AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480019437.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019437.01.T01 MTR_1g007990 79.787 94 19 0 58 151 916 1009 1.58e-36 133
MsG0480019437.01.T01 MTR_8g036130 71.739 46 12 1 4 48 3 48 1.67e-13 65.9
MsG0480019437.01.T01 MTR_4g032620 65.306 49 15 2 1 48 1 48 1.10e-12 63.5
MsG0480019437.01.T01 MTR_3g466890 60.870 46 17 1 4 48 2 47 1.52e-11 59.3
MsG0480019437.01.T01 MTR_1g090783 55.357 56 24 1 4 58 2 57 2.65e-11 58.5
MsG0480019437.01.T01 MTR_3g466830 63.043 46 16 1 4 48 2 47 3.09e-11 58.5
MsG0480019437.01.T01 MTR_4g031910 69.565 46 13 1 4 48 3 48 3.43e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACTACTGAAGATTGAAAA+AGG 0.333620 4:+20415404 MsG0480019437.01.T01:CDS
TTGAACATTTCCGTAGCTTC+TGG 0.338333 4:-20415359 None:intergenic
TAGGAAAGCAACATACAAAA+AGG 0.366525 4:+20415113 MsG0480019437.01.T01:CDS
AGCATAGGTGTCCCAATCTC+TGG 0.399969 4:-20415548 None:intergenic
TTGTTACAAAATCCAGAGAT+TGG 0.444188 4:+20415536 MsG0480019437.01.T01:CDS
AACCTTACTTCTTCTACCCA+TGG 0.464315 4:-20415061 None:intergenic
TGTTACAAAATCCAGAGATT+GGG 0.474114 4:+20415537 MsG0480019437.01.T01:CDS
AGATACAACACCGAAGCCTT+TGG 0.487832 4:+20415505 MsG0480019437.01.T01:CDS
GGAAGAAGAGTCTATTCAAA+AGG 0.497854 4:+20415134 MsG0480019437.01.T01:CDS
AACCATGGGTAGAAGAAGTA+AGG 0.501192 4:+20415059 None:intergenic
AGCAGCATCATTGACAATGA+AGG 0.509472 4:-20415091 None:intergenic
TAGCACCCTATGTGGTATTG+AGG 0.514801 4:+20415167 MsG0480019437.01.T01:CDS
AATGCCTTGACCAAAGGCTT+CGG 0.537147 4:-20415515 None:intergenic
GGGACACCTATGCTAGACTT+AGG 0.539982 4:+20415557 MsG0480019437.01.T01:CDS
TGTAACAATGCCTTGACCAA+AGG 0.547616 4:-20415521 None:intergenic
GTATATTCCTCCAGAAGCTA+CGG 0.554364 4:+20415349 MsG0480019437.01.T01:CDS
ACAAGCCTCAATACCACATA+GGG 0.561401 4:-20415172 None:intergenic
AACATTTCCGTAGCTTCTGG+AGG 0.585851 4:-20415356 None:intergenic
AACACCGAAGCCTTTGGTCA+AGG 0.591331 4:+20415511 MsG0480019437.01.T01:CDS
TCATTGTCAATGATGCTGCT+AGG 0.603132 4:+20415094 MsG0480019437.01.T01:CDS
CAATCTCCTAAGTCTAGCAT+AGG 0.607643 4:-20415563 None:intergenic
GTTGAACTTAGCACCCTATG+TGG 0.618465 4:+20415159 MsG0480019437.01.T01:CDS
CACAAGCCTCAATACCACAT+AGG 0.619824 4:-20415173 None:intergenic
ATATACATCTTGTTCCCACA+AGG 0.655820 4:-20415332 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAAACAGAATAGTTAGA+TGG - Chr4:20415292-20415311 None:intergenic 20.0%
!! TTCGTATTTGTATTATGTAT+AGG + Chr4:20415249-20415268 MsG0480019437.01.T01:intron 20.0%
!!! ATCTAACTATTCTGTTTTTT+AGG + Chr4:20415291-20415310 MsG0480019437.01.T01:CDS 20.0%
