AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20711


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20711.t1 MTR_1g088850 97.727 220 5 0 1 220 1 220 6.36e-165 453
MS.gene20711.t1 MTR_3g450790 48.571 210 105 3 1 209 1 208 6.40e-69 210
MS.gene20711.t1 MTR_3g450930 45.238 210 112 3 1 209 1 208 1.19e-61 192
MS.gene20711.t1 MTR_1g088845 41.429 210 122 1 3 212 4 212 3.22e-57 181
MS.gene20711.t1 MTR_1g088840 40.000 210 125 1 3 212 4 212 2.23e-56 178
MS.gene20711.t1 MTR_1g088825 40.000 210 125 1 3 212 4 212 2.23e-56 178
MS.gene20711.t1 MTR_5g090920 43.602 211 115 4 1 209 1 209 4.26e-56 177
MS.gene20711.t1 MTR_3g064700 42.584 209 118 2 1 208 1 208 1.15e-54 174
MS.gene20711.t1 MTR_5g090910 41.981 212 117 5 1 209 1 209 1.93e-53 171
MS.gene20711.t1 MTR_1g026140 37.736 212 127 1 3 209 5 216 6.95e-51 164
MS.gene20711.t1 MTR_1g088840 40.244 164 97 1 49 212 3 165 9.12e-42 139
MS.gene20711.t1 MTR_5g090910 40.816 147 82 4 66 209 8 152 1.31e-28 105
MS.gene20711.t1 MTR_1g088840 38.596 114 70 0 99 212 3 116 9.57e-26 97.1
MS.gene20711.t1 MTR_3g058940 25.701 214 148 4 1 212 1 205 1.64e-13 68.9
MS.gene20711.t1 MTR_4g134770 25.439 228 146 5 1 219 1 213 2.82e-13 68.6
MS.gene20711.t1 MTR_1g492670 43.939 66 37 0 147 212 2 67 3.44e-13 62.8
MS.gene20711.t1 MTR_2g005570 26.442 208 134 5 11 212 13 207 2.91e-11 62.4
MS.gene20711.t1 MTR_2g005570 26.442 208 134 5 11 212 13 207 4.21e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20711.t1 AT3G62760 55.300 217 97 0 1 217 1 217 2.56e-94 275
MS.gene20711.t1 AT1G02930 42.788 208 117 1 2 209 3 208 3.53e-59 185
MS.gene20711.t1 AT1G02930 42.788 208 117 1 2 209 3 208 3.53e-59 185
MS.gene20711.t1 AT1G02920 42.308 208 119 1 2 209 3 209 4.19e-57 180
MS.gene20711.t1 AT2G30860 43.721 215 118 3 1 214 1 213 9.18e-55 174
MS.gene20711.t1 AT2G47730 41.463 205 120 0 5 209 54 258 1.08e-53 173
MS.gene20711.t1 AT2G47730 41.463 205 120 0 5 209 54 258 1.08e-53 173
MS.gene20711.t1 AT4G02520 40.476 210 121 2 2 208 3 211 2.38e-53 171
MS.gene20711.t1 AT2G02930 39.524 210 125 1 2 209 3 212 1.46e-52 169
MS.gene20711.t1 AT2G30870 43.541 209 115 3 1 208 1 207 2.41e-52 168
MS.gene20711.t1 AT1G02950 35.922 206 132 0 1 206 23 228 9.82e-50 162
MS.gene20711.t1 AT1G02950 35.922 206 132 0 1 206 23 228 9.82e-50 162
MS.gene20711.t1 AT1G02950 35.922 206 132 0 1 206 35 240 1.36e-49 162
MS.gene20711.t1 AT1G02950 36.453 203 129 0 4 206 28 230 1.64e-49 162
MS.gene20711.t1 AT1G49860 41.000 200 113 3 14 209 16 214 2.25e-48 159
MS.gene20711.t1 AT3G03190 37.143 210 130 2 1 209 1 209 2.72e-48 158
