AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85098


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85098.t1 MTR_3g034640 66.282 433 42 1 1 329 33 465 0.0 511
MS.gene85098.t1 MTR_3g034640 69.281 306 94 0 25 330 187 492 3.78e-139 403
MS.gene85098.t1 MTR_3g034640 62.147 177 67 0 155 331 57 233 2.75e-55 187
MS.gene85098.t1 MTR_3g034610 68.254 378 71 2 1 329 1 378 6.56e-167 471
MS.gene85098.t1 MTR_3g034610 68.452 168 53 0 163 330 56 223 1.03e-68 220
MS.gene85098.t1 MTR_3g116430 71.687 332 83 4 1 330 33 355 3.52e-153 437
MS.gene85098.t1 MTR_3g116430 53.684 95 44 0 25 119 336 430 9.77e-23 98.6
MS.gene85098.t1 MTR_3g116440 57.910 335 124 4 1 328 33 357 3.93e-116 340
MS.gene85098.t1 MTR_3g107810 48.844 346 161 1 1 330 33 378 2.96e-108 324
MS.gene85098.t1 MTR_3g107810 49.832 297 149 0 32 328 132 428 4.77e-96 293
MS.gene85098.t1 MTR_3g107810 46.667 300 160 0 32 331 158 457 5.93e-90 277
MS.gene85098.t1 MTR_3g107810 45.791 297 157 1 32 328 184 476 5.68e-82 256
MS.gene85098.t1 MTR_4g069810 34.072 361 189 17 1 328 34 378 3.46e-42 150
MS.gene85098.t1 MTR_4g069810 39.744 156 90 4 175 329 77 229 1.11e-20 92.0
MS.gene85098.t1 MTR_4g069810 35.260 173 98 10 32 200 218 380 1.68e-15 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 74 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGCCCAACATTTCGGCTTA+TGG 0.203861 3.4:+26135930 MS.gene85098:CDS
TTCTCCATAAGCTGAAATAT+TGG 0.263465 3.4:-26135778 None:intergenic
CGACCCAACATTTCAGCTTA+TGG 0.265141 3.4:+26135618 MS.gene85098:CDS
AGACCCAATATTTCAGCTTA+TGG 0.267378 3.4:+26135774 MS.gene85098:CDS
AGACCCAATATTTCAGCTTA+TGG 0.267378 3.4:+26136320 MS.gene85098:CDS
TTCTCCATAAGCTGAAATAT+TGG 0.274479 3.4:-26136324 None:intergenic
AGACCCAACATTTCAGCTTA+TGG 0.288132 3.4:+26135540 MS.gene85098:CDS
AGACCAAACATTTCAGCTTA+TGG 0.288132 3.4:+26136008 MS.gene85098:CDS
GGGTCTTGGTTCAAAATCTT+TGG 0.293050 3.4:-26136303 None:intergenic
AGACCAAACATTTCAGCTTA+TGG 0.296326 3.4:+26136242 MS.gene85098:CDS
GCACTAACACCAAGGAAAAT+AGG 0.310048 3.4:+26135493 MS.gene85098:CDS
TCTTGGTTCAAAATCTTTGA+TGG 0.333210 3.4:-26136066 None:intergenic
TCTCCATAAGCTGAAATATT+GGG 0.337654 3.4:-26135777 None:intergenic
TAAACCACGGCCCAACATTT+CGG 0.351056 3.4:+26135923 MS.gene85098:CDS
TCTCCATAAGCTGAAATATT+GGG 0.366671 3.4:-26136323 None:intergenic
TCTCCGTAAGCTGAAATATT+AGG 0.367030 3.4:-26135699 None:intergenic
AGGAGTCCTTGAATTTCTTC+CGG 0.394452 3.4:-26135375 None:intergenic
TCTCCATATGTTGAAATGTT+GGG 0.402106 3.4:-26136089 None:intergenic
AGACAATGACATTGAAGTTA+AGG 0.407426 3.4:+26135563 MS.gene85098:CDS
TCTTGGTTCAAAATCCTTAG+TGG 0.409004 3.4:-26135988 None:intergenic
TCTTGATTCAAAATCTGAAA+TGG 0.409767 3.4:-26136222 None:intergenic
