AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene022030

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022030.t1 MTR_7g017880 98.773 163 2 0 1 163 29 191 7.99e-117 328
MS.gene022030.t1 MTR_6g016375 73.050 141 34 3 13 149 41 181 1.94e-58 181
MS.gene022030.t1 MTR_7g029400 64.925 134 42 4 32 162 57 188 5.25e-49 157
MS.gene022030.t1 MTR_8g015250 62.774 137 45 5 29 162 44 177 1.17e-45 147
MS.gene022030.t1 MTR_4g070860 52.326 86 38 2 42 127 16 98 1.42e-17 75.5
MS.gene022030.t1 MTR_1g022495 44.330 97 54 0 33 129 4 100 6.05e-17 73.9
MS.gene022030.t1 MTR_3g117120 50.000 80 40 0 48 127 19 98 1.78e-16 72.4
MS.gene022030.t1 MTR_4g097440 35.256 156 83 4 9 146 7 162 1.41e-15 70.5
MS.gene022030.t1 MTR_1g087040 37.405 131 70 4 34 158 7 131 8.88e-14 65.1
MS.gene022030.t1 MTR_5g015090 37.705 122 71 2 28 144 25 146 2.17e-12 61.6
MS.gene022030.t1 MTR_8g086020 32.292 96 65 0 32 127 8 103 7.15e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022030.t1 AT3G30530 64.341 129 35 4 23 141 38 165 3.72e-48 154
MS.gene022030.t1 AT5G38800 57.042 142 56 3 11 148 20 160 1.76e-43 142
MS.gene022030.t1 AT2G04038 64.583 96 34 0 39 134 54 149 1.55e-36 124
MS.gene022030.t1 AT5G15830 61.616 99 38 0 37 135 52 150 3.95e-35 121
MS.gene022030.t1 AT1G13600 59.184 98 39 1 40 137 68 164 3.51e-34 119
MS.gene022030.t1 AT1G68880 42.308 130 64 3 14 137 1 125 6.31e-25 94.0
MS.gene022030.t1 AT5G60830 51.724 87 41 1 51 136 62 148 5.73e-19 80.1
MS.gene022030.t1 AT2G18160 50.000 72 36 0 56 127 28 99 1.70e-15 70.1
MS.gene022030.t1 AT3G62420 44.304 79 44 0 49 127 15 93 2.13e-15 69.3
MS.gene022030.t1 AT1G75390 46.316 95 50 1 33 127 16 109 2.93e-15 69.7
MS.gene022030.t1 AT1G75390 39.815 108 62 1 24 128 3 110 1.25e-14 67.0
MS.gene022030.t1 AT4G34590 45.946 74 40 0 54 127 22 95 1.88e-12 62.0

