605:intron
CGAACATCACTCTGTCCAAA+GGG 0.531423 8.2:-37562672 MS.gene65605:CDS
CCAAAGGGTGTTCCACAGAC+AGG 0.536944 8.2:+37561530 None:intergenic
CCAAAGGGTGTTCCACAGAC+AGG 0.536944 8.2:-37562657 MS.gene65605:CDS
CGAACATCACTCTGTCCAAA+GGG 0.542541 8.2:+37561515 None:intergenic
AGAAACATTGCTCTCACTTG+AGG 0.546978 8.2:-37561580 MS.gene65605:CDS
GTAGGTTGTGCTTGTTAATG+GGG 0.554178 8.2:-37561765 MS.gene65605:intron
CCATTACATGAGTGATGACT+CGG 0.557579 8.2:-37562713 MS.gene65605:CDS
CCGAACATCACTCTGTCCAA+AGG 0.571995 8.2:+37561514 None:intergenic
ACGAACATCACTCTGTCCAA+AGG 0.573084 8.2:-37562673 MS.gene65605:CDS
ACTTATAGATGATGGTTCCA+AGG 0.573120 8.2:-37561639 MS.gene65605:CDS
TCTATAAGTTTATGAAGCCA+TGG 0.576047 8.2:+37561653 None:intergenic
AAAGGAACGTATTGAAGTTG+GGG 0.584434 8.2:-37561720 MS.gene65605:CDS
CACCGCAAATGTCCTGTCTG+TGG 0.604351 8.2:+37562645 None:intergenic
CACCGCAAATGTCCTGTCTG+TGG 0.606304 8.2:-37561542 MS.gene65605:CDS
GTTAATGGGGATCATCGAGT+AGG 0.622578 8.2:-37561752 MS.gene65605:CDS
TCGAGTAGGAATATTTGCAA+AGG 0.624767 8.2:-37561738 MS.gene65605:CDS
GAGTTCACGGAAGAAGCTTG+AGG 0.633563 8.2:-37562842 MS.gene65605:CDS
GGAACGTATTGAAGTTGGGG+AGG 0.649243 8.2:-37561717 MS.gene65605:CDS
ATGAAAATAGTCGACCACCA+TGG 0.704208 8.2:-37561670 MS.gene65605:CDS
ATAAGTTTATGAAGCCATGG+TGG 0.735249 8.2:+37561656 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAACATAATATATGTTTTTA+GGG - chr8.2:37562168-37562187 MS.gene65605:intron 10.0%
!!! TAACATAATATATGTTTTTA+GGG + chr8.2:37562187-37562168 None:intergenic 10.0%
!!! TTAACATAATATATGTTTTT+AGG - chr8.2:37562167-37562186 MS.gene65605:intron 10.0%
!!! TTAACATAATATATGTTTTT+AGG + chr8.2:37562186-37562167 None:intergenic 10.0%
!! CTTCATAAACTTCTATATAA+TGG + chr8.2:37561815-37561834 None:intergenic 20.0%
!! TAGATAGTAAAAGACTATAT+AGG + chr8.2:37562282-37562301 None:intergenic 20.0%
!!! TATATGTTTTTAGGGATATA+AGG - chr8.2:37562176-37562195 MS.gene65605:intron 20.0%
!!! TATATGTTTTTAGGGATATA+AGG + chr8.2:37562195-37562176 None:intergenic 20.0%
! AAAAGCTAATTGATATGCAA+AGG - chr8.2:37562457-37562476 MS.gene65605:intron 25.0%
! AGAAAAAAATCATAGTAAGC+TGG - chr8.2:37562143-37562162 MS.gene65605:intron 25.0%
! CTGAAGAAAAAATCATAGTA+AGG + chr8.2:37562381-37562400 None:intergenic 25.0%
! CTTCATAAACTTATAGATGA+TGG - chr8.2:37562705-37562724 MS.gene65605:CDS 25.0%
AAAAGCTAATTGCTATGCAA+AGG + chr8.2:37562063-37562082 None:intergenic 30.0%
AAAGGAACATATTGAAGCAA+GGG + chr8.2:37561888-37561907 None:intergenic 30.0%
