AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene047210

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047210.t1 MTR_5g015480 67.399 273 45 4 1 273 1 229 1.09e-120 346
MS.gene047210.t1 MTR_6g017200 72.072 111 27 1 36 142 34 144 8.84e-49 159
MS.gene047210.t1 MTR_1g057920 64.463 121 39 1 27 143 1 121 1.32e-46 152
MS.gene047210.t1 MTR_0402s0040 70.270 111 29 1 36 142 2 112 1.85e-44 157
MS.gene047210.t1 MTR_2g070590 69.903 103 31 0 40 142 1 103 2.21e-44 147
MS.gene047210.t1 MTR_0137s0040 67.045 88 25 1 25 108 1 88 1.37e-36 126
MS.gene047210.t1 MTR_7g113010 50.400 125 44 2 26 146 423 533 4.69e-27 110
MS.gene047210.t1 MTR_0291s0060 66.667 69 19 1 38 102 13 81 1.06e-24 95.1
MS.gene047210.t1 MTR_4g102720 41.739 115 61 3 56 170 7 115 5.44e-20 86.3
MS.gene047210.t1 MTR_1g091013 56.410 78 23 1 47 124 3 69 3.17e-19 80.1
MS.gene047210.t1 MTR_4g067290 45.055 91 46 2 56 146 56 142 6.56e-17 78.2
MS.gene047210.t1 MTR_4g067290 45.055 91 46 2 56 146 56 142 6.95e-17 78.2
MS.gene047210.t1 MTR_4g067290 45.055 91 46 2 56 146 76 162 9.96e-17 78.2
MS.gene047210.t1 MTR_4g067290 45.055 91 46 2 56 146 74 160 1.01e-16 78.2
MS.gene047210.t1 MTR_4g067290 45.055 91 46 2 56 146 76 162 1.03e-16 78.2
MS.gene047210.t1 MTR_4g067290 45.055 91 46 2 56 146 116 202 1.83e-16 78.2
MS.gene047210.t1 MTR_2g098920 43.210 81 45 1 56 136 80 159 1.63e-15 75.1
MS.gene047210.t1 MTR_7g074790 44.578 83 44 2 56 137 10 91 1.89e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047210.t1 AT3G59470 46.914 81 42 1 56 136 70 149 4.35e-16 76.3
MS.gene047210.t1 AT3G59470 46.914 81 42 1 56 136 70 149 4.35e-16 76.3
MS.gene047210.t1 AT3G59470 46.914 81 42 1 56 136 82 161 5.30e-16 76.3
MS.gene047210.t1 AT3G07500 39.506 81 49 0 56 136 33 113 5.69e-11 61.2

Find 57 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTGTTAGCTTCTGTTAA+AGG 0.143654 2.2:-73527596 None:intergenic
TCCAACTTGGCTTGAGAAAT+TGG 0.175914 2.2:+73527119 MS.gene047210:CDS
TCCTAATCTCATTTGACATT+TGG 0.288109 2.2:-73527640 None:intergenic
GCTTGGAATGGAAGCCAATC+TGG 0.361798 2.2:+73527518 MS.gene047210:CDS
TATAGTAGGAAATGTGGTTT+TGG 0.369598 2.2:+73526817 MS.gene047210:CDS
GGTGAATGATATCGTGCAAC+AGG 0.381657 2.2:+73526711 MS.gene047210:CDS
TCACCATTCATCACCACCTC+TGG 0.385515 2.2:+73526491 MS.gene047210:CDS
ATTTCACTTGATCGGAAGAT+TGG 0.399360 2.2:+73527000 MS.gene047210:CDS