Find 31 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATAGTTGGTTGGAGAGTTT+TGG 0.282356 7.1:+79391866 None:intergenic
GAAGAATCAGATTTAACATT+TGG 0.320345 7.1:+79391437 None:intergenic
AGCTTTGGTCACAGGTGGTT+TGG 0.340519 7.1:-79391649 MS.gene022030:CDS
AAACTCTCCAACCAACTATA+TGG 0.354645 7.1:-79391863 MS.gene022030:CDS
CTTTCAGTTGAACATTCTCT+TGG 0.355665 7.1:+79391558 None:intergenic
GAGGTGTTTGGATGGTGTTT+TGG 0.378558 7.1:+79391894 None:intergenic
AAGTCTTGGAGGATTTGAAA+AGG 0.435873 7.1:+79391827 None:intergenic
GCTTGATGAGCTTTGGTCAC+AGG 0.439356 7.1:-79391657 MS.gene022030:CDS
TTTGATTAAAACCATATAGT+TGG 0.439584 7.1:+79391852 None:intergenic
ACATTTGGTGAAGTGATACT+AGG 0.443961 7.1:+79391452 None:intergenic
AGCTTCAGAACTTCGACAAA+TGG 0.463372 7.1:-79391531 MS.gene022030:CDS
TGGATGTTGAGGTGTTTGGA+TGG 0.476729 7.1:+79391886 None:intergenic
TTTGTTTCCTCATTCGTGAC+CGG 0.488943 7.1:+79391684 None:intergenic
GGTCACAGGTGGTTTGGCTA+AGG 0.490458 7.1:-79391643 MS.gene022030:CDS
AGGATGGAGGACTGAAGTCT+TGG 0.496834 7.1:+79391813 None:intergenic
GTGACCGGCGTGCTGACTCT+CGG 0.498415 7.1:+79391699 None:intergenic
ATGGAGGACTGAAGTCTTGG+AGG 0.500414 7.1:+79391816 None:intergenic
AGTCTTGGAGGATTTGAAAA+GGG 0.502731 7.1:+79391828 None:intergenic
ATTAAAACCATATAGTTGGT+TGG 0.504719 7.1:+79391856 None:intergenic
CGAAAGAAAACATCGAAGAA+TGG 0.528388 7.1:-79391729 MS.gene022030:CDS
TGATGAGCTTTGGTCACAGG+TGG 0.534117 7.1:-79391654 MS.gene022030:CDS
CAGCACGCCGGTCACGAATG+AGG 0.563223 7.1:-79391691 MS.gene022030:CDS
TTCTTTCGTTGATTAGACCT+AGG 0.573011 7.1:+79391744 None:intergenic
ACATCTTCAAGAGGACTCAA+AGG 0.584334 7.1:+79391476 None:intergenic
TTGCTGCTTATGCATGAGGA+TGG 0.607001 7.1:+79391797 None:intergenic
CAACTCAACTTCCGACGAAG+CGG 0.609407 7.1:-79391777 MS.gene022030:CDS
ATACTAGGAACATCTTCAAG+AGG 0.631208 7.1:+79391467 None:intergenic
CTGCTTATGCATGAGGATGG+AGG 0.633472 7.1:+79391800 None:intergenic
TGAGTTGCTGCTTATGCATG+AGG 0.648721 7.1:+79391793 None:intergenic
GAAGCGGACGAACAAAACCT+AGG 0.674445 7.1:-79391761 MS.gene022030:CDS
CGAACCGAGAGTCAGCACGC+CGG 0.752861 7.1:-79391703 MS.gene022030:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTGATTAAAACCATATAGT+TGG + chr7.1:79391480-79391499 None:intergenic 20.0%
! ATTAAAACCATATAGTTGGT+TGG + chr7.1:79391476-79391495 None:intergenic 25.0%
! GAAGAATCAGATTTAACATT+TGG + chr7.1:79391895-79391914 None:intergenic 25.0%
AAAAACAGCTTGATGAGCTT+TGG - chr7.1:79391665-79391684 MS.gene022030:CDS 35.0%
AAACTCTCCAACCAACTATA+TGG - chr7.1:79391466-79391485 MS.gene022030:CDS 35.0%
AAGTCTTGGAGGATTTGAAA+AGG + chr7.1:79391505-79391524 None:intergenic 35.0%
AGTCTTGGAGGATTTGAAAA+GGG + chr7.1:79391504-79391523 None:intergenic 35.0%
ATACTAGGAACATCTTCAAG+AGG + chr7.1:79391865-79391884 None:intergenic 35.0%
CGAAAGAAAACATCGAAGAA+TGG - chr7.1:79391600-79391619 MS.gene022030:CDS 35.0%
CTTTCAGTTGAACATTCTCT+TGG + chr7.1:79391774-79391793 None:intergenic 35.0%
! ACATTTGGTGAAGTGATACT+AGG + chr7.1:79391880-79391899 None:intergenic 35.0%
! TATAGTTGGTTGGAGAGTTT+TGG + chr7.1:79391466-79391485 None:intergenic 35.0%
! TTCTTTCGTTGATTAGACCT+AGG + chr7.1:79391588-79391607 None:intergenic 35.0%
ACATCTTCAAGAGGACTCAA+AGG + chr7.1:79391856-79391875 None:intergenic 40.0%
AGCTTCAGAACTTCGACAAA+TGG - chr7.1:79391798-79391817 MS.gene022030:CDS 40.0%
TTTGTTTCCTCATTCGTGAC+CGG + chr7.1:79391648-79391667 None:intergenic 40.0%
!! GTTTTGGATGTTGAGGTGTT+TGG + chr7.1:79391450-79391469 None:intergenic 40.0%
!!! TTGGAGAGTTTTGGATGTTG+AGG + chr7.1:79391457-79391476 None:intergenic 40.0%
! TGAGTTGCTGCTTATGCATG+AGG + chr7.1:79391539-79391558 None:intergenic 45.0%
! TGGATGTTGAGGTGTTTGGA+TGG + chr7.1:79391446-79391465 None:intergenic 45.0%
! TTGCTGCTTATGCATGAGGA+TGG + chr7.1:79391535-79391554 None:intergenic 45.0%
!! GAGGTGTTTGGATGGTGTTT+TGG + chr7.1:79391438-79391457 None:intergenic 45.0%
AGGATGGAGGACTGAAGTCT+TGG + chr7.1:79391519-79391538 None:intergenic 50.0%
ATGGAGGACTGAAGTCTTGG+AGG + chr7.1:79391516-79391535 None:intergenic 50.0%
CAACTCAACTTCCGACGAAG+CGG - chr7.1:79391552-79391571 MS.gene022030:CDS 50.0%
CTGCTTATGCATGAGGATGG+AGG + chr7.1:79391532-79391551 None:intergenic 50.0%
GAAGCGGACGAACAAAACCT+AGG - chr7.1:79391568-79391587 MS.gene022030:CDS 50.0%
! AGCTTTGGTCACAGGTGGTT+TGG - chr7.1:79391680-79391699 MS.gene022030:CDS 50.0%
! GCTTGATGAGCTTTGGTCAC+AGG - chr7.1:79391672-79391691 MS.gene022030:CDS 50.0%
! TGATGAGCTTTGGTCACAGG+TGG - chr7.1:79391675-79391694 MS.gene022030:CDS 50.0%
!! GTTTTGTTCGTCCGCTTCGT+CGG + chr7.1:79391566-79391585 None:intergenic 50.0%
! GGTCACAGGTGGTTTGGCTA+AGG - chr7.1:79391686-79391705 MS.gene022030:CDS 55.0%
CAGCACGCCGGTCACGAATG+AGG - chr7.1:79391638-79391657 MS.gene022030:CDS 65.0%
CGAACCGAGAGTCAGCACGC+CGG - chr7.1:79391626-79391645 MS.gene022030:CDS 65.0%
!! GTGACCGGCGTGCTGACTCT+CGG + chr7.1:79391633-79391652 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 79391430 79391921 79391430 ID=MS.gene022030
chr7.1 mRNA 79391430 79391921 79391430 ID=MS.gene022030.t1;Parent=MS.gene022030
chr7.1 exon 79391430 79391921 79391430 ID=MS.gene022030.t1.exon1;Parent=MS.gene022030.t1
chr7.1 CDS 79391430 79391921 79391430 ID=cds.MS.gene022030.t1;Parent=MS.gene022030.t1
Gene Sequence