MS.gene20711.t1 AT5G17220 32.857 210 139 2 1 209 1 209 3.76e-45 150
MS.gene20711.t1 AT1G02940 35.922 206 132 0 4 209 40 245 8.94e-45 150
MS.gene20711.t1 AT1G02940 35.922 206 132 0 4 209 40 245 8.94e-45 150
MS.gene20711.t1 AT1G02940 35.922 206 132 0 4 209 65 270 1.48e-44 150
MS.gene20711.t1 AT1G02940 35.922 206 132 0 4 209 53 258 1.60e-44 150
MS.gene20711.t1 AT2G30860 40.645 155 90 2 1 155 1 153 2.14e-32 115
MS.gene20711.t1 AT1G02950 30.769 143 99 0 64 206 60 202 2.02e-26 101

Find 43 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACTGACTTGTTTGGTTCT+TGG 0.209731 1.2:-66492539 None:intergenic
ATCATGGCACTCAAGATTTA+TGG 0.277244 1.2:+66491748 None:intergenic
CTTTCAATCACTGACTTGTT+TGG 0.302853 1.2:-66492546 None:intergenic
AATAGTGAGTTGAAGATATA+TGG 0.317000 1.2:-66492668 None:intergenic
ACAAAGTATTCATAGATAAT+TGG 0.324344 1.2:-66492501 None:intergenic
TTCAGCTACATATGAGGTTA+TGG 0.327058 1.2:-66492367 None:intergenic
GATGATGATCTCACCCTCTT+TGG 0.366830 1.2:+66492000 MS.gene20711:CDS
CAATGAACGGATTCATGTTA+AGG 0.371100 1.2:+66492719 MS.gene20711:CDS
TTTGGTTCTTGGCCTTGAAA+TGG 0.372478 1.2:-66492528 None:intergenic
AAATTGGACCTGATTTGATT+AGG 0.392685 1.2:+66492400 MS.gene20711:CDS
GTTGTGGGAGGTATAACTTT+TGG 0.398771 1.2:+66492783 MS.gene20711:CDS
TACTTTGTGGCTCCATTTCA+AGG 0.400504 1.2:+66492516 MS.gene20711:CDS
CTTACGTTCTTGTTGAGAAA+AGG 0.412482 1.2:-66491880 None:intergenic
AGCACAACAAAGTACCTTGC+AGG 0.416067 1.2:+66492618 MS.gene20711:CDS
GGTGGGAAGATATATCTTCT+AGG 0.418080 1.2:+66492745 MS.gene20711:CDS
TCTTTGTTCATGCAGCCCTT+TGG 0.422040 1.2:+66491958 MS.gene20711:intron
TGACACAAAAGAAGCTTCAT+TGG 0.444080 1.2:+66492428 MS.gene20711:CDS
TAGATAATTGGTGTGACTGC+AGG 0.445936 1.2:-66492489 None:intergenic
GTACTTTGTTGTGCTTAGCT+TGG 0.454755 1.2:-66492610 None:intergenic
AATTATCTATGAATACTTTG+TGG 0.456418 1.2:+66492503 MS.gene20711:CDS
AGATCATCATCTTCAAGTAC+TGG 0.467902 1.2:-66491988 None:intergenic
GGCACTCAAGATTTATGGTC+TGG 0.469062 1.2:+66491753 MS.gene20711:CDS
TCATTGTGCCTAATCAAATC+AGG 0.483923 1.2:-66492408 None:intergenic
AACGGATTCATGTTAAGGCT+TGG 0.491423 1.2:+66492724 MS.gene20711:CDS
ACGAGTGGTGTTTGTGGACA+TGG 0.514578 1.2:-66491776 None:intergenic
CATGGCACGAGTGGTGTTTG+TGG 0.516433 1.2:-66491782 None:intergenic
GATTCATGTTAAGGCTTGGT+GGG 0.536813 1.2:+66492728 MS.gene20711:CDS
GGATTCATGTTAAGGCTTGG+TGG 0.539482 1.2:+66492727 MS.gene20711:CDS
GCACAACAAAGTACCTTGCA+GGG 0.549960 1.2:+66492619 MS.gene20711:CDS
AGATAATTGGTGTGACTGCA+GGG 0.554379 1.2:-66492488 None:intergenic
AAAAGAAAGCATACCAAAGA+GGG 0.568007 1.2:-66492013 None:intergenic
