AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene03035


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03035.t1 MTR_1g088845 94.393 214 12 0 1 214 1 214 1.99e-151 419
MS.gene03035.t1 MTR_1g088840 89.252 214 23 0 1 214 1 214 5.09e-144 400
MS.gene03035.t1 MTR_1g088825 89.252 214 23 0 1 214 1 214 5.09e-144 400
MS.gene03035.t1 MTR_1g088840 88.554 166 19 0 49 214 2 167 4.81e-108 307
MS.gene03035.t1 MTR_1g088840 87.288 118 15 0 97 214 1 118 4.77e-72 214
MS.gene03035.t1 MTR_3g064700 43.478 207 116 1 3 208 2 208 4.21e-57 180
MS.gene03035.t1 MTR_3g450930 42.857 210 118 2 3 211 2 210 9.91e-57 179
MS.gene03035.t1 MTR_1g088850 39.423 208 125 1 4 210 3 210 3.08e-55 175
MS.gene03035.t1 MTR_3g450790 41.429 210 121 2 3 211 2 210 4.86e-55 175
MS.gene03035.t1 MTR_1g026140 40.909 220 123 4 1 213 1 220 3.27e-54 173
MS.gene03035.t1 MTR_5g090920 41.429 210 118 4 3 209 2 209 2.12e-51 166
MS.gene03035.t1 MTR_5g090910 38.863 211 126 3 3 211 2 211 2.57e-49 160
MS.gene03035.t1 MTR_1g492670 89.706 68 7 0 147 214 2 69 4.30e-40 132
MS.gene03035.t1 MTR_5g090910 37.415 147 90 2 67 211 8 154 2.70e-28 104
MS.gene03035.t1 MTR_8g098420 27.211 147 107 0 4 150 3 149 2.70e-11 60.5
MS.gene03035.t1 MTR_8g098420 27.397 146 106 0 4 149 3 148 7.10e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03035.t1 AT1G02920 59.809 209 84 0 1 209 1 209 3.77e-86 253
MS.gene03035.t1 AT1G02930 58.852 209 85 1 1 209 1 208 1.01e-85 253
MS.gene03035.t1 AT1G02930 58.852 209 85 1 1 209 1 208 1.01e-85 253
MS.gene03035.t1 AT2G02930 58.491 212 85 1 1 209 1 212 4.23e-85 251
MS.gene03035.t1 AT4G02520 57.346 211 87 1 1 208 1 211 1.61e-84 249
MS.gene03035.t1 AT2G47730 55.610 205 90 1 6 209 54 258 1.93e-83 249
MS.gene03035.t1 AT2G47730 55.610 205 90 1 6 209 54 258 1.93e-83 249
MS.gene03035.t1 AT1G02950 51.942 206 98 1 1 205 24 229 4.60e-77 232
MS.gene03035.t1 AT1G02950 52.475 202 95 1 5 205 26 227 1.27e-76 231
MS.gene03035.t1 AT1G02950 52.475 202 95 1 5 205 26 227 1.27e-76 231
MS.gene03035.t1 AT1G02950 52.475 202 95 1 5 205 38 239 1.62e-76 231
MS.gene03035.t1 AT1G02940 46.602 206 109 1 5 209 40 245 4.17e-67 207
MS.gene03035.t1 AT1G02940 46.602 206 109 1 5 209 40 245 4.17e-67 207
MS.gene03035.t1 AT1G02940 46.602 206 109 1 5 209 53 258 6.27e-67 207
MS.gene03035.t1 AT1G02940 46.602 206 109 1 5 209 65 270 8.25e-67 207
MS.gene03035.t1 AT3G62760 45.631 206 111 1 4 208 3 208 5.39e-61 190
MS.gene03035.t1 AT1G49860 47.692 195 98 2 21 211 22 216 6.70e-57 181
