AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32683

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32683.t1 MTR_3g106230 85.561 187 20 3 1 187 1 180 2.37e-109 312
MS.gene32683.t1 MTR_1g013130 51.053 190 76 8 4 187 23 201 2.67e-50 163
MS.gene32683.t1 MTR_2g104900 42.458 179 79 10 12 187 20 177 9.30e-28 104
MS.gene32683.t1 MTR_4g006575 43.363 113 35 4 75 187 65 148 1.26e-19 83.2
MS.gene32683.t1 MTR_4g006600 43.363 113 35 4 75 187 65 148 1.26e-19 83.2
MS.gene32683.t1 MTR_1g033340 44.068 118 42 6 54 165 69 168 2.61e-19 82.8
MS.gene32683.t1 MTR_5g077370 50.538 93 26 3 76 167 86 159 1.68e-18 80.5
MS.gene32683.t1 MTR_3g065020 48.913 92 26 4 77 167 86 157 1.55e-17 77.8
MS.gene32683.t1 MTR_1g107055 40.206 97 36 3 71 166 57 132 6.22e-15 70.1
MS.gene32683.t1 MTR_4g128340 73.684 38 10 0 75 112 43 80 2.49e-14 67.8
MS.gene32683.t1 MTR_3g011970 42.857 98 47 5 69 166 90 178 6.63e-14 68.6
MS.gene32683.t1 MTR_8g466760 35.075 134 65 6 51 184 75 186 1.80e-12 64.7
MS.gene32683.t1 MTR_3g009410 35.398 113 52 4 74 176 95 196 2.77e-11 61.2
MS.gene32683.t1 MTR_3g011990 36.364 110 50 4 71 176 92 185 3.62e-11 60.8
MS.gene32683.t1 MTR_5g008280 36.036 111 55 4 77 187 46 140 4.21e-11 61.2
MS.gene32683.t1 MTR_7g022980 35.088 114 56 5 75 184 64 163 5.87e-11 60.1
MS.gene32683.t1 MTR_7g022960 33.613 119 59 6 71 184 80 183 5.94e-11 60.5
MS.gene32683.t1 MTR_7g086860 61.538 39 15 0 77 115 30 68 6.02e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32683.t1 AT5G25160 43.972 141 51 8 48 187 37 150 7.55e-24 94.4
MS.gene32683.t1 AT1G80730 40.876 137 72 4 37 166 20 154 1.57e-22 90.9
MS.gene32683.t1 AT5G10970 36.842 171 80 7 18 187 48 191 2.40e-21 88.6
MS.gene32683.t1 AT1G66140 46.739 92 37 3 77 161 83 169 2.40e-16 75.1
MS.gene32683.t1 AT1G24625 76.316 38 9 0 74 111 54 91 1.62e-15 72.0
MS.gene32683.t1 AT5G57520 65.909 44 15 0 75 118 48 91 6.66e-15 68.9
MS.gene32683.t1 AT5G14010 73.529 34 9 0 77 110 36 69 1.06e-12 63.2
MS.gene32683.t1 AT1G67030 49.275 69 34 1 44 112 7 74 2.36e-11 60.5
MS.gene32683.t1 AT3G58070 52.459 61 24 1 56 116 73 128 4.64e-11 60.5

