AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene027527

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene027527.t1 MTR_5g035910 94.231 52 3 0 14 65 511 562 5.55e-29 107
MS.gene027527.t1 MTR_7g063030 90.385 52 5 0 14 65 502 553 7.42e-28 103
MS.gene027527.t1 MTR_7g063030 90.385 52 5 0 14 65 508 559 1.12e-27 103
MS.gene027527.t1 MTR_7g063010 86.538 52 7 0 14 65 504 555 2.19e-26 99.8
MS.gene027527.t1 MTR_3g068025 82.692 52 9 0 14 65 514 565 2.86e-24 94.0
MS.gene027527.t1 MTR_7g062950 65.385 52 18 0 14 65 506 557 9.91e-17 72.4
MS.gene027527.t1 MTR_1g052275 63.462 52 19 0 14 65 508 559 1.34e-16 72.0
MS.gene027527.t1 MTR_7g062990 61.111 54 19 1 14 65 512 565 1.63e-16 71.6
MS.gene027527.t1 MTR_7g062940 61.538 52 20 0 14 65 505 556 8.39e-16 69.7
MS.gene027527.t1 MTR_7g062680 61.538 52 20 0 14 65 516 567 8.39e-16 69.7
MS.gene027527.t1 MTR_7g062700 59.615 52 21 0 14 65 508 559 2.41e-15 68.6
MS.gene027527.t1 MTR_7g062750 59.615 52 21 0 14 65 508 559 2.55e-15 68.6
MS.gene027527.t1 MTR_7g062890 61.538 52 20 0 14 65 504 555 3.49e-15 68.2
MS.gene027527.t1 MTR_2g090410 59.615 52 17 1 14 65 1216 1263 5.70e-15 67.4
MS.gene027527.t1 MTR_2g090410 64.865 37 13 0 14 50 513 549 1.64e-12 60.5
MS.gene027527.t1 MTR_2g090250 60.000 55 17 1 14 63 511 565 7.05e-15 67.0
MS.gene027527.t1 MTR_7g062660 59.615 52 21 0 14 65 499 550 2.08e-14 65.9
MS.gene027527.t1 MTR_7g062770 59.615 52 21 0 14 65 510 561 2.87e-14 65.5
MS.gene027527.t1 MTR_4g093070 54.717 53 23 1 14 65 513 565 3.26e-14 65.1
MS.gene027527.t1 MTR_7g062920 59.615 52 21 0 14 65 506 557 4.00e-14 65.1
MS.gene027527.t1 MTR_3g460810 55.769 52 22 1 14 65 492 542 8.57e-14 63.9
MS.gene027527.t1 MTR_4g105070 53.846 52 24 0 14 65 520 571 1.23e-13 63.5
MS.gene027527.t1 MTR_8g068050 50.000 52 26 0 14 65 520 571 1.72e-13 63.2
MS.gene027527.t1 MTR_4g093110 50.980 51 25 0 15 65 508 558 2.05e-13 63.2
MS.gene027527.t1 MTR_4g093140 50.980 51 25 0 15 65 508 558 2.05e-13 63.2
MS.gene027527.t1 MTR_8g068050 50.000 52 26 0 14 65 410 461 2.38e-13 62.8
MS.gene027527.t1 MTR_4g093080 51.923 52 24 1 14 65 515 565 2.84e-13 62.8
MS.gene027527.t1 MTR_2g013720 65.789 38 13 0 14 51 519 556 3.47e-13 62.4
MS.gene027527.t1 MTR_3g007870 51.923 52 24 1 14 65 512 562 3.75e-13 62.4
MS.gene027527.t1 MTR_5g095970 51.923 52 24 1 14 65 525 575 3.75e-13 62.4
MS.gene027527.t1 MTR_4g093050 49.020 51 26 0 15 65 513 563 1.46e-12 60.5
MS.gene027527.t1 MTR_7g062900 55.769 52 23 0 14 65 464 515 4.22e-12 59.3
MS.gene027527.t1 MTR_7g116130 42.308 52 30 0 14 65 521 572 4.35e-12 59.3
MS.gene027527.t1 MTR_5g077100 60.976 41 16 0 14 54 533 573 1.44e-11 57.8
MS.gene027527.t1 MTR_4g107620 46.154 52 28 0 14 65 480 531 3.62e-11 56.6