MS.gene03035.t1 AT3G03190 42.381 210 120 1 3 211 2 211 7.00e-54 172
MS.gene03035.t1 AT5G17220 38.095 210 129 1 3 211 2 211 2.36e-50 163
MS.gene03035.t1 AT2G30860 37.321 209 129 2 3 210 2 209 1.18e-46 153
MS.gene03035.t1 AT2G30870 36.946 203 127 1 9 210 7 209 3.14e-45 150
MS.gene03035.t1 AT1G02950 47.887 142 73 1 65 205 60 201 7.17e-44 146
MS.gene03035.t1 AT2G30860 35.294 153 98 1 3 155 2 153 7.21e-29 106

Find 50 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAGGGATTAAGACTTTATT+TGG 0.143067 1.3:-62158965 MS.gene03035:CDS
ACTCATTATTGCCATCTTCT+TGG 0.252577 1.3:+62159048 None:intergenic
GATGGAGATTTAAAGCTCTT+TGG 0.296201 1.3:-62159321 MS.gene03035:intron
GACTTTATTTGGAATTCCTT+TGG 0.310575 1.3:-62158954 MS.gene03035:CDS
CGCATGGTGGCCGTTGAGAT+AGG 0.336998 1.3:+62159586 None:intergenic
TCAATACTTGTTTGGGAACT+AGG 0.337085 1.3:-62158983 MS.gene03035:CDS
AAGTAGCATCAATACTTGTT+TGG 0.355376 1.3:-62158991 MS.gene03035:CDS
GAGGAATGGTGAACACAAAA+AGG 0.363061 1.3:-62159506 MS.gene03035:CDS
AGTAGCATCAATACTTGTTT+GGG 0.373002 1.3:-62158990 MS.gene03035:CDS
TTCTTTATGTTGCAGCCATT+TGG 0.379956 1.3:-62159363 MS.gene03035:intron
GATCATGAGTATGCTGATAA+GGG 0.387666 1.3:-62159094 MS.gene03035:CDS
TGATCATGAGTATGCTGATA+AGG 0.403067 1.3:-62159095 MS.gene03035:CDS
CAAGACCTTATGTTAATGCT+TGG 0.407435 1.3:-62158757 MS.gene03035:CDS
AAGACCTTATGTTAATGCTT+GGG 0.420971 1.3:-62158756 MS.gene03035:CDS
AAATCTCCATCTTCAAAAGC+TGG 0.446504 1.3:+62159333 None:intergenic
ATGATCTTAATTAGGTATCA+TGG 0.448138 1.3:+62158691 None:intergenic
GCTTACATTGATTGATATGA+AGG 0.465911 1.3:+62159480 None:intergenic
ATGCTACTTTATCGTAGTGT+AGG 0.467657 1.3:+62159005 None:intergenic
CAATACTTGTTTGGGAACTA+GGG 0.472992 1.3:-62158982 MS.gene03035:CDS
AAAGCTGGAACTTGACCAAA+TGG 0.480424 1.3:+62159348 None:intergenic
TCCTTTGGATTCAAAAGTTG+TGG 0.481662 1.3:-62158939 MS.gene03035:CDS
ATCAAGAATGCTATCCAACT+TGG 0.507885 1.3:+62158904 None:intergenic
AATGAGTGTGTGGTCGGAAG+TGG 0.508607 1.3:-62159032 MS.gene03035:CDS
AGGTGAGTGTTTCACCTTGG+TGG 0.510447 1.3:-62158843 MS.gene03035:CDS
GCATGGTGGCCGTTGAGATA+GGG 0.515923 1.3:+62159587 None:intergenic
TCAACCCAAGCATTAACATA+AGG 0.524477 1.3:+62158752 None:intergenic
ATTGTCTGAATCTAAATACA+TGG 0.527540 1.3:-62158867 MS.gene03035:CDS
TATCTCAACGGCCACCATGC+GGG 0.531171 1.3:-62159584 MS.gene03035:CDS
GGAAGAGAATGAAGCCAAGT+TGG 0.538389 1.3:-62158918 MS.gene03035:CDS
AAAATTGAAATGCAGAGTCA+AGG 0.547213 1.3:-62159135 MS.gene03035:intron
AAATTGAAATGCAGAGTCAA+GGG 0.557402 1.3:-62159134 MS.gene03035:intron