TCAGAAGCAAACACATTGAC+TGG 0.571377 1.2:-66491844 None:intergenic
ACGTTCTTGTTGAGAAAAGG+AGG 0.590052 1.2:-66491877 None:intergenic
AGTACTGGAATCAAACCAAA+GGG 0.590562 1.2:-66491973 None:intergenic
AAGCTTCATTGGTCAAAATG+TGG 0.591373 1.2:+66492439 MS.gene20711:CDS
GTGCTTCAATGATCAATGAA+CGG 0.607609 1.2:+66492706 MS.gene20711:CDS
ATTGATCATTGAAGCACAAG+GGG 0.612739 1.2:-66492700 None:intergenic
AAGTACTGGAATCAAACCAA+AGG 0.617639 1.2:-66491974 None:intergenic
TCATTGATCATTGAAGCACA+AGG 0.633784 1.2:-66492702 None:intergenic
CATTGATCATTGAAGCACAA+GGG 0.636560 1.2:-66492701 None:intergenic
CACAACAAAGTACCTTGCAG+GGG 0.682868 1.2:+66492620 MS.gene20711:CDS
TAGACATATCATGGCACGAG+TGG 0.683620 1.2:-66491791 None:intergenic
ATTGGTCAAAATGTGGACAG+AGG 0.694356 1.2:+66492446 MS.gene20711:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTTCGAATAAACTTAAA+GGG - chr1.2:66492078-66492097 None:intergenic 15.0%
!!! TATTTTTCGAATAAACTTAA+AGG - chr1.2:66492079-66492098 None:intergenic 15.0%
!! AATTATCTATGAATACTTTG+TGG + chr1.2:66492503-66492522 MS.gene20711:CDS 20.0%
!! ATATGTAGCTGAAAAATATA+AGG + chr1.2:66492377-66492396 MS.gene20711:CDS 20.0%
!! GAATTAGTAACAAAAATTAG+AGG - chr1.2:66492212-66492231 None:intergenic 20.0%
!!! ACAAAGTATTCATAGATAAT+TGG - chr1.2:66492504-66492523 None:intergenic 20.0%
! AAAAGGTTACATATCATTAC+AGG - chr1.2:66492310-66492329 None:intergenic 25.0%
! AATCAAGCAAAAATACTACT+AGG + chr1.2:66492126-66492145 MS.gene20711:intron 25.0%
! ATCATTACAGGTTCAAAAAA+TGG - chr1.2:66492298-66492317 None:intergenic 25.0%
! GCTGAAAAATATAAGGAAAT+TGG + chr1.2:66492384-66492403 MS.gene20711:CDS 25.0%
!! AATAGTGAGTTGAAGATATA+TGG - chr1.2:66492671-66492690 None:intergenic 25.0%
!! TTTTTCATGTAGACATATCA+TGG - chr1.2:66491803-66491822 None:intergenic 25.0%
!!! ATATTTTTCAGCTACATATG+AGG - chr1.2:66492376-66492395 None:intergenic 25.0%
!!! TAACCTTTTTTATGTGACTA+TGG + chr1.2:66492321-66492340 MS.gene20711:intron 25.0%
AGTCCATAGTCACATAAAAA+AGG - chr1.2:66492327-66492346 None:intergenic 30.0%
TTTCGAATAAACTTAAAGGG+TGG - chr1.2:66492075-66492094 None:intergenic 30.0%
! AAAAAGAAAGCATACCAAAG+AGG - chr1.2:66492017-66492036 None:intergenic 30.0%
! AAAAGAAAGCATACCAAAGA+GGG - chr1.2:66492016-66492035 None:intergenic 30.0%
! AAATTGGACCTGATTTGATT+AGG + chr1.2:66492400-66492419 MS.gene20711:CDS 30.0%
AAGCTTCATTGGTCAAAATG+TGG + chr1.2:66492439-66492458 MS.gene20711:CDS 35.0%
AGATCATCATCTTCAAGTAC+TGG - chr1.2:66491991-66492010 None:intergenic 35.0%
ATTGATCATTGAAGCACAAG+GGG - chr1.2:66492703-66492722 None:intergenic 35.0%
CATTGATCATTGAAGCACAA+GGG - chr1.2:66492704-66492723 None:intergenic 35.0%