MS.gene027527.t1 MTR_5g026510 44.231 52 29 0 14 65 469 520 5.51e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene027527.t1 AT3G55550 71.154 52 15 0 14 65 512 563 1.66e-20 83.2
MS.gene027527.t1 AT1G70110 63.462 52 19 0 14 65 509 560 1.67e-19 80.5
MS.gene027527.t1 AT3G59740 63.462 52 19 0 14 65 502 553 6.52e-19 78.6
MS.gene027527.t1 AT2G37710 67.925 53 16 1 14 65 512 564 1.07e-18 78.2
MS.gene027527.t1 AT1G70130 57.692 52 22 0 14 65 499 550 5.30e-18 76.3
MS.gene027527.t1 AT3G59750 61.538 52 20 0 14 65 469 520 8.37e-18 75.5
MS.gene027527.t1 AT4G29050 60.377 53 20 1 14 65 509 561 1.54e-17 74.7
MS.gene027527.t1 AT4G29050 60.377 53 20 1 14 65 523 575 1.54e-17 74.7
MS.gene027527.t1 AT4G02420 67.308 52 16 1 15 65 516 567 3.13e-17 73.9
MS.gene027527.t1 AT3G59700 59.615 52 21 0 14 65 504 555 3.22e-17 73.9
MS.gene027527.t1 AT3G53810 62.264 53 19 1 14 65 512 564 2.62e-16 71.2
MS.gene027527.t1 AT4G02410 65.385 52 17 1 15 65 521 572 5.61e-16 70.5
MS.gene027527.t1 AT5G59260 51.923 52 25 0 14 65 520 571 2.84e-15 68.2
MS.gene027527.t1 AT3G08870 55.769 52 19 1 14 65 535 582 8.98e-15 67.0
MS.gene027527.t1 AT3G08870 55.769 52 19 1 14 65 556 603 8.98e-15 67.0
MS.gene027527.t1 AT5G01540 55.769 52 19 1 14 65 534 581 1.07e-14 66.6
MS.gene027527.t1 AT4G04960 64.706 51 14 2 15 65 516 562 1.08e-14 66.6
MS.gene027527.t1 AT2G43700 53.061 49 23 0 16 64 502 550 1.17e-14 66.6
MS.gene027527.t1 AT2G43700 53.061 49 23 0 16 64 478 526 1.42e-14 66.2
MS.gene027527.t1 AT2G43700 53.061 49 23 0 16 64 478 526 1.42e-14 66.2
MS.gene027527.t1 AT2G43700 53.061 49 23 0 16 64 478 526 1.42e-14 66.2
MS.gene027527.t1 AT2G43700 53.061 49 23 0 16 64 478 526 1.42e-14 66.2
MS.gene027527.t1 AT4G04960 64.706 51 14 2 15 65 516 562 2.18e-14 65.9
MS.gene027527.t1 AT5G59270 48.077 52 27 0 14 65 514 565 4.36e-14 65.1
MS.gene027527.t1 AT5G59270 48.077 52 27 0 14 65 517 568 4.36e-14 65.1
MS.gene027527.t1 AT5G59270 48.077 52 27 0 14 65 533 584 4.36e-14 65.1
MS.gene027527.t1 AT5G01550 53.846 52 20 1 14 65 548 595 1.01e-13 63.9
MS.gene027527.t1 AT5G60280 55.769 52 22 1 14 65 502 552 1.37e-13 63.5
MS.gene027527.t1 AT2G29220 49.020 51 26 0 15 65 506 556 1.98e-13 63.2
MS.gene027527.t1 AT4G28350 67.568 37 12 0 15 51 517 553 4.29e-13 62.0
MS.gene027527.t1 AT5G01560 51.923 52 21 1 14 65 531 578 6.66e-13 61.6
MS.gene027527.t1 AT5G60320 51.923 52 24 1 14 65 512 562 7.06e-13 61.6
MS.gene027527.t1 AT2G43690 47.059 51 27 0 14 64 465 515 7.61e-13 61.6
MS.gene027527.t1 AT2G43690 47.059 51 27 0 14 64 501 551 9.00e-13 61.2
MS.gene027527.t1 AT2G43690 47.059 51 27 0 14 64 501 551 9.00e-13 61.2
MS.gene027527.t1 AT2G29250 49.020 51 26 0 15 65 505 555 1.04e-12 61.2
MS.gene027527.t1 AT3G45440 53.846 52 23 1 14 65 559 609 1.69e-12 60.5
MS.gene027527.t1 AT3G45440 53.846 52 23 1 14 65 506 556 1.93e-12 60.5
MS.gene027527.t1 AT3G45440 53.846 52 23 1 14 65 506 556 1.93e-12 60.5