TATACTGAAATATTAGGTCT+TGG 0.411757 3.4:-26135459 None:intergenic
CTCTCTAAACGCCTTCTCTT+GGG 0.415136 3.4:-26135427 None:intergenic
AGACAATGTCATAGATGTTA+AGG 0.416032 3.4:+26135641 MS.gene85098:CDS
TAAGTTGAAATGTTGGGTCT+TGG 0.419876 3.4:-26136161 None:intergenic
TCTCCATAAGCTGAAATGTT+TGG 0.419967 3.4:-26136011 None:intergenic
TAAGCTGAAATGTTTGGTCT+TGG 0.428249 3.4:-26136005 None:intergenic
TATGTTGAAATGTTGGGTCT+TGG 0.434060 3.4:-26136083 None:intergenic
GAATTTCTTCCGGTATGTCT+TGG 0.435144 3.4:-26135365 None:intergenic
AGACCCAACATTTCAACATA+TGG 0.440354 3.4:+26136086 MS.gene85098:CDS
CCTCTCTAAACGCCTTCTCT+TGG 0.447209 3.4:-26135428 None:intergenic
TTCTCCATATGTTGAAATGT+TGG 0.450196 3.4:-26136090 None:intergenic
TTGCCATAAGCTGAAATGTT+TGG 0.452597 3.4:-26136245 None:intergenic
TAAGCTGAAATGTTGGGTCT+TGG 0.452926 3.4:-26135849 None:intergenic
TAAGCTGAAATATTGGGTCT+TGG 0.456037 3.4:-26135771 None:intergenic
TAAGCTGAAATATTGGGTCT+TGG 0.456037 3.4:-26136317 None:intergenic
TAAGCTGAAATATTAGGTCT+TGG 0.457286 3.4:-26135693 None:intergenic
TAAGCTGAAATGTTGGGTCT+TGG 0.464437 3.4:-26135537 None:intergenic
GGAAAAGAGCGGAGCCACTA+AGG 0.466210 3.4:+26135974 MS.gene85098:CDS
TCGTGGTTCAAAATCTTTAA+CGG 0.469737 3.4:-26135598 None:intergenic
CTTGGTTCAAAATCTTCGAC+TGG 0.470140 3.4:-26136143 None:intergenic
AGACCTAATATTTCAGCTTA+CGG 0.471619 3.4:+26135696 MS.gene85098:CDS
AGACCCAACATTTCAGCTTA+CGG 0.484733 3.4:+26135852 MS.gene85098:CDS
AGACCCAACATTTCAACTTA+CGG 0.485543 3.4:+26136164 MS.gene85098:CDS
TCTTGGTTCGAAATCATTAG+TGG 0.489747 3.4:-26135832 None:intergenic
TGACATTGACACCAAGGAAA+AGG 0.493430 3.4:+26136271 MS.gene85098:CDS
GTCTCCGTAAGTTGAAATGT+TGG 0.493577 3.4:-26136168 None:intergenic
TCTCCGTAAGTTGAAATGTT+GGG 0.496654 3.4:-26136167 None:intergenic
CATTGATGTTGATGAAAAGA+AGG 0.499460 3.4:+26136040 MS.gene85098:CDS
TCTCCATAAGCTGAAATGTT+GGG 0.499953 3.4:-26135543 None:intergenic
TCTCCATAAGCCGAAATGTT+GGG 0.501285 3.4:-26135933 None:intergenic
CTCTCCGTAAGCTGAAATGT+TGG 0.503472 3.4:-26135856 None:intergenic
CATCGATGTTAATGAAAAGA+AGG 0.503693 3.4:+26135884 MS.gene85098:CDS
TCTCCGTAAGCTGAAATGTT+GGG 0.513710 3.4:-26135855 None:intergenic
TCTCCATAAGCTGAAATGTT+GGG 0.525189 3.4:-26135621 None:intergenic
GTCTCCATAAGCTGAAATGT+TGG 0.536347 3.4:-26135544 None:intergenic
GTCTCCATAAGCTGAAATGT+TGG 0.536347 3.4:-26135622 None:intergenic
CATGAAAGACCAAGACATAC+CGG 0.538323 3.4:+26135356 None:intergenic
ATTTCAGTATATGAAAATGA+TGG 0.539974 3.4:+26135471 MS.gene85098:CDS
ATTGAAGTTAAGGAAAAGAA+AGG 0.540680 3.4:+26135573 MS.gene85098:CDS
ATCTCCATAAGCCGAAATGT+TGG 0.558155 3.4:-26135934 None:intergenic
TCAGCTTATGGAGAAGAATG+AGG 0.559154 3.4:+26136332 MS.gene85098:CDS
