AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025467.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025467.01.T01 MTR_5g073900 74.576 59 15 0 1 59 284 342 5.19e-25 96.7
MsG0580025467.01.T01 MTR_5g073450 51.111 90 42 1 1 88 542 631 1.62e-24 96.7
MsG0580025467.01.T01 MTR_3g464010 50.575 87 43 0 8 94 586 672 1.38e-23 94.0
MsG0580025467.01.T01 MTR_3g031130 53.571 84 37 1 7 88 534 617 1.35e-22 91.3
MsG0580025467.01.T01 MTR_5g073780 49.438 89 45 0 1 89 134 222 7.37e-22 85.9
MsG0580025467.01.T01 MTR_5g073620 50.562 89 44 0 1 89 979 1067 1.25e-21 88.6
MsG0580025467.01.T01 MTR_5g074130 48.235 85 44 0 8 92 593 677 1.43e-21 88.2
MsG0580025467.01.T01 MTR_5g073920 44.792 96 50 1 10 105 579 671 2.27e-21 87.8
MsG0580025467.01.T01 MTR_5g073460 46.667 90 46 1 1 88 601 690 1.87e-19 82.4
MsG0580025467.01.T01 MTR_5g074190 47.872 94 20 2 1 94 349 413 1.23e-16 74.3
MsG0580025467.01.T01 MTR_7g017290 70.455 44 13 0 4 47 46 89 4.25e-15 65.1
MsG0580025467.01.T01 MTR_5g093530 49.254 67 34 0 26 92 508 574 6.17e-15 69.3
MsG0580025467.01.T01 MTR_5g073490 40.449 89 36 2 1 87 78 151 5.71e-13 61.2
MsG0580025467.01.T01 MTR_6g033310 32.927 82 53 1 9 88 642 723 2.38e-12 62.0
MsG0580025467.01.T01 MTR_1g117090 32.927 82 53 1 10 89 586 667 1.86e-11 59.3
MsG0580025467.01.T01 MTR_8g021330 31.707 82 54 1 9 88 522 603 4.87e-11 58.2
MsG0580025467.01.T01 MTR_4g103540 32.558 86 57 1 4 88 593 678 5.86e-11 58.2
MsG0580025467.01.T01 MTR_1g057560 34.146 82 52 1 9 88 542 623 8.34e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025467.01.T01 AT5G58430 49.425 87 42 1 4 88 530 616 4.44e-23 92.4
MsG0580025467.01.T01 AT5G13990 36.585 82 50 1 9 88 598 679 2.10e-13 65.1
MsG0580025467.01.T01 AT5G13150 37.037 81 49 1 10 88 562 642 1.79e-12 62.4
MsG0580025467.01.T01 AT1G07000 36.250 80 48 1 12 88 515 594 3.90e-12 61.2
MsG0580025467.01.T01 AT1G54090 34.146 82 52 1 9 88 528 609 1.75e-11 59.7
MsG0580025467.01.T01 AT3G14090 37.333 75 45 1 9 81 530 604 2.71e-11 58.9
MsG0580025467.01.T01 AT5G03540 35.802 81 50 1 10 88 548 628 3.12e-11 58.9
MsG0580025467.01.T01 AT5G03540 35.802 81 50 1 10 88 433 513 3.53e-11 58.5
MsG0580025467.01.T01 AT5G03540 35.802 81 50 1 10 88 574 654 3.91e-11 58.5

