AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069079

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069079.t1 MTR_0160s0030 97.050 339 7 1 1 336 23 361 0.0 671
MS.gene069079.t1 MTR_4g100860 43.643 291 122 10 47 330 60 315 1.00e-58 192
MS.gene069079.t1 MTR_4g027440 44.784 393 118 16 1 334 24 376 8.93e-54 181
MS.gene069079.t1 MTR_4g109340 39.873 158 52 4 205 321 340 495 3.05e-25 106
MS.gene069079.t1 MTR_5g012630 36.453 203 97 6 38 237 67 240 1.75e-23 97.8
MS.gene069079.t1 MTR_1g067650 42.735 117 52 4 215 317 39 154 2.07e-21 90.1
MS.gene069079.t1 MTR_1g067640 41.270 126 59 4 215 326 38 162 2.10e-21 89.7
MS.gene069079.t1 MTR_7g100100 40.816 147 69 9 188 319 6 149 2.94e-21 89.4
MS.gene069079.t1 MTR_1g106730 37.956 137 64 6 200 316 64 199 1.29e-19 87.0
MS.gene069079.t1 MTR_4g028610 31.897 232 86 7 144 313 159 380 2.32e-19 89.0
MS.gene069079.t1 MTR_2g096540 34.694 147 70 5 178 319 4 129 1.91e-18 80.9
MS.gene069079.t1 MTR_3g102980 39.506 162 70 7 185 320 57 216 1.86e-17 80.9
MS.gene069079.t1 MTR_1g018420 33.155 187 80 7 141 312 37 193 1.56e-16 78.2
MS.gene069079.t1 MTR_1g067660 38.583 127 60 6 215 326 35 158 2.40e-16 75.9
MS.gene069079.t1 MTR_5g062300 41.176 102 40 3 214 295 118 219 6.66e-16 76.6
MS.gene069079.t1 MTR_7g023560 40.367 109 53 4 181 283 6 108 1.50e-15 74.3
MS.gene069079.t1 MTR_4g057230 33.735 166 55 4 215 327 113 276 1.79e-15 76.3
MS.gene069079.t1 MTR_1g115345 42.683 82 38 2 207 283 41 118 1.75e-13 68.9
MS.gene069079.t1 MTR_4g082980 50.820 61 22 2 261 316 393 450 2.67e-13 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069079.t1 AT3G60580 43.636 330 112 11 1 322 23 286 4.33e-59 192
MS.gene069079.t1 AT2G45120 43.373 332 134 11 1 322 23 310 1.40e-50 171
MS.gene069079.t1 AT1G02030 40.426 282 107 10 57 320 25 263 2.12e-34 127
MS.gene069079.t1 AT3G53600 39.535 129 65 4 215 333 49 174 3.62e-22 92.0
MS.gene069079.t1 AT3G19580 31.019 216 79 7 140 319 64 245 1.94e-21 92.4
MS.gene069079.t1 AT3G19580 31.019 216 79 7 140 319 64 245 1.94e-21 92.4
MS.gene069079.t1 AT2G37430 43.443 122 43 6 214 317 46 159 4.02e-19 84.0
MS.gene069079.t1 AT2G28200 34.839 155 44 6 215 317 115 264 8.85e-18 82.8
MS.gene069079.t1 AT5G61470 46.667 75 40 0 211 285 224 298 1.07e-17 82.8
MS.gene069079.t1 AT5G43170 35.333 150 51 3 142 291 45 148 2.60e-17 79.3
