AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95065

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95065.t1 MTR_1g106730 70.946 148 39 2 9 154 84 229 8.87e-68 207
MS.gene95065.t1 MTR_3g102980 48.305 118 52 2 9 120 87 201 5.01e-25 97.1
MS.gene95065.t1 MTR_1g018420 45.763 118 52 4 9 120 82 193 6.30e-23 91.3
MS.gene95065.t1 MTR_0160s0030 36.441 118 58 4 6 122 238 339 2.12e-14 70.1
MS.gene95065.t1 MTR_1g067650 35.652 115 45 4 10 120 41 130 1.45e-11 60.1
MS.gene95065.t1 MTR_1g067640 35.652 115 45 4 10 120 40 129 1.81e-11 59.7
MS.gene95065.t1 MTR_7g100100 38.961 77 46 1 4 80 30 105 3.87e-11 58.9
MS.gene95065.t1 MTR_4g027440 37.647 85 41 2 6 80 218 300 4.09e-11 60.8
MS.gene95065.t1 MTR_5g062300 35.354 99 49 2 1 84 112 210 7.07e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95065.t1 AT1G27730 48.837 129 54 4 4 125 76 199 3.66e-28 105
MS.gene95065.t1 AT5G04340 47.619 126 54 3 9 125 90 212 3.15e-25 97.4
MS.gene95065.t1 AT3G19580 44.531 128 60 3 3 119 101 228 1.51e-24 96.7
MS.gene95065.t1 AT3G19580 44.531 128 60 3 3 119 101 228 1.51e-24 96.7
MS.gene95065.t1 AT5G43170 46.032 126 47 5 2 125 69 175 9.66e-22 87.4
MS.gene95065.t1 AT5G67450 41.892 148 54 4 3 120 92 237 4.91e-20 84.0
MS.gene95065.t1 AT3G49930 53.846 78 31 1 9 81 95 172 8.60e-20 82.8
MS.gene95065.t1 AT1G49900 46.154 78 40 1 8 83 193 270 6.52e-18 80.5
MS.gene95065.t1 AT1G49900 42.169 83 46 1 1 83 743 823 2.97e-16 75.9
MS.gene95065.t1 AT3G60580 37.607 117 62 3 6 121 171 277 4.45e-17 77.0
MS.gene95065.t1 AT2G45120 38.136 118 65 4 5 121 191 301 1.81e-15 72.8
MS.gene95065.t1 AT5G56200 40.860 93 36 3 10 83 344 436 1.67e-13 67.8
MS.gene95065.t1 AT1G02030 33.333 117 61 3 5 121 157 256 1.04e-12 64.7
MS.gene95065.t1 AT3G46070 37.079 89 53 1 9 94 37 125 1.85e-11 59.7

Find 50 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACATTAACCTTGTTCTTCT+TGG 0.180001 8.2:-436926 None:intergenic
TTTCCTACTGCTCAAGCTTT+TGG 0.255190 8.2:+436718 MS.gene95065:CDS
CTGTGCCTCTCACTAAATTC+TGG 0.264666 8.2:+436875 MS.gene95065:CDS
CACCTCTTGCTCATCCATTC+CGG 0.359071 8.2:-436956 None:intergenic
AACATAGACGGTGTTGTTAA+TGG 0.368830 8.2:-436641 None:intergenic
GATGAGCAAGAGGTGGAAAA+AGG 0.370532 8.2:+436964 MS.gene95065:CDS
GAACAAGGTTAATGTTAATC+TGG 0.395694 8.2:+436933 MS.gene95065:CDS