GACACCGCGTCTACCCTCTT+TGG 0.402002 2.2:-73526908 None:intergenic
TAATGTACCACACTTGGAAA+TGG 0.424296 2.2:+73526753 MS.gene047210:CDS
TCCAAGCATGTATGCCATCA+TGG 0.434387 2.2:-73527502 None:intergenic
ATATGGAAGCCATGCTTTGA+TGG 0.436030 2.2:+73527541 MS.gene047210:CDS
TACACCTTCAACCATTGGAT+TGG 0.436578 2.2:-73526680 None:intergenic
AATGGAAGCCAATCTGGATA+TGG 0.437868 2.2:+73527524 MS.gene047210:CDS
ACGTGTGTCGTTTCTACCAT+TGG 0.448381 2.2:-73526450 None:intergenic
TCCAATTTCTCAAGCCAAGT+TGG 0.453093 2.2:-73527120 None:intergenic
TGTGTACCATCATTGTTTGC+AGG 0.460822 2.2:-73527295 None:intergenic
GGACTTTGAGTCTGAGGCCT+TGG 0.461262 2.2:+73526774 MS.gene047210:CDS
AGAGCCGAGATTGCTTAGAT+AGG 0.461774 2.2:+73527082 MS.gene047210:CDS
CATGGCTTCCATATCCAGAT+TGG 0.462462 2.2:-73527532 None:intergenic
ATGGAAGTCTACATGAGATT+AGG 0.464776 2.2:+73527615 MS.gene047210:CDS
AACAGGATGTTTAGCACGTA+TGG 0.468473 2.2:+73526975 MS.gene047210:CDS
TCCAAATGTCAAATGAGATT+AGG 0.485144 2.2:+73527639 MS.gene047210:CDS
CCCATGATGGCATACATGCT+TGG 0.488076 2.2:+73527501 MS.gene047210:CDS
GTGGACACTGTTGATCTTGG+TGG 0.493561 2.2:+73527045 MS.gene047210:CDS
GATGGTACACATGCTTTGAA+TGG 0.516924 2.2:+73527307 MS.gene047210:CDS
CACCATTCATCACCACCTCT+GGG 0.529997 2.2:+73526492 MS.gene047210:CDS
TAGTCCTATCTAAGCAATCT+CGG 0.530700 2.2:-73527086 None:intergenic
ACATCCAATCCAATGGTTGA+AGG 0.531051 2.2:+73526676 MS.gene047210:CDS
TGTTAGTAATGTACCACACT+TGG 0.532268 2.2:+73526747 MS.gene047210:CDS
GTATGGTTATTTCACTTGAT+CGG 0.532614 2.2:+73526992 MS.gene047210:CDS
GCTCGAGCAGAAACTAGAAC+AGG 0.536024 2.2:+73526958 MS.gene047210:CDS
AATGTGGACACTGTTGATCT+TGG 0.536764 2.2:+73527042 MS.gene047210:CDS
CAATCTCCTGCAAACAATGA+TGG 0.539918 2.2:+73527289 MS.gene047210:CDS
TGTATGCCATCATGGGTTGC+TGG 0.540590 2.2:-73527494 None:intergenic
ACGTGATTACTTAACAAAAG+AGG 0.543276 2.2:+73526936 MS.gene047210:CDS
CAATCTCCAGCAACCCATGA+TGG 0.544924 2.2:+73527488 MS.gene047210:CDS
TGCCCAGAGGTGGTGATGAA+TGG 0.545146 2.2:-73526494 None:intergenic
GTACACATGCTTTGAATGGA+AGG 0.545764 2.2:+73527311 MS.gene047210:CDS
CCAAGCATGTATGCCATCAT+GGG 0.548509 2.2:-73527501 None:intergenic
AATGAGTATAGTAGGAAATG+TGG 0.549866 2.2:+73526811 MS.gene047210:CDS
TGGACACTGTTGATCTTGGT+GGG 0.560318 2.2:+73527046 MS.gene047210:CDS