TTCATCAAGTAGTGAAGAGA+AGG 0.557567 1.3:+62158806 None:intergenic
GTAAGCATTAACATGAGGAA+TGG 0.557734 1.3:-62159520 MS.gene03035:CDS
AAGCAGTGACTCCAAGAAGA+TGG 0.558112 1.3:-62159059 MS.gene03035:CDS
GCAAGTACTTTAGACCAAGC+TGG 0.578209 1.3:+62158713 None:intergenic
CTTACATTGATTGATATGAA+GGG 0.578372 1.3:+62159481 None:intergenic
GGCAATAATGAGTGTGTGGT+CGG 0.583453 1.3:-62159038 MS.gene03035:CDS
ATATCACTGCAAGACCAGCT+TGG 0.601324 1.3:-62158727 MS.gene03035:CDS
ATCATGAGTATGCTGATAAG+GGG 0.611479 1.3:-62159093 MS.gene03035:CDS
GCACGGAAGCCCTATCTCAA+CGG 0.620985 1.3:-62159596 MS.gene03035:CDS
CTATCTCAACGGCCACCATG+CGG 0.624610 1.3:-62159585 MS.gene03035:CDS
AGTTTGTAAGCATTAACATG+AGG 0.629431 1.3:-62159525 MS.gene03035:CDS
GGGAGGTGAGTGTTTCACCT+TGG 0.632509 1.3:-62158846 MS.gene03035:CDS
ATGGCAACAATAAAAGTGCA+CGG 0.649349 1.3:-62159613 MS.gene03035:CDS
TTGTCTGAATCTAAATACAT+GGG 0.650116 1.3:-62158866 MS.gene03035:CDS
CAGAGTTGCAGTAACCCGCA+TGG 0.653094 1.3:+62159570 None:intergenic
TCTGAATCTAAATACATGGG+AGG 0.678031 1.3:-62158863 MS.gene03035:CDS
AGTTGCAGTAACCCGCATGG+TGG 0.707787 1.3:+62159573 None:intergenic
TAAATGATGCAAATCCACCA+AGG 0.710594 1.3:+62158829 None:intergenic
AGATGGCAATAATGAGTGTG+TGG 0.714038 1.3:-62159042 MS.gene03035:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTGTCTGAATCTAAATACA+TGG - chr1.3:62159443-62159462 MS.gene03035:intron 25.0%
! TTGTCTGAATCTAAATACAT+GGG - chr1.3:62159444-62159463 MS.gene03035:intron 25.0%
!! ATCAATTAGTTTGATCAATG+TGG + chr1.3:62158924-62158943 None:intergenic 25.0%
!! CTTACATTGATTGATATGAA+GGG + chr1.3:62158832-62158851 None:intergenic 25.0%
AAAATTGAAATGCAGAGTCA+AGG - chr1.3:62159175-62159194 MS.gene03035:intron 30.0%
AAATTGAAATGCAGAGTCAA+GGG - chr1.3:62159176-62159195 MS.gene03035:intron 30.0%
AAGACCTTATGTTAATGCTT+GGG - chr1.3:62159554-62159573 MS.gene03035:CDS 30.0%
AAGTAGCATCAATACTTGTT+TGG - chr1.3:62159319-62159338 MS.gene03035:intron 30.0%
AGTAGCATCAATACTTGTTT+GGG - chr1.3:62159320-62159339 MS.gene03035:intron 30.0%
AGTTTGTAAGCATTAACATG+AGG - chr1.3:62158785-62158804 MS.gene03035:CDS 30.0%
CTAGGGATTAAGACTTTATT+TGG - chr1.3:62159345-62159364 MS.gene03035:CDS 30.0%
! ATTAGTTTGATCAATGTGGT+TGG + chr1.3:62158920-62158939 None:intergenic 30.0%
! GACTTTATTTGGAATTCCTT+TGG - chr1.3:62159356-62159375 MS.gene03035:intron 30.0%
! GCTTACATTGATTGATATGA+AGG + chr1.3:62158833-62158852 None:intergenic 30.0%
AAATCTCCATCTTCAAAAGC+TGG + chr1.3:62158980-62158999 None:intergenic 35.0%