MS.gene069079.t1 AT4G35280 36.719 128 57 4 214 327 161 278 4.45e-17 80.5
MS.gene069079.t1 AT2G28710 38.519 135 60 7 200 319 21 147 1.25e-16 76.6
MS.gene069079.t1 AT1G49900 47.887 71 35 1 215 283 750 820 1.78e-16 80.9
MS.gene069079.t1 AT1G49900 44.000 75 36 1 215 283 193 267 7.19e-14 73.2
MS.gene069079.t1 AT5G03510 35.664 143 50 4 213 313 116 258 4.90e-16 77.8
MS.gene069079.t1 AT2G17180 38.017 121 48 3 214 317 147 257 1.66e-15 75.9
MS.gene069079.t1 AT3G49930 41.228 114 51 3 215 319 94 200 1.84e-15 74.7
MS.gene069079.t1 AT5G67450 40.217 92 30 2 215 283 97 186 2.91e-15 74.7
MS.gene069079.t1 AT1G27730 33.654 208 63 9 140 319 48 208 3.16e-15 74.3
MS.gene069079.t1 AT3G46090 41.739 115 42 6 215 310 40 148 3.59e-15 72.8
MS.gene069079.t1 AT5G59820 53.623 69 29 2 215 283 39 104 4.60e-15 72.4
MS.gene069079.t1 AT3G46080 47.368 76 28 3 215 283 37 107 1.50e-14 70.9
MS.gene069079.t1 AT1G26610 57.377 61 21 2 259 316 397 455 2.19e-14 74.3
MS.gene069079.t1 AT5G04340 41.176 85 31 2 215 283 89 170 9.18e-14 70.5
MS.gene069079.t1 AT3G46070 42.308 78 40 2 211 283 31 108 4.16e-13 67.0
MS.gene069079.t1 AT4G16610 38.462 117 57 3 43 157 52 155 1.57e-12 66.2

Find 40 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAAAGGGTCTTAATTA+TGG 0.258113 7.4:+58937166 MS.gene069079:CDS
ACGAGACGAATGCTTCTCTT+TGG 0.311235 7.4:-58937202 None:intergenic
AATTGAAATCGAAAGATCTT+TGG 0.317289 7.4:+58937591 MS.gene069079:CDS
CTAACTTCATCATCTTCAAT+TGG 0.374158 7.4:-58937976 None:intergenic
AAAAGAACACATGTGATTCA+TGG 0.392470 7.4:+58937877 MS.gene069079:CDS
AGATGATGACGTTGATGAAA+AGG 0.399134 7.4:+58937153 MS.gene069079:CDS
ACAAAATGCAACATCTTCTT+CGG 0.417782 7.4:-58937467 None:intergenic
TTCAAATCTTATCAAGCATT+GGG 0.429788 7.4:+58937709 MS.gene069079:CDS
GCATCAGAAACCGAACTAAC+AGG 0.435004 7.4:-58937439 None:intergenic
GTTCAAATCTTATCAAGCAT+TGG 0.444666 7.4:+58937708 MS.gene069079:CDS
CTTCTTGCTTTGTAACAAGA+AGG 0.459791 7.4:-58937060 None:intergenic
TGAACATGAACCTGTTAGTT+CGG 0.475159 7.4:+58937429 MS.gene069079:CDS
GATTCTTCCACCGTTATGTT+CGG 0.482402 7.4:-58937763 None:intergenic
GATGATGACGTTGATGAAAA+GGG 0.491203 7.4:+58937154 MS.gene069079:CDS
TTCAATTCGGGTCAAGCACT+TGG 0.496045 7.4:+58937847 MS.gene069079:CDS
TGCAGTTGTCGAGAGACAAA+TGG 0.497909 7.4:+58937494 MS.gene069079:CDS
TCATCATCTTCAATTGGAGC+AGG 0.500559 7.4:-58937970 None:intergenic