>MS.gene022030

ATGATCCAAAACACCATCCAAACACCTCAACATCCAAAACTCTCCAACCAACTATATGGTTTTAATCAAAACCCTTTTCAAATCCTCCAAGACTTCAGTCCTCCATCCTCATGCATAAGCAGCAACTCAACTTCCGACGAAGCGGACGAACAAAACCTAGGTCTAATCAACGAAAGAAAACATCGAAGAATGGTATCGAACCGAGAGTCAGCACGCCGGTCACGAATGAGGAAACAAAAACAGCTTGATGAGCTTTGGTCACAGGTGGTTTGGCTAAGGAATGAGAATCATCAATTACTAGATAAGCTCAACAATTTCTGTGAGACTCATGATAAAGTTGTCCAAGAGAATGTTCAACTGAAAGAACAAGCTTCAGAACTTCGACAAATGGTGTGTGATATGCAGTTACATAGTTCTTGTCTTCCTTTGAGTCCTCTTGAAGATGTTCCTAGTATCACTTCACCAAATGTTAAATCTGATTCTTCAAACTAA
Protein sequence

>MS.gene022030.t1

MIQNTIQTPQHPKLSNQLYGFNQNPFQILQDFSPPSSCISSNSTSDEADEQNLGLINERKHRRMVSNRESARRSRMRKQKQLDELWSQVVWLRNENHQLLDKLNNFCETHDKVVQENVQLKEQASELRQMVCDMQLHSSCLPLSPLEDVPSITSPNVKSDSSN