AGATGAGGATTTACGGTGGC+TGG 0.402342 8.2:-436602 None:intergenic
GGAACACACGTGCATCTTAC+CGG 0.407865 8.2:-436680 None:intergenic
TGTGCCTCTCACTAAATTCT+GGG 0.423468 8.2:+436876 MS.gene95065:CDS
TTTCAGAGAACGGTGGGTTA+AGG 0.430547 8.2:+435685 MS.gene95065:CDS
GTAAAAGCCACGGTGGTTGA+TGG 0.440946 8.2:-436842 None:intergenic
GACGGTGTTGTTAATGGTGG+TGG 0.454028 8.2:-436635 None:intergenic
CTATCTTATCAAGCACTTGG+TGG 0.494646 8.2:+436571 MS.gene95065:CDS
CAGAATTTAGTGAGAGGCAC+AGG 0.504910 8.2:-436874 None:intergenic
TGTTGTTAATGGTGGTGGAT+TGG 0.511948 8.2:-436630 None:intergenic
AAGGTTAATGTTAATCTGGC+CGG 0.517608 8.2:+436937 MS.gene95065:CDS
TAATGTTAATCTGGCCGGAA+TGG 0.525751 8.2:+436942 MS.gene95065:CDS
CCACCAAAAGCTTGAGCAGT+AGG 0.527356 8.2:-436721 None:intergenic
GCCACGGTGGTTGATGGAAG+AGG 0.538391 8.2:-436836 None:intergenic
AGGAAAACTCTTGTGACAGT+TGG 0.541592 8.2:-436701 None:intergenic
TTTCTATCTTATCAAGCACT+TGG 0.548912 8.2:+436568 MS.gene95065:CDS
CTTGATAAGATAGAAAAGCT+TGG 0.553602 8.2:-436561 None:intergenic
TCTCACTAAATTCTGGGCTC+CGG 0.563716 8.2:+436882 MS.gene95065:CDS
TGGGCTCCGGCGAGATTCGA+CGG 0.566414 8.2:+436895 MS.gene95065:CDS
TCATGATTTCAGAGAACGGT+GGG 0.573252 8.2:+435679 None:intergenic
TGTTGTTACCGCCGTTGTAG+TGG 0.578897 8.2:-436756 None:intergenic
TCTCCACCGTCGAATCTCGC+CGG 0.596310 8.2:-436901 None:intergenic
CACAAACGGTGCCACTACAA+CGG 0.603038 8.2:+436745 MS.gene95065:CDS
GGCCGGAATGGATGAGCAAG+AGG 0.607481 8.2:+436954 MS.gene95065:CDS
TGAGAGGCACAGGTAAGTTG+AGG 0.616261 8.2:-436864 None:intergenic
CACGTGCATCTTACCGGCGA+CGG 0.623083 8.2:-436674 None:intergenic
ATTTGAAGAAGAGAAACGCA+AGG 0.638030 8.2:-436993 None:intergenic
GTCAAAGTTACTAACAGCGG+TGG 0.642956 8.2:+436784 MS.gene95065:CDS
AAACGGTGCCACTACAACGG+CGG 0.659288 8.2:+436748 MS.gene95065:CDS
GCAATCATGATTTCAGAGAA+CGG 0.661332 8.2:+435675 None:intergenic
CGGAATGGATGAGCAAGAGG+TGG 0.663787 8.2:+436957 MS.gene95065:CDS
GGTGGAGTTACAATCTCTGA+CGG 0.665727 8.2:+436802 MS.gene95065:CDS
GTAAGTTGAGGTAAAAGCCA+CGG 0.666180 8.2:-436852 None:intergenic
AACGTCAAAGTTACTAACAG+CGG 0.669045 8.2:+436781 MS.gene95065:CDS
TGGAGATTCCAAGAAGAACA+AGG 0.671985 8.2:+436918 MS.gene95065:CDS
GTTGATGGAAGAGGACGCGA+CGG 0.682513 8.2:-436827 None:intergenic
GGAGCCCAGAATTTAGTGAG+AGG 0.685772 8.2:-436880 None:intergenic