TAAGCCGAAATGTTGGGCCG+TGG 0.565825 3.4:-26135927 None:intergenic
GACATACCGGAAGAAATTCA+AGG 0.576602 3.4:+26135369 MS.gene85098:CDS
TAAGCTGAAATGTTGGGTCG+TGG 0.596199 3.4:-26135615 None:intergenic
AGATGATGCCATTGATGCTA+AGG 0.596256 3.4:+26135953 MS.gene85098:CDS
CCAAGAGAAGGCGTTTAGAG+AGG 0.601749 3.4:+26135428 MS.gene85098:CDS
TAAGCTCAATACCCAAGAGA+AGG 0.615378 3.4:+26135416 MS.gene85098:CDS
ATTGATGTTGATGAAAAGAA+GGG 0.631130 3.4:+26136041 MS.gene85098:CDS
CAACAATGACATTGACACCA+AGG 0.659301 3.4:+26136265 MS.gene85098:CDS
TGAAAAGAAGGCAGCCACTG+AGG 0.664629 3.4:+26135896 MS.gene85098:CDS
CCGTGGTTTAAAATCCTCAG+TGG 0.675588 3.4:-26135910 None:intergenic
ATTGATGCTAAGGAAAAGAG+CGG 0.694475 3.4:+26135963 MS.gene85098:CDS
AAATGATGGCACTAACACCA+AGG 0.697304 3.4:+26135485 MS.gene85098:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCATATACTGAAATATT+AGG - chr3.4:26135468-26135487 None:intergenic 15.0%
!! ATTTCAGTATATGAAAATGA+TGG + chr3.4:26135471-26135490 MS.gene85098:CDS 20.0%
! ATTGAAGTTAAGGAAAAGAA+AGG + chr3.4:26135573-26135592 MS.gene85098:CDS 25.0%
! GTTGATGTTAAGAAAAAGAA+GGG + chr3.4:26135729-26135748 MS.gene85098:CDS 25.0%
! TATACTGAAATATTAGGTCT+TGG - chr3.4:26135462-26135481 None:intergenic 25.0%
! TCTTGATTCAAAATCTGAAA+TGG - chr3.4:26136225-26136244 None:intergenic 25.0%
!! ATTGATGTTGATGAAAAGAA+GGG + chr3.4:26136041-26136060 MS.gene85098:CDS 25.0%
AGACAATGACATTGAAGTTA+AGG + chr3.4:26135563-26135582 MS.gene85098:CDS 30.0%
AGACAATGTCATAGATGTTA+AGG + chr3.4:26135641-26135660 MS.gene85098:CDS 30.0%
AGACCTAATATTTCAGCTTA+CGG + chr3.4:26135696-26135715 MS.gene85098:CDS 30.0%
CATCGATGTTAATGAAAAGA+AGG + chr3.4:26135884-26135903 MS.gene85098:CDS 30.0%
CGTTGATGTTAAGAAAAAGA+AGG + chr3.4:26135728-26135747 MS.gene85098:CDS 30.0%
TAAGCTGAAATATTAGGTCT+TGG - chr3.4:26135696-26135715 None:intergenic 30.0%
TCGTGGTTCAAAATCTTTAA+CGG - chr3.4:26135601-26135620 None:intergenic 30.0%
TCTCCATAAGCTGAAATATT+GGG - chr3.4:26135780-26135799 None:intergenic 30.0%
TCTCCATATGTTGAAATGTT+GGG - chr3.4:26136092-26136111 None:intergenic 30.0%
TCTTGGTTCAAAATCTTTGA+TGG - chr3.4:26135523-26135542 None:intergenic 30.0%
TTCTCCATAAGCTGAAATAT+TGG - chr3.4:26135781-26135800 None:intergenic 30.0%
TTCTCCATATGTTGAAATGT+TGG - chr3.4:26136093-26136112 None:intergenic 30.0%
! CATTGATGTTGATGAAAAGA+AGG + chr3.4:26136040-26136059 MS.gene85098:CDS 30.0%
!! ATTGAGCTTACTTTTAGTGT+TGG - chr3.4:26135406-26135425 None:intergenic 30.0%
AGACCAAACATTTCAGCTTA+TGG + chr3.4:26136008-26136027 MS.gene85098:CDS 35.0%
AGACCCAACATTTCAACATA+TGG + chr3.4:26136086-26136105 MS.gene85098:CDS 35.0%
AGACCCAACATTTCAACTTA+CGG + chr3.4:26136164-26136183 MS.gene85098:CDS 35.0%
AGACCCAATATTTCAGCTTA+TGG + chr3.4:26135774-26135793 MS.gene85098:CDS 35.0%