AAAGAAAGTTCATGAATGTC+CGG 0.501303 7.4:+58937810 MS.gene069079:CDS
TTCTATATCTTGAAGAATCA+CGG 0.508062 7.4:-58937263 None:intergenic
AATAATAATAAAGTACGTAA+AGG 0.519533 7.4:+58937655 MS.gene069079:CDS
CAACTCGGAAAAGATCCAAA+AGG 0.530550 7.4:+58937314 MS.gene069079:CDS
AATTCGGGTCAAGCACTTGG+TGG 0.534790 7.4:+58937850 MS.gene069079:CDS
AAAGGGTGTGGAAAATTCGC+GGG 0.538446 7.4:+58937332 MS.gene069079:CDS
TGATGACGACGAAGCTGAAG+AGG 0.541596 7.4:+58937558 MS.gene069079:CDS
GTCGCCAGAATTCGAAGTTG+TGG 0.547553 7.4:+58937786 MS.gene069079:CDS
AACTCGGAAAAGATCCAAAA+GGG 0.553686 7.4:+58937315 MS.gene069079:CDS
AAAGAGAAGCATTCGTCTCG+TGG 0.559474 7.4:+58937204 MS.gene069079:CDS
AAAAGGGTGTGGAAAATTCG+CGG 0.559838 7.4:+58937331 MS.gene069079:CDS
ACGGAACTTGTATCCACTTG+TGG 0.567540 7.4:-58937244 None:intergenic
GGAAAAGATCCAAAAGGGTG+TGG 0.567774 7.4:+58937320 MS.gene069079:CDS
GAAGATTAAACCGAACATAA+CGG 0.578318 7.4:+58937753 MS.gene069079:CDS
TTGAATACTCGAAAACATAC+CGG 0.586652 7.4:-58937829 None:intergenic
CATCTTCAATTGGAGCAGGA+AGG 0.589340 7.4:-58937966 None:intergenic
CATCGAAGAATAATCCAACT+CGG 0.596368 7.4:+58937299 MS.gene069079:CDS
ATAATAAAGTACGTAAAGGA+AGG 0.605908 7.4:+58937659 MS.gene069079:CDS
AAATCTTATCAAGCATTGGG+TGG 0.639931 7.4:+58937712 MS.gene069079:CDS
AGAAGAAGAATCATCGCGAA+CGG 0.649326 7.4:+58937078 MS.gene069079:CDS
TCTGATGACGATGATGAAGA+CGG 0.688378 7.4:-58937130 None:intergenic
GATTAAACCGAACATAACGG+TGG 0.692339 7.4:+58937756 MS.gene069079:CDS
AAATGAACAATATGAAGACG+TGG 0.705726 7.4:+58937525 MS.gene069079:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATAAAGTACGTAA+AGG + chr7.4:58937655-58937674 MS.gene069079:CDS 15.0%
!!! TTTTAACAAGAATGATTCTT+CGG + chr7.4:58937402-58937421 MS.gene069079:CDS 20.0%
! AATTGAAATCGAAAGATCTT+TGG + chr7.4:58937591-58937610 MS.gene069079:CDS 25.0%
! ATAATAAAGTACGTAAAGGA+AGG + chr7.4:58937659-58937678 MS.gene069079:CDS 25.0%
! TTCAAATCTTATCAAGCATT+GGG + chr7.4:58937709-58937728 MS.gene069079:CDS 25.0%
! TTCTATATCTTGAAGAATCA+CGG - chr7.4:58937266-58937285 None:intergenic 25.0%
!!! ATGTTTTCGAGTATTCAATT+CGG + chr7.4:58937834-58937853 MS.gene069079:CDS 25.0%
AAAAGAACACATGTGATTCA+TGG + chr7.4:58937877-58937896 MS.gene069079:CDS 30.0%
AAAGAAAGTTCATGAATGTC+CGG + chr7.4:58937810-58937829 MS.gene069079:CDS 30.0%
AAATGAACAATATGAAGACG+TGG + chr7.4:58937525-58937544 MS.gene069079:CDS 30.0%