TCCTCTTCCATCAACCACCG+TGG 0.689382 8.2:+436835 MS.gene95065:CDS
ATCATGATTTCAGAGAACGG+TGG 0.691973 8.2:+435678 None:intergenic
TTTCAGATGAGGATTTACGG+TGG 0.709487 8.2:-436606 None:intergenic
GGTTGCGATGAAAACATAGA+CGG 0.723343 8.2:-436653 None:intergenic
ATAGACGGTGTTGTTAATGG+TGG 0.733629 8.2:-436638 None:intergenic
GCTCCGGCGAGATTCGACGG+TGG 0.754340 8.2:+436898 MS.gene95065:CDS
AGTTGAGGTAAAAGCCACGG+TGG 0.767998 8.2:-436849 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAAATAATTAAATAAAA+AGG + chr8.2:436489-436508 MS.gene95065:intron 0.0%
!! AAAATAATTAAATAAAAAGG+AGG + chr8.2:436492-436511 MS.gene95065:intron 10.0%
!! AAATAATTAAATAAAAAGGA+GGG + chr8.2:436493-436512 MS.gene95065:intron 10.0%
!! TATTTAAATATGTTATATGT+TGG - chr8.2:436444-436463 None:intergenic 10.0%
!! TAGAAATAAATAAGATTATG+AGG - chr8.2:436370-436389 None:intergenic 15.0%
!! TTTAAAAGATAATCAAAACA+AGG + chr8.2:435912-435931 MS.gene95065:intron 15.0%
!! TTGTAAGATTATGAGAATTA+GGG - chr8.2:436056-436075 None:intergenic 20.0%
!! TTTGTAAGATTATGAGAATT+AGG - chr8.2:436057-436076 None:intergenic 20.0%
! GATTTCAGAAAAACAATCTA+AGG - chr8.2:436155-436174 None:intergenic 25.0%
! GTGTTATAAATAGAGAAGTT+AGG - chr8.2:436311-436330 None:intergenic 25.0%
!!! TTTTACGTTAAACCGTTTTT+TGG - chr8.2:436275-436294 None:intergenic 25.0%
AAAACCGTTGAATTGATGTA+TGG - chr8.2:436003-436022 None:intergenic 30.0%
AAACCGTTGAATTGATGTAT+GGG - chr8.2:436002-436021 None:intergenic 30.0%
AACATTAACCTTGTTCTTCT+TGG - chr8.2:436929-436948 None:intergenic 30.0%
ACATGTTTATACAGCCATTA+TGG + chr8.2:435962-435981 MS.gene95065:intron 30.0%
ATAATGGCTGTATAAACATG+TGG - chr8.2:435963-435982 None:intergenic 30.0%
CTACAACAACAAATTAGAGT+AGG + chr8.2:435873-435892 MS.gene95065:intron 30.0%
CTTGATAAGATAGAAAAGCT+TGG - chr8.2:436564-436583 None:intergenic 30.0%
GAACAAGGTTAATGTTAATC+TGG + chr8.2:436933-436952 MS.gene95065:CDS 30.0%
TAATGGCTGTATAAACATGT+GGG - chr8.2:435962-435981 None:intergenic 30.0%
TTTCTATCTTATCAAGCACT+TGG + chr8.2:436568-436587 MS.gene95065:CDS 30.0%
! GATTGTATCTAACGTGTTTT+AGG - chr8.2:436086-436105 None:intergenic 30.0%
! TTCTCCTCTTTTCCAAAAAA+CGG + chr8.2:436260-436279 MS.gene95065:intron 30.0%
! TTGAGTGAGAATTGATGATT+AGG - chr8.2:436032-436051 None:intergenic 30.0%
!!! TAAACCGTTTTTTGGAAAAG+AGG - chr8.2:436267-436286 None:intergenic 30.0%