ACTCATTATTGCCATCTTCT+TGG + chr1.3:62159265-62159284 None:intergenic 35.0%
ATCAAGAATGCTATCCAACT+TGG + chr1.3:62159409-62159428 None:intergenic 35.0%
ATCATGAGTATGCTGATAAG+GGG - chr1.3:62159217-62159236 MS.gene03035:intron 35.0%
CAAGACCTTATGTTAATGCT+TGG - chr1.3:62159553-62159572 MS.gene03035:CDS 35.0%
CAATACTTGTTTGGGAACTA+GGG - chr1.3:62159328-62159347 MS.gene03035:CDS 35.0%
GATCATGAGTATGCTGATAA+GGG - chr1.3:62159216-62159235 MS.gene03035:intron 35.0%
GTAAGCATTAACATGAGGAA+TGG - chr1.3:62158790-62158809 MS.gene03035:CDS 35.0%
TAAATGATGCAAATCCACCA+AGG + chr1.3:62159484-62159503 None:intergenic 35.0%
TCAACCCAAGCATTAACATA+AGG + chr1.3:62159561-62159580 None:intergenic 35.0%
TCAATACTTGTTTGGGAACT+AGG - chr1.3:62159327-62159346 MS.gene03035:CDS 35.0%
TCCTTTGGATTCAAAAGTTG+TGG - chr1.3:62159371-62159390 MS.gene03035:intron 35.0%
TCTGAATCTAAATACATGGG+AGG - chr1.3:62159447-62159466 MS.gene03035:intron 35.0%
TGATCATGAGTATGCTGATA+AGG - chr1.3:62159215-62159234 MS.gene03035:intron 35.0%
TTCATCAAGTAGTGAAGAGA+AGG + chr1.3:62159507-62159526 None:intergenic 35.0%
TTCTTTATGTTGCAGCCATT+TGG - chr1.3:62158947-62158966 MS.gene03035:CDS 35.0%
! ATGGCAACAATAAAAGTGCA+CGG - chr1.3:62158697-62158716 MS.gene03035:CDS 35.0%
! GATGGAGATTTAAAGCTCTT+TGG - chr1.3:62158989-62159008 MS.gene03035:CDS 35.0%
! TCCACAACTTTTGAATCCAA+AGG + chr1.3:62159375-62159394 None:intergenic 35.0%
!! ATGCTACTTTATCGTAGTGT+AGG + chr1.3:62159308-62159327 None:intergenic 35.0%
AAAGCTGGAACTTGACCAAA+TGG + chr1.3:62158965-62158984 None:intergenic 40.0%
AGATGGCAATAATGAGTGTG+TGG - chr1.3:62159268-62159287 MS.gene03035:intron 40.0%
GAGGAATGGTGAACACAAAA+AGG - chr1.3:62158804-62158823 MS.gene03035:CDS 40.0%
TCAATGTGGTTGGAACAAGA+AGG + chr1.3:62158910-62158929 None:intergenic 40.0%
!! CAAGTTCCAGCTTTTGAAGA+TGG - chr1.3:62158971-62158990 MS.gene03035:CDS 40.0%
AAGCAGTGACTCCAAGAAGA+TGG - chr1.3:62159251-62159270 MS.gene03035:intron 45.0%
ATATCACTGCAAGACCAGCT+TGG - chr1.3:62159583-62159602 MS.gene03035:CDS 45.0%
GACACGATATCAAACACACG+TGG - chr1.3:62159073-62159092 MS.gene03035:CDS 45.0%
GCAAGTACTTTAGACCAAGC+TGG + chr1.3:62159600-62159619 None:intergenic 45.0%
GGAAGAGAATGAAGCCAAGT+TGG - chr1.3:62159392-62159411 MS.gene03035:intron 45.0%
GGCAATAATGAGTGTGTGGT+CGG - chr1.3:62159272-62159291 MS.gene03035:intron 45.0%
AATGAGTGTGTGGTCGGAAG+TGG - chr1.3:62159278-62159297 MS.gene03035:intron 50.0%
AGGTGAGTGTTTCACCTTGG+TGG - chr1.3:62159467-62159486 MS.gene03035:intron 50.0%