AATAATGTGTCTCCTATTGT+AGG + chr8.2:37561951-37561970 None:intergenic 30.0%
AATAATGTGTGTCCTATTGT+AGG - chr8.2:37562569-37562588 MS.gene65605:intron 30.0%
ACTTCTATATAATGGTTCCA+AGG + chr8.2:37561807-37561826 None:intergenic 30.0%
TATAGAAGTTTATGAAGCCA+TGG - chr8.2:37561818-37561837 MS.gene65605:intron 30.0%
TCTATAAGTTTATGAAGCCA+TGG + chr8.2:37562702-37562721 None:intergenic 30.0%
! GATGATCAAACATTTTCTCA+AGG - chr8.2:37562741-37562760 MS.gene65605:CDS 30.0%
AAAGGAACGTATTGAAGTTG+GGG - chr8.2:37562632-37562651 MS.gene65605:intron 35.0%
ATAAGTTTATGAAGCCATGG+TGG + chr8.2:37562699-37562718 None:intergenic 35.0%
CAAAGGAACATATTGAAGCA+AGG + chr8.2:37561889-37561908 None:intergenic 35.0%
CAAAGGAACGTATTGAAGTT+GGG - chr8.2:37562631-37562650 MS.gene65605:intron 35.0%
GAAGCTTGAGGAAGAATTAA+TGG - chr8.2:37561522-37561541 MS.gene65605:CDS 35.0%
GATTACGGGTATGATGAAAA+TGG + chr8.2:37562688-37562669 None:intergenic 35.0%
GGATGACTTAATGCACAAAA+AGG + chr8.2:37562327-37562346 None:intergenic 35.0%
GGATGACTTAATGCATGAAA+AGG - chr8.2:37562197-37562216 MS.gene65605:intron 35.0%
TAACAAGCACAACCTACAAT+AGG - chr8.2:37561936-37561955 MS.gene65605:intron 35.0%
TAACAAGCACAACCTACAAT+AGG + chr8.2:37561955-37561936 None:intergenic 35.0%
TCGAGTAGGAATATTTGCAA+AGG - chr8.2:37562614-37562633 MS.gene65605:intron 35.0%
TGTTTGATCATCATCTTCCT+TGG + chr8.2:37562733-37562752 None:intergenic 35.0%
! ACTTATAGATGATGGTTCCA+AGG - chr8.2:37562713-37562732 MS.gene65605:CDS 35.0%
! AGGAGCTTTTCTTTGATTAC+GGG - chr8.2:37562655-37562674 MS.gene65605:CDS 35.0%
! AGGAGCTTTTCTTTGATTAC+GGG + chr8.2:37562674-37562655 None:intergenic 35.0%
! GAGGAGCTTTTCTTTGATTA+CGG - chr8.2:37562654-37562673 MS.gene65605:CDS 35.0%
! GAGGAGCTTTTCTTTGATTA+CGG + chr8.2:37562673-37562654 None:intergenic 35.0%
! GATGATCCAACATTTTCTCA+AGG + chr8.2:37561779-37561798 None:intergenic 35.0%
! TCCAACATTTTCTCAAGGAA+AGG + chr8.2:37561774-37561793 None:intergenic 35.0%
! TGTAGGTTGTGCTTGTTAAT+GGG - chr8.2:37562586-37562605 MS.gene65605:intron 35.0%
! TGTAGGTTGTGCTTGTTAAT+GGG + chr8.2:37562605-37562586 None:intergenic 35.0%
! TTGTAGGTTGTGCTTGTTAA+TGG - chr8.2:37562585-37562604 MS.gene65605:intron 35.0%
! TTGTAGGTTGTGCTTGTTAA+TGG + chr8.2:37562604-37562585 None:intergenic 35.0%
!! TAGAGTAGGAGTATTTGCAA+AGG + chr8.2:37561906-37561925 None:intergenic 35.0%
AGAAACATTGCTCTCACTTG+AGG - chr8.2:37562772-37562791 MS.gene65605:CDS 40.0%
ATGAAAATAGTCGACCACCA+TGG - chr8.2:37562682-37562701 MS.gene65605:CDS 40.0%
ATGAAAATGGTCGATCACCA+TGG + chr8.2:37561838-37561857 None:intergenic 40.0%