CTTACGTTCTTGTTGAGAAA+AGG - chr1.2:66491883-66491902 None:intergenic 35.0%
GTGCTTCAATGATCAATGAA+CGG + chr1.2:66492706-66492725 MS.gene20711:CDS 35.0%
TCATTGATCATTGAAGCACA+AGG - chr1.2:66492705-66492724 None:intergenic 35.0%
TCATTGTGCCTAATCAAATC+AGG - chr1.2:66492411-66492430 None:intergenic 35.0%
TCTGCTTTCCAAAAAGTTGT+GGG + chr1.2:66492768-66492787 MS.gene20711:CDS 35.0%
TGACACAAAAGAAGCTTCAT+TGG + chr1.2:66492428-66492447 MS.gene20711:CDS 35.0%
TTCAGCTACATATGAGGTTA+TGG - chr1.2:66492370-66492389 None:intergenic 35.0%
! AGTACTGGAATCAAACCAAA+GGG - chr1.2:66491976-66491995 None:intergenic 35.0%
! CAATGAACGGATTCATGTTA+AGG + chr1.2:66492719-66492738 MS.gene20711:CDS 35.0%
! TTATACCTCCCACAACTTTT+TGG - chr1.2:66492779-66492798 None:intergenic 35.0%
!! AAGTACTGGAATCAAACCAA+AGG - chr1.2:66491977-66491996 None:intergenic 35.0%
!! CTTTCAATCACTGACTTGTT+TGG - chr1.2:66492549-66492568 None:intergenic 35.0%
ACGTTCTTGTTGAGAAAAGG+AGG - chr1.2:66491880-66491899 None:intergenic 40.0%
AGATAATTGGTGTGACTGCA+GGG - chr1.2:66492491-66492510 None:intergenic 40.0%
ATTGGTCAAAATGTGGACAG+AGG + chr1.2:66492446-66492465 MS.gene20711:CDS 40.0%
GACTATAAAAATCCCCTGCA+AGG - chr1.2:66492635-66492654 None:intergenic 40.0%
GGTGGGAAGATATATCTTCT+AGG + chr1.2:66492745-66492764 MS.gene20711:CDS 40.0%
GTCTGCTTTCCAAAAAGTTG+TGG + chr1.2:66492767-66492786 MS.gene20711:CDS 40.0%
TACTTTGTGGCTCCATTTCA+AGG + chr1.2:66492516-66492535 MS.gene20711:CDS 40.0%
TAGATAATTGGTGTGACTGC+AGG - chr1.2:66492492-66492511 None:intergenic 40.0%
TCAGAAGCAAACACATTGAC+TGG - chr1.2:66491847-66491866 None:intergenic 40.0%
TGACATGCATGCATGATTTG+TGG - chr1.2:66492253-66492272 None:intergenic 40.0%
! AACGGATTCATGTTAAGGCT+TGG + chr1.2:66492724-66492743 MS.gene20711:CDS 40.0%
! GATTCATGTTAAGGCTTGGT+GGG + chr1.2:66492728-66492747 MS.gene20711:CDS 40.0%
! GCATGATTTGTGGTCTAGAT+TGG - chr1.2:66492243-66492262 None:intergenic 40.0%
! GTACTTTGTTGTGCTTAGCT+TGG - chr1.2:66492613-66492632 None:intergenic 40.0%
!! GTTGTGGGAGGTATAACTTT+TGG + chr1.2:66492783-66492802 MS.gene20711:CDS 40.0%
!! TCACTGACTTGTTTGGTTCT+TGG - chr1.2:66492542-66492561 None:intergenic 40.0%
!! TTTGGTTCTTGGCCTTGAAA+TGG - chr1.2:66492531-66492550 None:intergenic 40.0%
GATGATGATCTCACCCTCTT+TGG + chr1.2:66492000-66492019 MS.gene20711:CDS 45.0%
GCTTTCCAAAAAGTTGTGGG+AGG + chr1.2:66492771-66492790 MS.gene20711:CDS 45.0%
GGATTCATGTTAAGGCTTGG+TGG + chr1.2:66492727-66492746 MS.gene20711:CDS 45.0%
GGCACTCAAGATTTATGGTC+TGG + chr1.2:66491753-66491772 MS.gene20711:CDS 45.0%