ATCTTACCGGTGCCCAGAGG+TGG 0.565589 2.2:-73526504 None:intergenic
GGAAATGGACTTTGAGTCTG+AGG 0.567953 2.2:+73526768 MS.gene047210:CDS
ATTATAAAATTCATATGCCA+AGG 0.568982 2.2:-73526791 None:intergenic
TTTGAGATGCCATCAAAGCA+TGG 0.583887 2.2:-73527550 None:intergenic
AAAATTTGTGTGCTCCAAAG+AGG 0.589431 2.2:+73526894 MS.gene047210:CDS
TCATCACCACCTCTGGGCAC+CGG 0.597509 2.2:+73526498 MS.gene047210:CDS
GATGGCATACATGCTTGGAA+TGG 0.609086 2.2:+73527506 MS.gene047210:CDS
CCTTTAACAGAAGCTAACAA+TGG 0.614189 2.2:+73527596 MS.gene047210:CDS
GAATATTACATCCAATCCAA+TGG 0.614280 2.2:+73526669 MS.gene047210:CDS
AAATTTGTGTGCTCCAAAGA+GGG 0.614397 2.2:+73526895 MS.gene047210:CDS
TCAAAGTCCATTTCCAAGTG+TGG 0.632466 2.2:-73526760 None:intergenic
TGCTCCAAAGAGGGTAGACG+CGG 0.660484 2.2:+73526904 MS.gene047210:CDS
GTGAATGATATCGTGCAACA+GGG 0.667513 2.2:+73526712 MS.gene047210:CDS
GGACACTGTTGATCTTGGTG+GGG 0.681245 2.2:+73527047 MS.gene047210:CDS
AAAATCTTACCGGTGCCCAG+AGG 0.742952 2.2:-73526507 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTTTATAATGAGTATAGT+AGG + chr2.2:73526803-73526822 MS.gene047210:CDS 15.0%
!! ATTATAAAATTCATATGCCA+AGG - chr2.2:73526794-73526813 None:intergenic 20.0%
!! TATTCACATTATCTAGAAAA+TGG - chr2.2:73526654-73526673 None:intergenic 20.0%
!!! CATGAATATTTGAAAGTATT+TGG + chr2.2:73526561-73526580 MS.gene047210:intron 20.0%
! AAGGAAGAGAAAGAAAAAAT+TGG + chr2.2:73527330-73527349 MS.gene047210:CDS 25.0%
! GAAGATTGGAAATGAAAAAA+AGG + chr2.2:73527014-73527033 MS.gene047210:CDS 25.0%
! GACTAAGAGAAAGAAAAAAT+TGG + chr2.2:73527170-73527189 MS.gene047210:CDS 25.0%
! GATAGCAATACTAAAATTCT+AGG - chr2.2:73527228-73527247 None:intergenic 25.0%
! GCAAATAAAAGCAAAAAAGA+TGG + chr2.2:73526856-73526875 MS.gene047210:CDS 25.0%
! TGGATAAAAAGAGACAAAAA+AGG + chr2.2:73527139-73527158 MS.gene047210:CDS 25.0%
!! TGTTACTTCTACTATTATGT+AGG + chr2.2:73527463-73527482 MS.gene047210:intron 25.0%
!!! TGTTACTTTTACTACTATGT+AGG + chr2.2:73527264-73527283 MS.gene047210:intron 25.0%
!!! TTTTATTTGCATATTCTCGA+CGG - chr2.2:73526846-73526865 None:intergenic 25.0%
AATGAGTATAGTAGGAAATG+TGG + chr2.2:73526811-73526830 MS.gene047210:CDS 30.0%
ACGTGATTACTTAACAAAAG+AGG + chr2.2:73526936-73526955 MS.gene047210:CDS 30.0%
CACACGTTAAAAAGAAAGTA+TGG - chr2.2:73527365-73527384 None:intergenic 30.0%
GAATATTACATCCAATCCAA+TGG + chr2.2:73526669-73526688 MS.gene047210:CDS 30.0%