Find 9 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGAATCTGCTTTAGAATT+TGG 0.139042 5:-19184776 None:intergenic
TTGGATGAGTATATAGAGTA+TGG 0.350795 5:+19184974 MsG0580025467.01.T01:CDS
GAGGATGTTGATTGTGTAAG+AGG 0.430127 5:+19185040 MsG0580025467.01.T01:CDS
CATATGAAAACTTCATTGCT+AGG 0.458950 5:+19184927 MsG0580025467.01.T01:CDS
ATTGTGTAAGAGGATCAATT+AGG 0.486326 5:+19185050 MsG0580025467.01.T01:CDS
AGGATCAATTAGGATTCAGT+TGG 0.532656 5:+19185060 MsG0580025467.01.T01:CDS
CAGAAGTTTCGGGAGATATG+TGG 0.544254 5:+19184824 MsG0580025467.01.T01:CDS
TTCTAAAGCAGATTCAATGA+AGG 0.559551 5:+19184781 MsG0580025467.01.T01:CDS
TATGTGGAATTCAGTCAACA+TGG 0.701076 5:+19184840 MsG0580025467.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGATTTTCACGGTAAAAATT+TGG + Chr5:19184955-19184974 MsG0580025467.01.T01:CDS 25.0%
!!! ATTGAATCTGCTTTAGAATT+TGG - Chr5:19184779-19184798 None:intergenic 25.0%
ATTGTGTAAGAGGATCAATT+AGG + Chr5:19185050-19185069 MsG0580025467.01.T01:CDS 30.0%
CATATGAAAACTTCATTGCT+AGG + Chr5:19184927-19184946 MsG0580025467.01.T01:CDS 30.0%
TTGGATGAGTATATAGAGTA+TGG + Chr5:19184974-19184993 MsG0580025467.01.T01:CDS 30.0%
!! TTCTAAAGCAGATTCAATGA+AGG + Chr5:19184781-19184800 MsG0580025467.01.T01:CDS 30.0%
!!! CTTTTTCAATCAGAAGTTTC+GGG + Chr5:19184814-19184833 MsG0580025467.01.T01:CDS 30.0%
!!! GCTTTTTCAATCAGAAGTTT+CGG + Chr5:19184813-19184832 MsG0580025467.01.T01:CDS 30.0%
!!! TAACCAGTTGTTTTTGTTAG+AGG + Chr5:19185021-19185040 MsG0580025467.01.T01:CDS 30.0%
AGGATCAATTAGGATTCAGT+TGG + Chr5:19185060-19185079 MsG0580025467.01.T01:CDS 35.0%
CATCCTCTAACAAAAACAAC+TGG - Chr5:19185027-19185046 None:intergenic 35.0%
TATGTGGAATTCAGTCAACA+TGG + Chr5:19184840-19184859 MsG0580025467.01.T01:CDS 35.0%
! GCAATGAAGTTTTCATATGC+TGG - Chr5:19184926-19184945 None:intergenic 35.0%
! GAGGATGTTGATTGTGTAAG+AGG + Chr5:19185040-19185059 MsG0580025467.01.T01:CDS 40.0%
! GCTAGGTTGCATGATTTTCA+CGG + Chr5:19184944-19184963 MsG0580025467.01.T01:CDS 40.0%
! TGGCAGCAACATGTTTTCTA+AGG - Chr5:19184906-19184925 None:intergenic 40.0%
!! GTGTTTTTGACGAGCAACTA+AGG + Chr5:19184864-19184883 MsG0580025467.01.T01:CDS 40.0%
CAGAAGTTTCGGGAGATATG+TGG + Chr5:19184824-19184843 MsG0580025467.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 19184770 19185090 19184770 ID=MsG0580025467.01;Name=MsG0580025467.01
Chr5 mRNA 19184770 19185090 19184770 ID=MsG0580025467.01.T01;Parent=MsG0580025467.01;Name=MsG0580025467.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|0|1|0|106
Chr5 exon 19184770 19185090 19184770 ID=MsG0580025467.01.T01:exon:28566;Parent=MsG0580025467.01.T01
Chr5 CDS 19184770 19185090 19184770 ID=MsG0580025467.01.T01:cds;Parent=MsG0580025467.01.T01
Gene Sequence

>MsG0580025467.01.T01

ATGACGCCAAATTCTAAAGCAGATTCAATGAAGGACAATCTCAGCTTTTTCAATCAGAAGTTTCGGGAGATATGTGGAATTCAGTCAACATGGCGTGTTTTTGACGAGCAACTAAGGAAACAAATAATAATTTCCTTAGAAAACATGTTGCTGCCAGCATATGAAAACTTCATTGCTAGGTTGCATGATTTTCACGGTAAAAATTTGGATGAGTATATAGAGTATGGAATGTCTGATATTCAAGATCGACTTAACCAGTTGTTTTTGTTAGAGGATGTTGATTGTGTAAGAGGATCAATTAGGATTCAGTTGGTTAGTTAG

Protein sequence

>MsG0580025467.01.T01

MTPNSKADSMKDNLSFFNQKFREICGIQSTWRVFDEQLRKQIIISLENMLLPAYENFIARLHDFHGKNLDEYIEYGMSDIQDRLNQLFLLEDVDCVRGSIRIQLVS*