AGTTGCAGTAACCCGCATGG+TGG + chr1.3:62158740-62158759 None:intergenic 55.0%
CAGAGTTGCAGTAACCCGCA+TGG + chr1.3:62158743-62158762 None:intergenic 55.0%
CTATCTCAACGGCCACCATG+CGG - chr1.3:62158725-62158744 MS.gene03035:CDS 55.0%
GCACGGAAGCCCTATCTCAA+CGG - chr1.3:62158714-62158733 MS.gene03035:CDS 55.0%
GCATGGTGGCCGTTGAGATA+GGG + chr1.3:62158726-62158745 None:intergenic 55.0%
GGGAGGTGAGTGTTTCACCT+TGG - chr1.3:62159464-62159483 MS.gene03035:intron 55.0%
TATCTCAACGGCCACCATGC+GGG - chr1.3:62158726-62158745 MS.gene03035:CDS 55.0%
CGCATGGTGGCCGTTGAGAT+AGG + chr1.3:62158727-62158746 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 62158697 62159635 62158697 ID=MS.gene03035
chr1.3 mRNA 62158697 62159635 62158697 ID=MS.gene03035.t1;Parent=MS.gene03035
chr1.3 exon 62159486 62159635 62159486 ID=MS.gene03035.t1.exon1;Parent=MS.gene03035.t1
chr1.3 CDS 62159486 62159635 62159486 ID=cds.MS.gene03035.t1;Parent=MS.gene03035.t1
chr1.3 exon 62159322 62159370 62159322 ID=MS.gene03035.t1.exon2;Parent=MS.gene03035.t1
chr1.3 CDS 62159322 62159370 62159322 ID=cds.MS.gene03035.t1;Parent=MS.gene03035.t1
chr1.3 exon 62158697 62159142 62158697 ID=MS.gene03035.t1.exon3;Parent=MS.gene03035.t1
chr1.3 CDS 62158697 62159142 62158697 ID=cds.MS.gene03035.t1;Parent=MS.gene03035.t1
Gene Sequence

>MS.gene03035

ATGGCAACAATAAAAGTGCACGGAAGCCCTATCTCAACGGCCACCATGCGGGTTACTGCAACTCTGTATGAGAAAGAGCTTGAATTTGAGTTTGTAAGCATTAACATGAGGAATGGTGAACACAAAAAGGAACCCTTCATATCAATCAATGTAAGCAACATAACAAAAATATCATTCTGCTAGTTTATTTTAATTATGAATTGAAATTTTCCTTCTTGTTCCAACCACATTGATCAAACTAATTGATTAATTCTTTATGTTGCAGCCATTTGGTCAAGTTCCAGCTTTTGAAGATGGAGATTTAAAGCTCTTTGGTAAAATTTAATATGATATATGTAGCACATGACACTTTAGATTAAAAACGTATTTGATGTCTGACACGATATCAAACACACGTGGTTATATTCAATTATTTTTATTTGATGTCTAGTATTTGTGCGAGTGCTTCATAGAATTTGTTGTATATATAAACTAATTAAAAATTGAAATGCAGAGTCAAGGGCGATAACACAATATATTGATCATGAGTATGCTGATAAGGGGACTAAGTTAACAAGCAGTGACTCCAAGAAGATGGCAATAATGAGTGTGTGGTCGGAAGTGGAAAGCCTACACTACGATAAAGTAGCATCAATACTTGTTTGGGAACTAGGGATTAAGACTTTATTTGGAATTCCTTTGGATTCAAAAGTTGTGGAAGAGAATGAAGCCAAGTTGGATAGCATTCTTGATATGTATGAGAAAAGATTGTCTGAATCTAAATACATGGGAGGTGAGTGTTTCACCTTGGTGGATTTGCATCATTTACCTTCTCTTCACTACTTGATGAAGTCACAGAGCAAGAAATTGTTTGAATCAAGACCTTATGTTAATGCTTGGGTTGATGATATCACTGCAAGACCAGCTTGGTCTAAAGTACTTGCCATGATACCTAATTAA

Protein sequence

>MS.gene03035.t1

MATIKVHGSPISTATMRVTATLYEKELEFEFVSINMRNGEHKKEPFISINPFGQVPAFEDGDLKLFESRAITQYIDHEYADKGTKLTSSDSKKMAIMSVWSEVESLHYDKVASILVWELGIKTLFGIPLDSKVVEENEAKLDSILDMYEKRLSESKYMGGECFTLVDLHHLPSLHYLMKSQSKKLFESRPYVNAWVDDITARPAWSKVLAMIPN