Find 29 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAATTGAAAGCAATTATTA+TGG 0.251312 3.1:+84315381 MS.gene32683:CDS
TCACAACCGTTATGCAAATA+TGG 0.314680 3.1:+84315248 MS.gene32683:CDS
CCTAACGATGATTGTGATCT+TGG 0.347148 3.1:+84314958 MS.gene32683:CDS
AGCAATTATTATGGATATCA+TGG 0.375634 3.1:+84315390 MS.gene32683:CDS
ATTGCAGAATCCACATGAAT+TGG 0.376601 3.1:+84314867 MS.gene32683:CDS
AGAATTATCTATGTCTAAAC+AGG 0.387114 3.1:-84315007 None:intergenic
TTGGATGAAAATTTATGAAA+AGG 0.404264 3.1:-84315351 None:intergenic
GGAGAAACATAAAACCTTTG+AGG 0.452533 3.1:+84314888 MS.gene32683:CDS
AACCTTTGAGGAAGAAGAAA+AGG 0.455284 3.1:+84314900 MS.gene32683:CDS
AGAACGATGTTCTCAGCAAC+AGG 0.459446 3.1:+84315192 MS.gene32683:CDS
GAGTGTGCTTTAATTGCAAA+TGG 0.477563 3.1:-84315315 None:intergenic
CTAACGATGATTGTGATCTT+GGG 0.483992 3.1:+84314959 MS.gene32683:CDS
GCTTTCAATTCCAAAGCCAT+TGG 0.496119 3.1:-84315370 None:intergenic
CCAAGATCACAATCATCGTT+AGG 0.527605 3.1:-84314958 None:intergenic
GGAAGAAGAAAAGGAGGCAA+AGG 0.531006 3.1:+84314909 MS.gene32683:CDS
TTATGTTTCTCCAATTCATG+TGG 0.532950 3.1:-84314877 None:intergenic
ATGATATTTATGAAGAAATG+AGG 0.554191 3.1:-84315223 None:intergenic
GAGATGCCATATTTGCATAA+CGG 0.557005 3.1:-84315254 None:intergenic
TGCAATTAAAGCACACTCGA+TGG 0.568284 3.1:+84315320 MS.gene32683:CDS
ATTATTATGGATATCATGGA+TGG 0.583677 3.1:+84315394 MS.gene32683:CDS
AATTCATGTGGATTCTGCAA+TGG 0.589371 3.1:-84314865 None:intergenic
TTCTTCAGTTCACAAGCACT+CGG 0.590513 3.1:+84315117 MS.gene32683:CDS
TCATCAGAAAACTTCACTTG+TGG 0.611490 3.1:+84315039 MS.gene32683:CDS
AAAATGCTCACAAGAGAGAG+AGG 0.643637 3.1:+84315148 MS.gene32683:CDS
CTTTGAGGAAGAAGAAAAGG+AGG 0.655746 3.1:+84314903 MS.gene32683:CDS
ATATTTATGAAGAAATGAGG+TGG 0.662714 3.1:-84315220 None:intergenic
TTACTATTAGCACAGAAGAG+TGG 0.684083 3.1:-84315282 None:intergenic
TTCAGTTCACAAGCACTCGG+AGG 0.685652 3.1:+84315120 MS.gene32683:CDS
ACGATGTTCTCAGCAACAGG+AGG 0.689396 3.1:+84315195 MS.gene32683:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGATATTTATGAAGAAATG+AGG - chr3.1:84315226-84315245 None:intergenic 20.0%
!! TTGGATGAAAATTTATGAAA+AGG - chr3.1:84315354-84315373 None:intergenic 20.0%
!!! TTTCATAAATTTTCATCCAA+TGG + chr3.1:84315354-84315373 MS.gene32683:CDS 20.0%
! AGAATTATCTATGTCTAAAC+AGG - chr3.1:84315010-84315029 None:intergenic 25.0%
! AGCAATTATTATGGATATCA+TGG + chr3.1:84315390-84315409 MS.gene32683:CDS 25.0%
! ATATTTATGAAGAAATGAGG+TGG - chr3.1:84315223-84315242 None:intergenic 25.0%
! ATTATTATGGATATCATGGA+TGG + chr3.1:84315394-84315413 MS.gene32683:CDS 25.0%
! GGAATTGAAAGCAATTATTA+TGG + chr3.1:84315381-84315400 MS.gene32683:CDS 25.0%
TTATGTTTCTCCAATTCATG+TGG - chr3.1:84314880-84314899 None:intergenic 30.0%
! AAATTTTCATCCAATGGCTT+TGG + chr3.1:84315360-84315379 MS.gene32683:CDS 30.0%
AATTCATGTGGATTCTGCAA+TGG - chr3.1:84314868-84314887 None:intergenic 35.0%
ATTGCAGAATCCACATGAAT+TGG + chr3.1:84314867-84314886 MS.gene32683:CDS 35.0%
CTAACGATGATTGTGATCTT+GGG + chr3.1:84314959-84314978 MS.gene32683:CDS 35.0%
GAGATGCCATATTTGCATAA+CGG - chr3.1:84315257-84315276 None:intergenic 35.0%
GAGTGTGCTTTAATTGCAAA+TGG - chr3.1:84315318-84315337 None:intergenic 35.0%
GGAGAAACATAAAACCTTTG+AGG + chr3.1:84314888-84314907 MS.gene32683:CDS 35.0%
TAGTTGCAAGTGAAAAATCG+TGG - chr3.1:84315084-84315103 None:intergenic 35.0%
TCACAACCGTTATGCAAATA+TGG + chr3.1:84315248-84315267 MS.gene32683:CDS 35.0%
TCATCAGAAAACTTCACTTG+TGG + chr3.1:84315039-84315058 MS.gene32683:CDS 35.0%
TTACTATTAGCACAGAAGAG+TGG - chr3.1:84315285-84315304 None:intergenic 35.0%
! AACCTTTGAGGAAGAAGAAA+AGG + chr3.1:84314900-84314919 MS.gene32683:CDS 35.0%
AAAATGCTCACAAGAGAGAG+AGG + chr3.1:84315148-84315167 MS.gene32683:CDS 40.0%
CCAAGATCACAATCATCGTT+AGG - chr3.1:84314961-84314980 None:intergenic 40.0%
CCTAACGATGATTGTGATCT+TGG + chr3.1:84314958-84314977 MS.gene32683:CDS 40.0%
GAGAGGTCAATTGCAAAAAG+AGG + chr3.1:84315165-84315184 MS.gene32683:CDS 40.0%
GCTTTCAATTCCAAAGCCAT+TGG - chr3.1:84315373-84315392 None:intergenic 40.0%
GGTCAATTGCAAAAAGAGGA+CGG + chr3.1:84315169-84315188 MS.gene32683:CDS 40.0%
TGCAATTAAAGCACACTCGA+TGG + chr3.1:84315320-84315339 MS.gene32683:CDS 40.0%
TTCTTCAGTTCACAAGCACT+CGG + chr3.1:84315117-84315136 MS.gene32683:CDS 40.0%
! CTCCTTTTCTTCTTCCTCAA+AGG - chr3.1:84314905-84314924 None:intergenic 40.0%
! CTTTGAGGAAGAAGAAAAGG+AGG + chr3.1:84314903-84314922 MS.gene32683:CDS 40.0%
AGAACGATGTTCTCAGCAAC+AGG + chr3.1:84315192-84315211 MS.gene32683:CDS 45.0%
GGAAGAAGAAAAGGAGGCAA+AGG + chr3.1:84314909-84314928 MS.gene32683:CDS 45.0%
ACGATGTTCTCAGCAACAGG+AGG + chr3.1:84315195-84315214 MS.gene32683:CDS 50.0%
TTCAGTTCACAAGCACTCGG+AGG + chr3.1:84315120-84315139 MS.gene32683:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 84314856 84315419 84314856 ID=MS.gene32683
chr3.1 mRNA 84314856 84315419 84314856 ID=MS.gene32683.t1;Parent=MS.gene32683
chr3.1 exon 84314856 84315419 84314856 ID=MS.gene32683.t1.exon1;Parent=MS.gene32683.t1
chr3.1 CDS 84314856 84315419 84314856 ID=cds.MS.gene32683.t1;Parent=MS.gene32683.t1
Gene Sequence