MS.gene027527.t1 AT3G45440 53.846 52 23 1 14 65 506 556 1.93e-12 60.5
MS.gene027527.t1 AT5G60310 48.077 52 26 1 14 65 507 557 2.30e-12 60.1
MS.gene027527.t1 AT3G46760 53.846 52 24 0 14 65 205 256 2.34e-12 60.1
MS.gene027527.t1 AT5G55830 49.057 53 26 1 14 65 533 585 2.35e-12 60.1
MS.gene027527.t1 AT1G15530 53.846 52 23 1 14 65 525 575 3.47e-12 59.7
MS.gene027527.t1 AT3G45430 53.846 52 23 1 14 65 508 558 3.71e-12 59.3
MS.gene027527.t1 AT3G45430 53.846 52 23 1 14 65 508 558 3.71e-12 59.3
MS.gene027527.t1 AT3G45430 53.846 52 23 1 14 65 508 558 3.71e-12 59.3
MS.gene027527.t1 AT5G60270 51.923 52 24 1 14 65 508 558 3.90e-12 59.3
MS.gene027527.t1 AT3G45420 53.846 52 23 1 14 65 514 564 6.48e-12 58.9
MS.gene027527.t1 AT5G60300 51.923 52 24 1 14 65 508 558 1.01e-11 58.2
MS.gene027527.t1 AT5G60300 51.923 52 24 1 14 65 508 558 1.02e-11 58.2
MS.gene027527.t1 AT5G60300 51.923 52 24 1 14 65 508 558 1.02e-11 58.2
MS.gene027527.t1 AT3G53380 65.789 38 13 0 14 51 540 577 1.76e-11 57.8
MS.gene027527.t1 AT1G31420 44.231 52 29 0 14 65 469 520 2.91e-11 57.0
MS.gene027527.t1 AT1G31420 44.231 52 29 0 14 65 470 521 2.91e-11 57.0
MS.gene027527.t1 AT1G31420 44.231 52 29 0 14 65 470 521 2.91e-11 57.0
MS.gene027527.t1 AT3G45390 51.923 52 24 1 14 65 499 549 4.28e-11 56.6
MS.gene027527.t1 AT3G45330 51.923 52 24 1 14 65 512 562 5.10e-11 56.2
MS.gene027527.t1 AT2G11520 47.059 51 27 0 14 64 392 442 6.34e-11 55.8
MS.gene027527.t1 AT3G24550 45.098 51 28 0 14 64 444 494 6.58e-11 55.8

Find 24 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGGAACCTTTAGGCTATT+TGG 0.232555 5.4:+25554905 MS.gene027527:CDS
GTAGATGCTCTTCCTGTTCT+AGG 0.275295 5.4:-25554939 None:intergenic
CCCACCACTCTTGTGGTCCC+TGG 0.357271 5.4:-25554887 None:intergenic
TTCTGCTTGAGGTTGCTTGT+GGG 0.368531 5.4:+25554991 MS.gene027527:CDS
ACAAGAAGAGTTAATGTTTG+TGG 0.401106 5.4:+25555040 MS.gene027527:CDS
TGTAATGCCTTAGACTCAAT+AGG 0.409339 5.4:-25555020 None:intergenic
GAGAAGGCCTATTGAGTCTA+AGG 0.417516 5.4:+25555013 MS.gene027527:CDS
GCACCGGAGTTGCCTAGAAC+AGG 0.425900 5.4:+25554927 MS.gene027527:CDS
CAAGAGTGGTGGGAACCTTT+AGG 0.440507 5.4:+25554897 MS.gene027527:CDS
TATGAACATGGTGCTAATCC+AGG 0.453333 5.4:+25554869 None:intergenic
CTTCTGCTTGAGGTTGCTTG+TGG 0.454996 5.4:+25554990 MS.gene027527:CDS
AGAGTTAATGTTTGTGGACT+GGG 0.455713 5.4:+25555046 MS.gene027527:CDS
TTGAGGTTGCTTGTGGGAGA+AGG 0.474358 5.4:+25554997 MS.gene027527:CDS
ATTTGGTGCACTTCTGCTTG+AGG 0.507190 5.4:+25554980 MS.gene027527:CDS
ACCTTTAGGCTATTTGGCAC+CGG 0.525213 5.4:+25554911 MS.gene027527:CDS
AAGAGTTAATGTTTGTGGAC+TGG 0.525687 5.4:+25555045 MS.gene027527:CDS
AAAGGTTCCCACCACTCTTG+TGG 0.545636 5.4:-25554894 None:intergenic
AATGTTTGTGGACTGGGTGT+AGG 0.547267 5.4:+25555052 MS.gene027527:CDS