GACAAAGAACAAAATCTTAC+CGG - chr2.2:73526520-73526539 None:intergenic 30.0%
GCTTAGATAGGACTAAAAAA+AGG + chr2.2:73527094-73527113 MS.gene047210:CDS 30.0%
TCCAAATGTCAAATGAGATT+AGG + chr2.2:73527639-73527658 MS.gene047210:CDS 30.0%
TCCTAATCTCATTTGACATT+TGG - chr2.2:73527643-73527662 None:intergenic 30.0%
TGAAAAAAAGGATCAGAATG+TGG + chr2.2:73527026-73527045 MS.gene047210:CDS 30.0%
! GTATGGTTATTTCACTTGAT+CGG + chr2.2:73526992-73527011 MS.gene047210:CDS 30.0%
! TATAGTAGGAAATGTGGTTT+TGG + chr2.2:73526817-73526836 MS.gene047210:CDS 30.0%
AAAATTTGTGTGCTCCAAAG+AGG + chr2.2:73526894-73526913 MS.gene047210:CDS 35.0%
AAATTTGTGTGCTCCAAAGA+GGG + chr2.2:73526895-73526914 MS.gene047210:CDS 35.0%
ATGGAAGTCTACATGAGATT+AGG + chr2.2:73527615-73527634 MS.gene047210:CDS 35.0%
ATTTCACTTGATCGGAAGAT+TGG + chr2.2:73527000-73527019 MS.gene047210:CDS 35.0%
CCTTTAACAGAAGCTAACAA+TGG + chr2.2:73527596-73527615 MS.gene047210:CDS 35.0%
TAATGTACCACACTTGGAAA+TGG + chr2.2:73526753-73526772 MS.gene047210:CDS 35.0%
TAGTCCTATCTAAGCAATCT+CGG - chr2.2:73527089-73527108 None:intergenic 35.0%
TGTTAGTAATGTACCACACT+TGG + chr2.2:73526747-73526766 MS.gene047210:CDS 35.0%
! CCATTGTTAGCTTCTGTTAA+AGG - chr2.2:73527599-73527618 None:intergenic 35.0%
! GGTTGAAGGTGTAGAAAAAT+TGG + chr2.2:73526690-73526709 MS.gene047210:CDS 35.0%
! TTTTCTACACCTTCAACCAT+TGG - chr2.2:73526688-73526707 None:intergenic 35.0%
!! CTAAAAAAAGGCATCCAACT+TGG + chr2.2:73527106-73527125 MS.gene047210:CDS 35.0%
AACAGGATGTTTAGCACGTA+TGG + chr2.2:73526975-73526994 MS.gene047210:CDS 40.0%
AATGGAAGCCAATCTGGATA+TGG + chr2.2:73527524-73527543 MS.gene047210:CDS 40.0%
AATGTGGACACTGTTGATCT+TGG + chr2.2:73527042-73527061 MS.gene047210:CDS 40.0%
ACATCCAATCCAATGGTTGA+AGG + chr2.2:73526676-73526695 MS.gene047210:CDS 40.0%
ATATGGAAGCCATGCTTTGA+TGG + chr2.2:73527541-73527560 MS.gene047210:CDS 40.0%
CAATCTCCTGCAAACAATGA+TGG + chr2.2:73527289-73527308 MS.gene047210:CDS 40.0%
GTGAATGATATCGTGCAACA+GGG + chr2.2:73526712-73526731 MS.gene047210:CDS 40.0%
TACACCTTCAACCATTGGAT+TGG - chr2.2:73526683-73526702 None:intergenic 40.0%
TCAAAGTCCATTTCCAAGTG+TGG - chr2.2:73526763-73526782 None:intergenic 40.0%
TCCAATTTCTCAAGCCAAGT+TGG - chr2.2:73527123-73527142 None:intergenic 40.0%
TGTGTACCATCATTGTTTGC+AGG - chr2.2:73527298-73527317 None:intergenic 40.0%