>MS.gene32683

ATGGAAATACCATTGCAGAATCCACATGAATTGGAGAAACATAAAACCTTTGAGGAAGAAGAAAAGGAGGCAAAGGTAGACACTTCATTTGATCTGAATGTTCCTAACGATGATTGTGATCTTGGGTGCAGTTTAAAGTCAAATTTAGTTACCTGTTTAGACATAGATAATTCTTCTAAAACATCATCAGAAAACTTCACTTGTGGCTCTGAATCAACTTCAGAGCCACGATTTTTCACTTGCAACTACTGCAAGAGAAAATTCTTCAGTTCACAAGCACTCGGAGGACATCAAAATGCTCACAAGAGAGAGAGGTCAATTGCAAAAAGAGGACGGAGAACGATGTTCTCAGCAACAGGAGGAACCACCTCATTTCTTCATAAATATCATCTTCACAACCGTTATGCAAATATGGCATCTCTACTACCACTCTTCTGTGCTAATAGTAATAGTATGAGACCATTTGCAATTAAAGCACACTCGATGGTTCAGAAGCCTTTTCATAAATTTTCATCCAATGGCTTTGGAATTGAAAGCAATTATTATGGATATCATGGATGGTAA
Protein sequence

>MS.gene32683.t1

MEIPLQNPHELEKHKTFEEEEKEAKVDTSFDLNVPNDDCDLGCSLKSNLVTCLDIDNSSKTSSENFTCGSESTSEPRFFTCNYCKRKFFSSQALGGHQNAHKRERSIAKRGRRTMFSATGGTTSFLHKYHLHNRYANMASLLPLFCANSNSMRPFAIKAHSMVQKPFHKFSSNGFGIESNYYGYHGW