TCCGGTGCCAAATAGCCTAA+AGG 0.552067 5.4:-25554912 None:intergenic
TCCAGGGACCACAAGAGTGG+TGG 0.564859 5.4:+25554886 MS.gene027527:CDS
CTTCCTGTTCTAGGCAACTC+CGG 0.587316 5.4:-25554930 None:intergenic
ATGAACATGGTGCTAATCCA+GGG 0.605499 5.4:+25554870 None:intergenic
CCAGGGACCACAAGAGTGGT+GGG 0.611319 5.4:+25554887 MS.gene027527:CDS
TAATCCAGGGACCACAAGAG+TGG 0.669305 5.4:+25554883 MS.gene027527:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAAGAAGAGTTAATGTTTG+TGG + chr5.4:25555040-25555059 MS.gene027527:CDS 30.0%
AAGAGTTAATGTTTGTGGAC+TGG + chr5.4:25555045-25555064 MS.gene027527:CDS 35.0%
AGAGTTAATGTTTGTGGACT+GGG + chr5.4:25555046-25555065 MS.gene027527:CDS 35.0%
TGTAATGCCTTAGACTCAAT+AGG - chr5.4:25555023-25555042 None:intergenic 35.0%
! AGTTCAGACGTTTTTGCATT+TGG + chr5.4:25554963-25554982 MS.gene027527:CDS 35.0%
ACCTTTAGGCTATTTGGCAC+CGG + chr5.4:25554911-25554930 MS.gene027527:CDS 45.0%
GAGAAGGCCTATTGAGTCTA+AGG + chr5.4:25555013-25555032 MS.gene027527:CDS 45.0%
GTAGATGCTCTTCCTGTTCT+AGG - chr5.4:25554942-25554961 None:intergenic 45.0%
GTGGGAACCTTTAGGCTATT+TGG + chr5.4:25554905-25554924 MS.gene027527:CDS 45.0%
TTCTGCTTGAGGTTGCTTGT+GGG + chr5.4:25554991-25555010 MS.gene027527:CDS 45.0%
!! ATTTGGTGCACTTCTGCTTG+AGG + chr5.4:25554980-25554999 MS.gene027527:CDS 45.0%
AAAGGTTCCCACCACTCTTG+TGG - chr5.4:25554897-25554916 None:intergenic 50.0%
CTTCTGCTTGAGGTTGCTTG+TGG + chr5.4:25554990-25555009 MS.gene027527:CDS 50.0%
TAATCCAGGGACCACAAGAG+TGG + chr5.4:25554883-25554902 MS.gene027527:CDS 50.0%
TTGAGGTTGCTTGTGGGAGA+AGG + chr5.4:25554997-25555016 MS.gene027527:CDS 50.0%
! CAAGAGTGGTGGGAACCTTT+AGG + chr5.4:25554897-25554916 MS.gene027527:CDS 50.0%
! CTTCCTGTTCTAGGCAACTC+CGG - chr5.4:25554933-25554952 None:intergenic 50.0%
! TCCGGTGCCAAATAGCCTAA+AGG - chr5.4:25554915-25554934 None:intergenic 50.0%
CCAGGGACCACAAGAGTGGT+GGG + chr5.4:25554887-25554906 MS.gene027527:CDS 60.0%
GCACCGGAGTTGCCTAGAAC+AGG + chr5.4:25554927-25554946 MS.gene027527:CDS 60.0%
TCCAGGGACCACAAGAGTGG+TGG + chr5.4:25554886-25554905 MS.gene027527:CDS 60.0%
CCCACCACTCTTGTGGTCCC+TGG - chr5.4:25554890-25554909 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 25554876 25555073 25554876 ID=MS.gene027527
chr5.4 mRNA 25554876 25555073 25554876 ID=MS.gene027527.t1;Parent=MS.gene027527
chr5.4 exon 25554876 25555073 25554876 ID=MS.gene027527.t1.exon1;Parent=MS.gene027527.t1
chr5.4 CDS 25554876 25555073 25554876 ID=cds.MS.gene027527.t1;Parent=MS.gene027527.t1
Gene Sequence

>MS.gene027527

ATGGTGCTAATCCAGGGACCACAAGAGTGGTGGGAACCTTTAGGCTATTTGGCACCGGAGTTGCCTAGAACAGGAAGAGCATCTACGAGTTCAGACGTTTTTGCATTTGGTGCACTTCTGCTTGAGGTTGCTTGTGGGAGAAGGCCTATTGAGTCTAAGGCATTACAAGAAGAGTTAATGTTTGTGGACTGGGTGTAG
Protein sequence

>MS.gene027527.t1

MVLIQGPQEWWEPLGYLAPELPRTGRASTSSDVFAFGALLLEVACGRRPIESKALQEELMFVDWV