TAGACATATCATGGCACGAG+TGG - chr1.2:66491794-66491813 None:intergenic 45.0%
TCTTTGTTCATGCAGCCCTT+TGG + chr1.2:66491958-66491977 MS.gene20711:intron 45.0%
! AGCACAACAAAGTACCTTGC+AGG + chr1.2:66492618-66492637 MS.gene20711:CDS 45.0%
! CACAACAAAGTACCTTGCAG+GGG + chr1.2:66492620-66492639 MS.gene20711:CDS 45.0%
! GCACAACAAAGTACCTTGCA+GGG + chr1.2:66492619-66492638 MS.gene20711:CDS 45.0%
ACGAGTGGTGTTTGTGGACA+TGG - chr1.2:66491779-66491798 None:intergenic 50.0%
CATGGCACGAGTGGTGTTTG+TGG - chr1.2:66491785-66491804 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 66491751 66492824 66491751 ID=MS.gene20711
chr1.2 mRNA 66491751 66492824 66491751 ID=MS.gene20711.t1;Parent=MS.gene20711
chr1.2 exon 66491751 66491897 66491751 ID=MS.gene20711.t1.exon1;Parent=MS.gene20711.t1
chr1.2 CDS 66491751 66491897 66491751 ID=cds.MS.gene20711.t1;Parent=MS.gene20711.t1
chr1.2 exon 66491973 66492021 66491973 ID=MS.gene20711.t1.exon2;Parent=MS.gene20711.t1
chr1.2 CDS 66491973 66492021 66491973 ID=cds.MS.gene20711.t1;Parent=MS.gene20711.t1
chr1.2 exon 66492358 66492824 66492358 ID=MS.gene20711.t1.exon3;Parent=MS.gene20711.t1
chr1.2 CDS 66492358 66492824 66492358 ID=cds.MS.gene20711.t1;Parent=MS.gene20711.t1
Gene Sequence

>MS.gene20711

ATGGCACTCAAGATTTATGGTCTGGCCATGTCCACAAACACCACTCGTGCCATGATATGTCTACATGAAAAAGAAGTAGATTTTGAGCTTATTCCAGTCAATGTGTTTGCTTCTGAGCATAAACAGCCTCCTTTTCTCAACAAGAACGTAAGTAAAAAAAGCACTTCTAGCTAGCTTATATATCTTTTCTTAATCACATACTAATTTTCTTTGTTCATGCAGCCCTTTGGTTTGATTCCAGTACTTGAAGATGATGATCTCACCCTCTTTGGTATGCTTTCTTTTTTTCTTTTTCAGTTGTTACATTTTATTCACTCTGCACCACCCTTTAAGTTTATTCGAAAAATATACTTTGATGCTCGCTTTCATATTTATAATCAAGCAAAAATACTACTAGGAAAAAAAAATATTATGTAATTTCAGCGCGAGAAGTGACTCTGAAATTTGAGAATTTTTGTCCTCTAATTTTTGTTACTAATTCAACATTTTCCAATCTAGACCACAAATCATGCATGCATGTCAGATAATTTGATATTGTTTTGTTCCATTTTTTGAACCTGTAATGATATGTAACCTTTTTTATGTGACTATGGACTATACAAAAAAGAGTCAAGAGCCATAACCTCATATGTAGCTGAAAAATATAAGGAAATTGGACCTGATTTGATTAGGCACAATGACACAAAAGAAGCTTCATTGGTCAAAATGTGGACAGAGGTAGAGTCTCACTACTATGACCCTGCAGTCACACCAATTATCTATGAATACTTTGTGGCTCCATTTCAAGGCCAAGAACCAAACAAGTCAGTGATTGAAAGTAACATTGAGAAGCTGAAGATTGTGCTTGATGTGTATGAGACCAAGCTAAGCACAACAAAGTACCTTGCAGGGGATTTTTATAGTCTTGTTGATCTTAGCCATATATCTTCAACTCACTATTTTATGCAGACCCCTTGTGCTTCAATGATCAATGAACGGATTCATGTTAAGGCTTGGTGGGAAGATATATCTTCTAGGTCTGCTTTCCAAAAAGTTGTGGGAGGTATAACTTTTGGTCAGAGTGATCAAAAATGA

Protein sequence

>MS.gene20711.t1

MALKIYGLAMSTNTTRAMICLHEKEVDFELIPVNVFASEHKQPPFLNKNPFGLIPVLEDDDLTLFESRAITSYVAEKYKEIGPDLIRHNDTKEASLVKMWTEVESHYYDPAVTPIIYEYFVAPFQGQEPNKSVIESNIEKLKIVLDVYETKLSTTKYLAGDFYSLVDLSHISSTHYFMQTPCASMINERIHVKAWWEDISSRSAFQKVVGGITFGQSDQK