! GATGGTACACATGCTTTGAA+TGG + chr2.2:73527307-73527326 MS.gene047210:CDS 40.0%
! GTACACATGCTTTGAATGGA+AGG + chr2.2:73527311-73527330 MS.gene047210:CDS 40.0%
! TCCAACTTGGCTTGAGAAAT+TGG + chr2.2:73527119-73527138 MS.gene047210:CDS 40.0%
! TTTGAGATGCCATCAAAGCA+TGG - chr2.2:73527553-73527572 None:intergenic 40.0%
AGAGCCGAGATTGCTTAGAT+AGG + chr2.2:73527082-73527101 MS.gene047210:CDS 45.0%
CATGGCTTCCATATCCAGAT+TGG - chr2.2:73527535-73527554 None:intergenic 45.0%
CCAAGCATGTATGCCATCAT+GGG - chr2.2:73527504-73527523 None:intergenic 45.0%
GATGGCATACATGCTTGGAA+TGG + chr2.2:73527506-73527525 MS.gene047210:CDS 45.0%
GGTGAATGATATCGTGCAAC+AGG + chr2.2:73526711-73526730 MS.gene047210:CDS 45.0%
TCCAAGCATGTATGCCATCA+TGG - chr2.2:73527505-73527524 None:intergenic 45.0%
TGGACACTGTTGATCTTGGT+GGG + chr2.2:73527046-73527065 MS.gene047210:CDS 45.0%
! GGAAATGGACTTTGAGTCTG+AGG + chr2.2:73526768-73526787 MS.gene047210:CDS 45.0%
AAAATCTTACCGGTGCCCAG+AGG - chr2.2:73526510-73526529 None:intergenic 50.0%
CAATCTCCAGCAACCCATGA+TGG + chr2.2:73527488-73527507 MS.gene047210:CDS 50.0%
CACCATTCATCACCACCTCT+GGG + chr2.2:73526492-73526511 MS.gene047210:CDS 50.0%
CCCATGATGGCATACATGCT+TGG + chr2.2:73527501-73527520 MS.gene047210:CDS 50.0%
GCTCGAGCAGAAACTAGAAC+AGG + chr2.2:73526958-73526977 MS.gene047210:CDS 50.0%
GCTTGGAATGGAAGCCAATC+TGG + chr2.2:73527518-73527537 MS.gene047210:CDS 50.0%
GGACACTGTTGATCTTGGTG+GGG + chr2.2:73527047-73527066 MS.gene047210:CDS 50.0%
GTGGACACTGTTGATCTTGG+TGG + chr2.2:73527045-73527064 MS.gene047210:CDS 50.0%
TCACCATTCATCACCACCTC+TGG + chr2.2:73526491-73526510 MS.gene047210:CDS 50.0%
! TGTATGCCATCATGGGTTGC+TGG - chr2.2:73527497-73527516 None:intergenic 50.0%
TGCTCCAAAGAGGGTAGACG+CGG + chr2.2:73526904-73526923 MS.gene047210:CDS 55.0%
! GGACTTTGAGTCTGAGGCCT+TGG + chr2.2:73526774-73526793 MS.gene047210:CDS 55.0%
! TGCCCAGAGGTGGTGATGAA+TGG - chr2.2:73526497-73526516 None:intergenic 55.0%
ATCTTACCGGTGCCCAGAGG+TGG - chr2.2:73526507-73526526 None:intergenic 60.0%
GACACCGCGTCTACCCTCTT+TGG - chr2.2:73526911-73526930 None:intergenic 60.0%
TCATCACCACCTCTGGGCAC+CGG + chr2.2:73526498-73526517 MS.gene047210:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 73526453 73527667 73526453 ID=MS.gene047210
chr2.2 mRNA 73526453 73527667 73526453 ID=MS.gene047210.t1;Parent=MS.gene047210