ATTGATGCTAAGGAAAAGAG+CGG + chr3.4:26135963-26135982 MS.gene85098:CDS 35.0%
TAAGCTGAAATATTGGGTCT+TGG - chr3.4:26135774-26135793 None:intergenic 35.0%
TAAGCTGAAATGTTTGGTCT+TGG - chr3.4:26136008-26136027 None:intergenic 35.0%
TATGTTGAAATGTTGGGTCT+TGG - chr3.4:26136086-26136105 None:intergenic 35.0%
TCTCCATAAGCTGAAATGTT+GGG - chr3.4:26135546-26135565 None:intergenic 35.0%
TCTCCATAAGCTGAAATGTT+TGG - chr3.4:26135546-26135565 None:intergenic 35.0%
TCTCCGTAAGCTGAAATATT+AGG - chr3.4:26135702-26135721 None:intergenic 35.0%
TCTTGGTTCAAAATCCTTAG+TGG - chr3.4:26135991-26136010 None:intergenic 35.0%
TTGCCATAAGCTGAAATGTT+TGG - chr3.4:26136248-26136267 None:intergenic 35.0%
! GACATCTTTCCTATTTTCCT+TGG - chr3.4:26135505-26135524 None:intergenic 35.0%
! TAAGTTGAAATGTTGGGTCT+TGG - chr3.4:26136164-26136183 None:intergenic 35.0%
! TCTCCGTAAGTTGAAATGTT+GGG - chr3.4:26136170-26136189 None:intergenic 35.0%
! TCTTGGTTCGAAATCATTAG+TGG - chr3.4:26135835-26135854 None:intergenic 35.0%
!!! TACTTTTAGTGTTGGCGATA+AGG - chr3.4:26135398-26135417 None:intergenic 35.0%
AAATGATGGCACTAACACCA+AGG + chr3.4:26135485-26135504 MS.gene85098:CDS 40.0%
AGACCCAACATTTCAGCTTA+CGG + chr3.4:26135540-26135559 MS.gene85098:CDS 40.0%
AGACCCAACATTTCAGCTTA+TGG + chr3.4:26135540-26135559 MS.gene85098:CDS 40.0%
AGATGATGCCATTGATGCTA+AGG + chr3.4:26135953-26135972 MS.gene85098:CDS 40.0%
AGGAGTCCTTGAATTTCTTC+CGG - chr3.4:26135378-26135397 None:intergenic 40.0%
ATCTCCATAAGCCGAAATGT+TGG - chr3.4:26135937-26135956 None:intergenic 40.0%
CAACAATGACATTGACACCA+AGG + chr3.4:26136265-26136284 MS.gene85098:CDS 40.0%
CTTGGTTCAAAATCTTCGAC+TGG - chr3.4:26136146-26136165 None:intergenic 40.0%
GAATTTCTTCCGGTATGTCT+TGG - chr3.4:26135368-26135387 None:intergenic 40.0%
GACATACCGGAAGAAATTCA+AGG + chr3.4:26135369-26135388 MS.gene85098:CDS 40.0%
GCACTAACACCAAGGAAAAT+AGG + chr3.4:26135493-26135512 MS.gene85098:CDS 40.0%
GGGTCTTGGTTCAAAATCTT+TGG - chr3.4:26135526-26135545 None:intergenic 40.0%
GTCTCCATAAGCTGAAATGT+TGG - chr3.4:26135547-26135566 None:intergenic 40.0%
TAAGCTCAATACCCAAGAGA+AGG + chr3.4:26135416-26135435 MS.gene85098:CDS 40.0%
TAAGCTGAAATGTTGGGTCT+TGG - chr3.4:26135540-26135559 None:intergenic 40.0%
TCTCCATAAGCCGAAATGTT+GGG - chr3.4:26135936-26135955 None:intergenic 40.0%
TCTCCGTAAGCTGAAATGTT+GGG - chr3.4:26135858-26135877 None:intergenic 40.0%
TGACATTGACACCAAGGAAA+AGG + chr3.4:26136271-26136290 MS.gene85098:CDS 40.0%
! CCACTGAGGATTTTAAACCA+CGG + chr3.4:26135910-26135929 MS.gene85098:CDS 40.0%
! GCTCTTTTCCTTAGCATCAA+TGG - chr3.4:26135964-26135983 None:intergenic 40.0%
! GTCTCCGTAAGTTGAAATGT+TGG - chr3.4:26136171-26136190 None:intergenic 40.0%