AACCGTTGAATTGATGTATG+GGG - chr8.2:436001-436020 None:intergenic 35.0%
AACGTCAAAGTTACTAACAG+CGG + chr8.2:436781-436800 MS.gene95065:CDS 35.0%
AAGGTTAATGTTAATCTGGC+CGG + chr8.2:436937-436956 MS.gene95065:CDS 35.0%
ATAAACATGTGGGTAGTGAA+GGG - chr8.2:435952-435971 None:intergenic 35.0%
ATTTGAAGAAGAGAAACGCA+AGG - chr8.2:436996-437015 None:intergenic 35.0%
GAGGTGTAAGAGAAATAAGA+AGG - chr8.2:436333-436352 None:intergenic 35.0%
GTAGTCTCTATTCACCATAA+TGG - chr8.2:435979-435998 None:intergenic 35.0%
TACCCCATACATCAATTCAA+CGG + chr8.2:435996-436015 MS.gene95065:intron 35.0%
TATAAACATGTGGGTAGTGA+AGG - chr8.2:435953-435972 None:intergenic 35.0%
! GGTTTTCAGATGAGGATTTA+CGG - chr8.2:436612-436631 None:intergenic 35.0%
!! AACATAGACGGTGTTGTTAA+TGG - chr8.2:436644-436663 None:intergenic 35.0%
!! TGAGGAAAAGAGTAGTTTTG+AGG - chr8.2:436352-436371 None:intergenic 35.0%
AAGAGAGAAGAGAAGAGAAG+AGG - chr8.2:436221-436240 None:intergenic 40.0%
AGAAACAACATCTACACCTG+TGG + chr8.2:435733-435752 MS.gene95065:intron 40.0%
AGGAAAACTCTTGTGACAGT+TGG - chr8.2:436704-436723 None:intergenic 40.0%
CTATCTTATCAAGCACTTGG+TGG + chr8.2:436571-436590 MS.gene95065:CDS 40.0%
GGTTGCGATGAAAACATAGA+CGG - chr8.2:436656-436675 None:intergenic 40.0%
TAATGTTAATCTGGCCGGAA+TGG + chr8.2:436942-436961 MS.gene95065:CDS 40.0%
TGGAGATTCCAAGAAGAACA+AGG + chr8.2:436918-436937 MS.gene95065:CDS 40.0%
TGTAAACAAATTGCCACCAC+AGG - chr8.2:435752-435771 None:intergenic 40.0%
TGTGCCTCTCACTAAATTCT+GGG + chr8.2:436876-436895 MS.gene95065:CDS 40.0%
TTTCAGATGAGGATTTACGG+TGG - chr8.2:436609-436628 None:intergenic 40.0%
! GTAAGTTGAGGTAAAAGCCA+CGG - chr8.2:436855-436874 None:intergenic 40.0%
! TTTCCTACTGCTCAAGCTTT+TGG + chr8.2:436718-436737 MS.gene95065:CDS 40.0%
!! AAGCTTTTGGTGGACACAAA+CGG + chr8.2:436731-436750 MS.gene95065:CDS 40.0%
!! ATAGACGGTGTTGTTAATGG+TGG - chr8.2:436641-436660 None:intergenic 40.0%
!! TGTTGTTAATGGTGGTGGAT+TGG - chr8.2:436633-436652 None:intergenic 40.0%
AACAACATCTACACCTGTGG+TGG + chr8.2:435736-435755 MS.gene95065:intron 45.0%
CTGTGCCTCTCACTAAATTC+TGG + chr8.2:436875-436894 MS.gene95065:CDS 45.0%
GAACTCAGAGAGAAAACCCT+AGG - chr8.2:436197-436216 None:intergenic 45.0%
GATGAGCAAGAGGTGGAAAA+AGG + chr8.2:436964-436983 MS.gene95065:CDS 45.0%