chr2.2 exon 73526453 73526519 73526453 ID=MS.gene047210.t1.exon1;Parent=MS.gene047210.t1
chr2.2 CDS 73526453 73526519 73526453 ID=cds.MS.gene047210.t1;Parent=MS.gene047210.t1
chr2.2 exon 73526662 73527191 73526662 ID=MS.gene047210.t1.exon2;Parent=MS.gene047210.t1
chr2.2 CDS 73526662 73527191 73526662 ID=cds.MS.gene047210.t1;Parent=MS.gene047210.t1
chr2.2 exon 73527286 73527351 73527286 ID=MS.gene047210.t1.exon3;Parent=MS.gene047210.t1
chr2.2 CDS 73527286 73527351 73527286 ID=cds.MS.gene047210.t1;Parent=MS.gene047210.t1
chr2.2 exon 73527485 73527667 73527485 ID=MS.gene047210.t1.exon4;Parent=MS.gene047210.t1
chr2.2 CDS 73527485 73527667 73527485 ID=cds.MS.gene047210.t1;Parent=MS.gene047210.t1
Gene Sequence

>MS.gene047210

ATGGTAGAAACGACACACGTAGAACATGATGCAAATCTTCACCATTCATCACCACCTCTGGGCACCGGTAAGATTTTGTTCTTTGTCGATGAATATACACACGTAGAACATGAATATTTGAAAGTATTTGGACAATATAAAATTAATATAAAATGTCTATGAATATTAACATGTTGACTTTATATTTTTTTTTTCTTTCCATTTTCTAGATAATGTGAATATTACATCCAATCCAATGGTTGAAGGTGTAGAAAAATTGGTGAATGATATCGTGCAACAGGGAAAAGAGAGTATTGTTAGTAATGTACCACACTTGGAAATGGACTTTGAGTCTGAGGCCTTGGCATATGAATTTTATAATGAGTATAGTAGGAAATGTGGTTTTGGTATCCGTCGAGAATATGCAAATAAAAGCAAAAAAGATGGAGTTCTTACTTCAAGAAAATTTGTGTGCTCCAAAGAGGGTAGACGCGGTGTCGACAAACGTGATTACTTAACAAAAGAGGCTCGAGCAGAAACTAGAACAGGATGTTTAGCACGTATGGTTATTTCACTTGATCGGAAGATTGGAAATGAAAAAAAGGATCAGAATGTGGACACTGTTGATCTTGGTGGGGCAAAAGCAATAAAGAGCCGAGATTGCTTAGATAGGACTAAAAAAAGGCATCCAACTTGGCTTGAGAAATTGGATAAAAAGAGACAAAAAAGGCTATCACAGACTAAGAGAAAGAAAAAATTGGTAAACAACTCTTTACTTTCTTTTTAACATGTGCCTAGAATTTTAGTATTGCTATCACATATACATAATACATGTTACTTTTACTACTATGTAGGAACAATCTCCTGCAAACAATGATGGTACACATGCTTTGAATGGAAGGAAGAGAAAGAAAAAATTGGTAAAAATATCCATACTTTCTTTTTAACGTGTGACAGAATTTCAGTACTGCTATCACATATATATATATATATATATATATATATATATATATATATATATATATAATACATGTTACTTCTACTATTATGTAGGAACAATCTCCAGCAACCCATGATGGCATACATGCTTGGAATGGAAGCCAATCTGGATATGGAAGCCATGCTTTGATGGCATCTCAAACTGAGAATGCAAGTCGACATTTACCTTTAACAGAAGCTAACAATGGAAGTCTACATGAGATTAGGATCCAAATGTCAAATGAGATTAGGATCTAA
Protein sequence

>MS.gene047210.t1

MVETTHVEHDANLHHSSPPLGTDNVNITSNPMVEGVEKLVNDIVQQGKESIVSNVPHLEMDFESEALAYEFYNEYSRKCGFGIRREYANKSKKDGVLTSRKFVCSKEGRRGVDKRDYLTKEARAETRTGCLARMVISLDRKIGNEKKDQNVDTVDLGGAKAIKSRDCLDRTKKRHPTWLEKLDKKRQKRLSQTKRKKKLEQSPANNDGTHALNGRKRKKKLEQSPATHDGIHAWNGSQSGYGSHALMASQTENASRHLPLTEANNGSLHEIRIQMSNEIRI