CGACCCAACATTTCAGCTTA+TGG + chr3.4:26135618-26135637 MS.gene85098:CDS 45.0%
CTCTCCGTAAGCTGAAATGT+TGG - chr3.4:26135859-26135878 None:intergenic 45.0%
CTCTCTAAACGCCTTCTCTT+GGG - chr3.4:26135430-26135449 None:intergenic 45.0%
TAAACCACGGCCCAACATTT+CGG + chr3.4:26135923-26135942 MS.gene85098:CDS 45.0%
TAAGCTGAAATGTTGGGTCG+TGG - chr3.4:26135618-26135637 None:intergenic 45.0%
! CCGTGGTTTAAAATCCTCAG+TGG - chr3.4:26135913-26135932 None:intergenic 45.0%
! GGCAACTTTCTCCTTTTCCT+TGG - chr3.4:26136285-26136304 None:intergenic 45.0%
CCTCTCTAAACGCCTTCTCT+TGG - chr3.4:26135431-26135450 None:intergenic 50.0%
TGAAAAGAAGGCAGCCACTG+AGG + chr3.4:26135896-26135915 MS.gene85098:CDS 50.0%
!! CCAAGAGAAGGCGTTTAGAG+AGG + chr3.4:26135428-26135447 MS.gene85098:CDS 50.0%
CGGCCCAACATTTCGGCTTA+TGG + chr3.4:26135930-26135949 MS.gene85098:CDS 55.0%
GGAAAAGAGCGGAGCCACTA+AGG + chr3.4:26135974-26135993 MS.gene85098:CDS 55.0%
TAAGCCGAAATGTTGGGCCG+TGG - chr3.4:26135930-26135949 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 26135357 26136352 26135357 ID=MS.gene85098
chr3.4 mRNA 26135357 26136352 26135357 ID=MS.gene85098.t1;Parent=MS.gene85098
chr3.4 exon 26135357 26136352 26135357 ID=MS.gene85098.t1.exon1;Parent=MS.gene85098.t1
chr3.4 CDS 26135357 26136352 26135357 ID=cds.MS.gene85098.t1;Parent=MS.gene85098.t1
Gene Sequence

>MS.gene85098

ATGAAAGACCAAGACATACCGGAAGAAATTCAAGGACTCCTTATCGCCAACACTAAAAGTAAGCTCAATACCCAAGAGAAGGCGTTTAGAGAGGATCTTGAACCAAGACCTAATATTTCAGTATATGAAAATGATGGCACTAACACCAAGGAAAATAGGAAAGATGTCAAAGATTTTGAACCAAGACCCAACATTTCAGCTTATGGAGACAATGACATTGAAGTTAAGGAAAAGAAAGGTGCCGTTAAAGATTTTGAACCACGACCCAACATTTCAGCTTATGGAGACAATGTCATAGATGTTAAGGAAAAGAAGAAAGTCGTCAAAGATTTCGAACCAAGACCTAATATTTCAGCTTACGGAGACAATGTCGTTGATGTTAAGAAAAAGAAGGGAGTCACTGAAGATTTTGAACCAAGACCCAATATTTCAGCTTATGGAGAAAATGACAATGATGTCAAAGAAAAGAAGCAAACCACTAATGATTTCGAACCAAGACCCAACATTTCAGCTTACGGAGAGAATGACATCGATGTTAATGAAAAGAAGGCAGCCACTGAGGATTTTAAACCACGGCCCAACATTTCGGCTTATGGAGATGATGCCATTGATGCTAAGGAAAAGAGCGGAGCCACTAAGGATTTTGAACCAAGACCAAACATTTCAGCTTATGGAGACAATGACATTGATGTTGATGAAAAGAAGGGAGCCATCAAAGATTTTGAACCAAGACCCAACATTTCAACATATGGAGAAAATGTCATTAATGATGATGAAACAAAGAAACCAGTCGAAGATTTTGAACCAAGACCCAACATTTCAACTTACGGAGACAATGACATTGATGACAGAAAAAAGAATAATGCCATTTCAGATTTTGAATCAAGACCAAACATTTCAGCTTATGGCAACAATGACATTGACACCAAGGAAAAGGAGAAAGTTGCCAAAGATTTTGAACCAAGACCCAATATTTCAGCTTATGGAGAAGAATGA

Protein sequence

>MS.gene85098.t1

MKDQDIPEEIQGLLIANTKSKLNTQEKAFREDLEPRPNISVYENDGTNTKENRKDVKDFEPRPNISAYGDNDIEVKEKKGAVKDFEPRPNISAYGDNVIDVKEKKKVVKDFEPRPNISAYGDNVVDVKKKKGVTEDFEPRPNISAYGENDNDVKEKKQTTNDFEPRPNISAYGENDIDVNEKKAATEDFKPRPNISAYGDDAIDAKEKSGATKDFEPRPNISAYGDNDIDVDEKKGAIKDFEPRPNISTYGENVINDDETKKPVEDFEPRPNISTYGDNDIDDRKKNNAISDFESRPNISAYGNNDIDTKEKEKVAKDFEPRPNISAYGEE