GGTGGAGTTACAATCTCTGA+CGG + chr8.2:436802-436821 MS.gene95065:CDS 45.0%
GTCAAAGTTACTAACAGCGG+TGG + chr8.2:436784-436803 MS.gene95065:CDS 45.0%
TCTCACTAAATTCTGGGCTC+CGG + chr8.2:436882-436901 MS.gene95065:CDS 45.0%
! CAGAATTTAGTGAGAGGCAC+AGG - chr8.2:436877-436896 None:intergenic 45.0%
!! TTTCAGAGAACGGTGGGTTA+AGG + chr8.2:435685-435704 MS.gene95065:CDS 45.0%
!!! GGTGGATTGGTTTTCAGATG+AGG - chr8.2:436620-436639 None:intergenic 45.0%
!!! TTATAATATATTTGTTAAAT+TGG - chr8.2:436412-436431 None:intergenic 5.0%
AAGCAGCGTTCTTCGTTCCT+AGG + chr8.2:436177-436196 MS.gene95065:intron 50.0%
AGATGAGGATTTACGGTGGC+TGG - chr8.2:436605-436624 None:intergenic 50.0%
AGCAGCGTTCTTCGTTCCTA+GGG + chr8.2:436178-436197 MS.gene95065:intron 50.0%
AGTTGAGGTAAAAGCCACGG+TGG - chr8.2:436852-436871 None:intergenic 50.0%
CACCTCTTGCTCATCCATTC+CGG - chr8.2:436959-436978 None:intergenic 50.0%
CCACCAAAAGCTTGAGCAGT+AGG - chr8.2:436724-436743 None:intergenic 50.0%
GGAACACACGTGCATCTTAC+CGG - chr8.2:436683-436702 None:intergenic 50.0%
GGAGCCCAGAATTTAGTGAG+AGG - chr8.2:436883-436902 None:intergenic 50.0%
GTAAAAGCCACGGTGGTTGA+TGG - chr8.2:436845-436864 None:intergenic 50.0%
TGTTGTTACCGCCGTTGTAG+TGG - chr8.2:436759-436778 None:intergenic 50.0%
! CCTACTGCTCAAGCTTTTGG+TGG + chr8.2:436721-436740 MS.gene95065:CDS 50.0%
! TGAGAGGCACAGGTAAGTTG+AGG - chr8.2:436867-436886 None:intergenic 50.0%
!! CACAAACGGTGCCACTACAA+CGG + chr8.2:436745-436764 MS.gene95065:CDS 50.0%
!! GACGGTGTTGTTAATGGTGG+TGG - chr8.2:436638-436657 None:intergenic 50.0%
CGGAATGGATGAGCAAGAGG+TGG + chr8.2:436957-436976 MS.gene95065:CDS 55.0%
GCACCTGTCATTCAGCTCGA+CGG - chr8.2:436530-436549 None:intergenic 55.0%
TCCTCTTCCATCAACCACCG+TGG + chr8.2:436835-436854 MS.gene95065:CDS 55.0%
TTGCCGTCGAGCTGAATGAC+AGG + chr8.2:436524-436543 MS.gene95065:intron 55.0%
! GTTGATGGAAGAGGACGCGA+CGG - chr8.2:436830-436849 None:intergenic 55.0%
! GTTTTCATCGCAACCGTCGC+CGG + chr8.2:436661-436680 MS.gene95065:CDS 55.0%
!! AAACGGTGCCACTACAACGG+CGG + chr8.2:436748-436767 MS.gene95065:CDS 55.0%
CACGTGCATCTTACCGGCGA+CGG - chr8.2:436677-436696 None:intergenic 60.0%
GGCCGGAATGGATGAGCAAG+AGG + chr8.2:436954-436973 MS.gene95065:CDS 60.0%
TCTCCACCGTCGAATCTCGC+CGG - chr8.2:436904-436923 None:intergenic 60.0%