CAAGTGAGAGCAATGTTTCT+TGG + chr8.2:37562772-37562791 None:intergenic 40.0%
CAGAATTCAGCTCAGCAATT+TGG + chr8.2:37561558-37561577 None:intergenic 40.0%
CCATTACATGAGTGATGACT+CGG - chr8.2:37561639-37561658 MS.gene65605:CDS 40.0%
GCAAAGGAACGTATTGAAGT+TGG - chr8.2:37562630-37562649 MS.gene65605:intron 40.0%
GCCTTTCCTTGAGAAAATGT+TGG - chr8.2:37561770-37561789 MS.gene65605:intron 40.0%
GTCTTGATGCTTATCGCAAA+GGG - chr8.2:37562405-37562424 MS.gene65605:intron 40.0%
GTTAATGGGGATCATAGAGT+AGG + chr8.2:37561920-37561939 None:intergenic 40.0%
TGCTCTCACTTGAGGAAATT+TGG - chr8.2:37562780-37562799 MS.gene65605:CDS 40.0%
TGTCTTGATGCTTATCGCAA+AGG - chr8.2:37562404-37562423 MS.gene65605:intron 40.0%
TGTTGGATCATCATCTTCCT+TGG - chr8.2:37561787-37561806 MS.gene65605:intron 40.0%
TTCTTGATGCTTCTCGCAAA+GGG + chr8.2:37562115-37562134 None:intergenic 40.0%
TTGTTGTACTGCAGTGTCTT+TGG + chr8.2:37561584-37561603 None:intergenic 40.0%
TTTCTTGATGCTTCTCGCAA+AGG + chr8.2:37562116-37562135 None:intergenic 40.0%
! GTAGGTTGTGCTTGTTAATG+GGG - chr8.2:37562587-37562606 MS.gene65605:intron 40.0%
! GTAGGTTGTGCTTGTTAATG+GGG + chr8.2:37562606-37562587 None:intergenic 40.0%
ACGAACATCACTCTGTCCAA+AGG - chr8.2:37561679-37561698 MS.gene65605:CDS 45.0%
AGAAACATTGCTCTCGCTTG+AGG + chr8.2:37561748-37561767 None:intergenic 45.0%
CAAGCGAGAGCAATGTTTCT+TGG - chr8.2:37561748-37561767 MS.gene65605:CDS 45.0%
CCGAGTCATCACTCATGTAA+TGG + chr8.2:37561642-37561661 None:intergenic 45.0%
CCTTTGGACAGAGTGATGTT+CGG - chr8.2:37562838-37562857 MS.gene65605:CDS 45.0%
CGAACATCACTCTGTCCAAA+GGG - chr8.2:37561680-37561699 MS.gene65605:CDS 45.0%
CGAACATCACTCTGTCCAAA+GGG + chr8.2:37561699-37561680 None:intergenic 45.0%
GGAACATATTGAAGCAAGGG+AGG + chr8.2:37561885-37561904 None:intergenic 45.0%
GTTAATGGGGATCATCGAGT+AGG - chr8.2:37562600-37562619 MS.gene65605:intron 45.0%
TGCTATGCAAAGGAGAGTCT+AGG + chr8.2:37562053-37562072 None:intergenic 45.0%
TGCTCTCGCTTGAGGAAATT+TGG + chr8.2:37561740-37561759 None:intergenic 45.0%
TTCCACAGACAGGACATTTG+CGG - chr8.2:37561705-37561724 MS.gene65605:CDS 45.0%
TTCCACAGACAGGACATTTG+CGG + chr8.2:37561724-37561705 None:intergenic 45.0%
CCGAACATCACTCTGTCCAA+AGG + chr8.2:37562841-37562860 None:intergenic 50.0%
GAGTTCACGGAAGAAGCTTG+AGG - chr8.2:37561510-37561529 MS.gene65605:CDS 50.0%
GGAACGTATTGAAGTTGGGG+AGG - chr8.2:37562635-37562654 MS.gene65605:intron 50.0%
CACCGCAAATGTCCTGTCTG+TGG - chr8.2:37562810-37562829 MS.gene65605:CDS 55.0%