ACAAAATGCAACATCTTCTT+CGG - chr7.4:58937470-58937489 None:intergenic 30.0%
CTAACTTCATCATCTTCAAT+TGG - chr7.4:58937979-58937998 None:intergenic 30.0%
GAAGATTAAACCGAACATAA+CGG + chr7.4:58937753-58937772 MS.gene069079:CDS 30.0%
GATGAAAAGGGTCTTAATTA+TGG + chr7.4:58937166-58937185 MS.gene069079:CDS 30.0%
GTTCAAATCTTATCAAGCAT+TGG + chr7.4:58937708-58937727 MS.gene069079:CDS 30.0%
TTGAATACTCGAAAACATAC+CGG - chr7.4:58937832-58937851 None:intergenic 30.0%
!! ACTCTTTTTGAGCTGAAAAT+TGG - chr7.4:58937922-58937941 None:intergenic 30.0%
!!! TGTTTTCGAGTATTCAATTC+GGG + chr7.4:58937835-58937854 MS.gene069079:CDS 30.0%
AACTCGGAAAAGATCCAAAA+GGG + chr7.4:58937315-58937334 MS.gene069079:CDS 35.0%
CATCGAAGAATAATCCAACT+CGG + chr7.4:58937299-58937318 MS.gene069079:CDS 35.0%
CTTCTTGCTTTGTAACAAGA+AGG - chr7.4:58937063-58937082 None:intergenic 35.0%
TGAACATGAACCTGTTAGTT+CGG + chr7.4:58937429-58937448 MS.gene069079:CDS 35.0%
! AGAGTTTTCTTTTCCACAAG+TGG + chr7.4:58937231-58937250 MS.gene069079:CDS 35.0%
! AGATGATGACGTTGATGAAA+AGG + chr7.4:58937153-58937172 MS.gene069079:CDS 35.0%
! GATGATGACGTTGATGAAAA+GGG + chr7.4:58937154-58937173 MS.gene069079:CDS 35.0%
! TTTTCCACAACTTCGAATTC+TGG - chr7.4:58937793-58937812 None:intergenic 35.0%
!! AAATCTTATCAAGCATTGGG+TGG + chr7.4:58937712-58937731 MS.gene069079:CDS 35.0%
AGAAGAAGAATCATCGCGAA+CGG + chr7.4:58937078-58937097 MS.gene069079:CDS 40.0%
CAACTCGGAAAAGATCCAAA+AGG + chr7.4:58937314-58937333 MS.gene069079:CDS 40.0%
GATTAAACCGAACATAACGG+TGG + chr7.4:58937756-58937775 MS.gene069079:CDS 40.0%
GATTCTTCCACCGTTATGTT+CGG - chr7.4:58937766-58937785 None:intergenic 40.0%
TCATCATCTTCAATTGGAGC+AGG - chr7.4:58937973-58937992 None:intergenic 40.0%
! AAAAGGGTGTGGAAAATTCG+CGG + chr7.4:58937331-58937350 MS.gene069079:CDS 40.0%
! CTTTTGGATCTTTTCCGAGT+TGG - chr7.4:58937316-58937335 None:intergenic 40.0%
! TCTGATGACGATGATGAAGA+CGG - chr7.4:58937133-58937152 None:intergenic 40.0%
ACGAGACGAATGCTTCTCTT+TGG - chr7.4:58937205-58937224 None:intergenic 45.0%
ACGGAACTTGTATCCACTTG+TGG - chr7.4:58937247-58937266 None:intergenic 45.0%
CATCTTCAATTGGAGCAGGA+AGG - chr7.4:58937969-58937988 None:intergenic 45.0%
GCATCAGAAACCGAACTAAC+AGG - chr7.4:58937442-58937461 None:intergenic 45.0%
GGAAAAGATCCAAAAGGGTG+TGG + chr7.4:58937320-58937339 MS.gene069079:CDS 45.0%
TGCAGTTGTCGAGAGACAAA+TGG + chr7.4:58937494-58937513 MS.gene069079:CDS 45.0%