!! GCCACGGTGGTTGATGGAAG+AGG - chr8.2:436839-436858 None:intergenic 60.0%
TGGGCTCCGGCGAGATTCGA+CGG + chr8.2:436895-436914 MS.gene95065:CDS 65.0%
GCTCCGGCGAGATTCGACGG+TGG + chr8.2:436898-436917 MS.gene95065:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 435681 437038 435681 ID=MS.gene95065
chr8.2 mRNA 435681 437038 435681 ID=MS.gene95065.t1;Parent=MS.gene95065
chr8.2 exon 435681 435706 435681 ID=MS.gene95065.t1.exon1;Parent=MS.gene95065.t1
chr8.2 CDS 435681 435706 435681 ID=cds.MS.gene95065.t1;Parent=MS.gene95065.t1
chr8.2 exon 436546 437038 436546 ID=MS.gene95065.t1.exon2;Parent=MS.gene95065.t1
chr8.2 CDS 436546 437038 436546 ID=cds.MS.gene95065.t1;Parent=MS.gene95065.t1
Gene Sequence

>MS.gene95065

ATGATTTCAGAGAACGGTGGGTTAAGGTTTGATTAACACTTAAAAAGAGAAAAGAAACAACATCTACACCTGTGGTGGCAATTTGTTTACATCACTTAAATTGAAACTAACTCATAAACACAACAGTAACACAAATAAGTCATGAATTTACGTATCAGAATCATGAATTCAGAAATAACAATATATCTAAAACTACAACAACAAATTAGAGTAGGAATTTAACATTAATTCTTTAAAAGATAATCAAAACAAGGAAGAAAATCATAAACCCTTCACTACCCACATGTTTATACAGCCATTATGGTGAATAGAGACTACCCCATACATCAATTCAACGGTTTTTCATCACCTAATCATCAATTCTCACTCAAACCCTAATTCTCATAATCTTACAAAACTCATCCTAAAACACGTTAGATACAATCTAATGATTCACAGACTTAATATTAGTGAAAGATAGTCTCACTCTTACCTTAGATTGTTTTTCTGAAATCAAAAGCAGCGTTCTTCGTTCCTAGGGTTTTCTCTCTGAGTTCTCCTCTTCTCTTCTCTTCTCTCTTCTCTTTCTCTTCTCTCTTGTTCTCCTCTTTTCCAAAAAACGGTTTAACGTAAAACTCTTTCTAAAAACCTAACTTCTCTATTTATAACACCTTCTTATTTCTCTTACACCTCAAAACTACTCTTTTCCTCATAATCTTATTTATTTCTAAATTAAATATATCTCTACACCAATTTAACAAATATATTATAATAGTAAATACCAACATATAACATATTTAAATAAATCACATAAAGAAACTCTAACTTAATAAAAATAATTAAATAAAAAGGAGGGCGTTACAGTTGCCGTCGAGCTGAATGACAGGTGCAGTGTTTGCAACCAAGCTTTTCTATCTTATCAAGCACTTGGTGGTCACAAATCCAGCCACCGTAAATCCTCATCTGAAAACCAATCCACCACCATTAACAACACCGTCTATGTTTTCATCGCAACCGTCGCCGGTAAGATGCACGTGTGTTCCAACTGTCACAAGAGTTTTCCTACTGCTCAAGCTTTTGGTGGACACAAACGGTGCCACTACAACGGCGGTAACAACAACAACGTCAAAGTTACTAACAGCGGTGGAGTTACAATCTCTGACGGCGCCGTCGCGTCCTCTTCCATCAACCACCGTGGCTTTTACCTCAACTTACCTGTGCCTCTCACTAAATTCTGGGCTCCGGCGAGATTCGACGGTGGAGATTCCAAGAAGAACAAGGTTAATGTTAATCTGGCCGGAATGGATGAGCAAGAGGTGGAAAAAGGAAAGTTCCTTGCGTTTCTCTTCTTCAAATCTATATGTCCTTTTATTAATTAA
Protein sequence

>MS.gene95065.t1

MISENGGLRCSVCNQAFLSYQALGGHKSSHRKSSSENQSTTINNTVYVFIATVAGKMHVCSNCHKSFPTAQAFGGHKRCHYNGGNNNNVKVTNSGGVTISDGAVASSSINHRGFYLNLPVPLTKFWAPARFDGGDSKKNKVNVNLAGMDEQEVEKGKFLAFLFFKSICPFIN