CACCGCAAATGTCCTGTCTG+TGG + chr8.2:37562829-37562810 None:intergenic 55.0%
CCTGTCTGTGGAACACCCTT+TGG - chr8.2:37562822-37562841 MS.gene65605:CDS 55.0%
CCTGTCTGTGGAACACCCTT+TGG + chr8.2:37562841-37562822 None:intergenic 55.0%
!! CCAAAGGGTGTTCCACAGAC+AGG - chr8.2:37561695-37561714 MS.gene65605:CDS 55.0%
!! CCAAAGGGTGTTCCACAGAC+AGG + chr8.2:37561714-37561695 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 37561499 37562875 37561499 ID=MS.gene65605
chr8.2 mRNA 37561499 37562875 37561499 ID=MS.gene65605.t1;Parent=MS.gene65605
chr8.2 exon 37562648 37562875 37562648 ID=MS.gene65605.t1.exon1;Parent=MS.gene65605.t1
chr8.2 CDS 37562648 37562875 37562648 ID=cds.MS.gene65605.t1;Parent=MS.gene65605.t1
chr8.2 exon 37561499 37561783 37561499 ID=MS.gene65605.t1.exon2;Parent=MS.gene65605.t1
chr8.2 CDS 37561499 37561783 37561499 ID=cds.MS.gene65605.t1;Parent=MS.gene65605.t1
Gene Sequence

>MS.gene65605

ATGTCATGCAGGAGTTCACGGAAGAAGCTTGAGGAAGAATTAATGGAAGTGAATAACCAAATTGCTGAGCTGAATTCTGAAGCCAAAGACACTGCAGTACAACAACAAGAATTTTTCTTTAACTTATTATCGAACAATTACCATTACATGAGTGATGACTCGGTCTTATATTTTATCAAAACGAACATCACTCTGTCCAAAGGGTGTTCCACAGACAGGACATTTGCGGTGAATCTGTCCAAATTTCCTCAAGCGAGAGCAATGTTTCTTGGCCTTTCCTTGAGAAAATGTTGGATCATCATCTTCCTTGGAACCATTATATAGAAGTTTATGAAGCCATGGTGATCGACCATTTTCATCATACCCGTAATCAAAGAAAAGCTCCTCCCTTGCTTCAATATGTTCCTTTGCAAATACTCCTACTCTATGATCCCCATTAACAAGCACAACCTACAATAGGAGACACATTATTTACAATTCAATAATTAAGTCATAGTGTAGAGATTAAAAGATAAGTTTCATATATCATATATCTCTATAAAATATGAGTTCCTAGACTCTCCTTTGCATAGCAATTAGCTTTTGATGAGTGATTTGAAAATTTCAAGTTGCTCCCTTTGCGAGAAGCATCAAGAAAATACTGAAGAAAAAAATCATAGTAAGCTGGTTTAACATAATATATGTTTTTAGGGATATAAGGATGACTTAATGCATGAAAAGGTTGACTCGAAAAATTTAGTATTCAGATTGTAAAAGATTGTATACTAAGTTTCATATTAACCTATATAGTCTTTTACTATCTAACTACTAAATTTTTCTAGTCAACCTTTTTGTGCATTAAGTCATCCTTATATCCCTAAAAACATATATTATGTTAAACCTTACTATGATTTTTTCTTCAGTATTGTCTTGATGCTTATCGCAAAGGGAACAAGTTGAAATTTGCAAATCACTCATCAAAAGCTAATTGATATGCAAAGGTGAGTCTAGCAACTCATTTTTATAGAGATATATGATATATGAAACTTATCTTTTAATCTCTACATTGTGTACTTAATTATTGAATTGTAAATAATGTGTGTCCTATTGTAGGTTGTGCTTGTTAATGGGGATCATCGAGTAGGAATATTTGCAAAGGAACGTATTGAAGTTGGGGAGGAGCTTTTCTTTGATTACGGGTATGATGAAAATAGTCGACCACCATGGCTTCATAAACTTATAGATGATGGTTCCAAGGAAGATGATGATCAAACATTTTCTCAAGGAAAAGCCAAGAAACATTGCTCTCACTTGAGGAAATTTGGACAGAGTCACCGCAAATGTCCTGTCTGTGGAACACCCTTTGGACAGAGTGATGTTCGGTTTGATAAAATATAA
Protein sequence

>MS.gene65605.t1

MSCRSSRKKLEEELMEVNNQIAELNSEAKDTAVQQQEFFFNLLSNNYHYMSDDSVLYFIKTNITLSKGCSTDRTFAVVLVNGDHRVGIFAKERIEVGEELFFDYGYDENSRPPWLHKLIDDGSKEDDDQTFSQGKAKKHCSHLRKFGQSHRKCPVCGTPFGQSDVRFDKI