TTCAATTCGGGTCAAGCACT+TGG + chr7.4:58937847-58937866 MS.gene069079:CDS 45.0%
! AAAGGGTGTGGAAAATTCGC+GGG + chr7.4:58937332-58937351 MS.gene069079:CDS 45.0%
! GCGAATTTTCCACACCCTTT+TGG - chr7.4:58937332-58937351 None:intergenic 45.0%
!! AAAGAGAAGCATTCGTCTCG+TGG + chr7.4:58937204-58937223 MS.gene069079:CDS 45.0%
AATTCGGGTCAAGCACTTGG+TGG + chr7.4:58937850-58937869 MS.gene069079:CDS 50.0%
GTCGCCAGAATTCGAAGTTG+TGG + chr7.4:58937786-58937805 MS.gene069079:CDS 50.0%
! TGATGACGACGAAGCTGAAG+AGG + chr7.4:58937558-58937577 MS.gene069079:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 58937040 58938050 58937040 ID=MS.gene069079
chr7.4 mRNA 58937040 58938050 58937040 ID=MS.gene069079.t1;Parent=MS.gene069079
chr7.4 exon 58937040 58938050 58937040 ID=MS.gene069079.t1.exon1;Parent=MS.gene069079.t1
chr7.4 CDS 58937040 58938050 58937040 ID=cds.MS.gene069079.t1;Parent=MS.gene069079.t1
Gene Sequence

>MS.gene069079

ATGAGATCTCATATGATGAACCTTCTTGTTACAAAGCAAGAAGAAGAATCATCGCGAACGGTTCAACTTAGTTTCGAAGCTGAATCAGCACCGTCTTCATCATCGTCATCAGAAGATGATGACGTTGATGAAAAGGGTCTTAATTATGGTCTTAGAGAGAATCCAAAGAGAAGCATTCGTCTCGTGGATCAAGAGTTTTCTTTTCCACAAGTGGATACAAGTTCCGTGATTCTTCAAGATATAGAAAGCGAAACTGAATCATCGAAGAATAATCCAACTCGGAAAAGATCCAAAAGGGTGTGGAAAATTCGCGGGTTTGAACAAAAGTATTACAATGAATCTGCTACGAAGAAAATGAAATTTTTTAACAAGAATGATTCTTCGGTTGTTGAACATGAACCTGTTAGTTCGGTTTCTGATGCAACAACCGAAGAAGATGTTGCATTTTGTCTAATGCAGTTGTCGAGAGACAAATGGAATAGACAAAATGAACAATATGAAGACGTGGAAGAAGAAGATGATGACGACGAAGCTGAAGAGGAAGAAGATGAAATTGAAATCGAAAGATCTTTGGAAGATAGTGATGAATCTCAAGAGCTAGTAAAAGTATGCAAGAATAATAATAAAGTACGTAAAGGAAGGTACAAATGTGAAACATGTAATAAAGTGTTCAAATCTTATCAAGCATTGGGTGGTCATAGAGCAAGTCACAAGAAGATTAAACCGAACATAACGGTGGAAGAATCGTCGCCAGAATTCGAAGTTGTGGAAAAGAAAGTTCATGAATGTCCGGTATGTTTTCGAGTATTCAATTCGGGTCAAGCACTTGGTGGACACAAAAGAACACATGTGATTCATGGATCATCATCAACAACAGTTCCAATTTTCAGCTCAAAAAGAGTTGCAAAAAGTGTTATAGATCTTAACCTTCCTGCTCCAATTGAAGATGATGAAGTTAGTCAAATTGAAAATTCTGCTGTTTCTGATGCAGAATTTGTCAAAACTCGTTAA
Protein sequence

>MS.gene069079.t1

MRSHMMNLLVTKQEEESSRTVQLSFEAESAPSSSSSSEDDDVDEKGLNYGLRENPKRSIRLVDQEFSFPQVDTSSVILQDIESETESSKNNPTRKRSKRVWKIRGFEQKYYNESATKKMKFFNKNDSSVVEHEPVSSVSDATTEEDVAFCLMQLSRDKWNRQNEQYEDVEEEDDDDEAEEEEDEIEIERSLEDSDESQELVKVCKNNNKVRKGRYKCETCNKVFKSYQALGGHRASHKKIKPNITVEESSPEFEVVEKKVHECPVCFRVFNSGQALGGHKRTHVIHGSSSTTVPIFSSKRVAKSVIDLNLPAPIEDDEVSQIENSAVSDAEFVKTR