! TTACTACTGAAGATTGAAAA+AGG + Chr4:20415404-20415423 MsG0480019437.01.T01:CDS 25.0%
!! ATTGCATATATTTTCCTTGT+GGG + Chr4:20415318-20415337 MsG0480019437.01.T01:CDS 25.0%
!! GTATTATGTATAGGTTTTTG+AGG + Chr4:20415258-20415277 MsG0480019437.01.T01:intron 25.0%
TAGGAAAGCAACATACAAAA+AGG + Chr4:20415113-20415132 MsG0480019437.01.T01:CDS 30.0%
TGTTACAAAATCCAGAGATT+GGG + Chr4:20415537-20415556 MsG0480019437.01.T01:CDS 30.0%
TTGTTACAAAATCCAGAGAT+TGG + Chr4:20415536-20415555 MsG0480019437.01.T01:CDS 30.0%
! CATTGCATATATTTTCCTTG+TGG + Chr4:20415317-20415336 MsG0480019437.01.T01:CDS 30.0%
ATATACATCTTGTTCCCACA+AGG - Chr4:20415335-20415354 None:intergenic 35.0%
GGAAGAAGAGTCTATTCAAA+AGG + Chr4:20415134-20415153 MsG0480019437.01.T01:CDS 35.0%
ACAAGCCTCAATACCACATA+GGG - Chr4:20415175-20415194 None:intergenic 40.0%
AGCAGCATCATTGACAATGA+AGG - Chr4:20415094-20415113 None:intergenic 40.0%
CAATCTCCTAAGTCTAGCAT+AGG - Chr4:20415566-20415585 None:intergenic 40.0%
GAAATGCAGAACTCTCGTAA+AGG - Chr4:20415212-20415231 None:intergenic 40.0%
GTATATTCCTCCAGAAGCTA+CGG + Chr4:20415349-20415368 MsG0480019437.01.T01:CDS 40.0%
TCATTGTCAATGATGCTGCT+AGG + Chr4:20415094-20415113 MsG0480019437.01.T01:CDS 40.0%
TGTAACAATGCCTTGACCAA+AGG - Chr4:20415524-20415543 None:intergenic 40.0%
TTGAACATTTCCGTAGCTTC+TGG - Chr4:20415362-20415381 None:intergenic 40.0%
AACATTTCCGTAGCTTCTGG+AGG - Chr4:20415359-20415378 None:intergenic 45.0%
AATGCCTTGACCAAAGGCTT+CGG - Chr4:20415518-20415537 None:intergenic 45.0%
AGATACAACACCGAAGCCTT+TGG + Chr4:20415505-20415524 MsG0480019437.01.T01:CDS 45.0%
CACAAGCCTCAATACCACAT+AGG - Chr4:20415176-20415195 None:intergenic 45.0%
CTCGTAAAGGCCATACACTA+TGG - Chr4:20415199-20415218 None:intergenic 45.0%
GTTGAACTTAGCACCCTATG+TGG + Chr4:20415159-20415178 MsG0480019437.01.T01:CDS 45.0%
TAGCACCCTATGTGGTATTG+AGG + Chr4:20415167-20415186 MsG0480019437.01.T01:CDS 45.0%
AACACCGAAGCCTTTGGTCA+AGG + Chr4:20415511-20415530 MsG0480019437.01.T01:CDS 50.0%
AGCATAGGTGTCCCAATCTC+TGG - Chr4:20415551-20415570 None:intergenic 50.0%
GAGGCTTGTGCCATAGTGTA+TGG + Chr4:20415186-20415205 MsG0480019437.01.T01:intron 50.0%
GGGACACCTATGCTAGACTT+AGG + Chr4:20415557-20415576 MsG0480019437.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 20415063 20415586 20415063 ID=MsG0480019437.01;Name=MsG0480019437.01
Chr4 mRNA 20415063 20415586 20415063 ID=MsG0480019437.01.T01;Parent=MsG0480019437.01;Name=MsG0480019437.01.T01;_AED=0.80;_eAED=0.80;_QI=0|0|0|0.5|1|1|2|0|151
Chr4 exon 20415063 20415202 20415063 ID=MsG0480019437.01.T01:exon:9872;Parent=MsG0480019437.01.T01
Chr4 exon 20415271 20415586 20415271 ID=MsG0480019437.01.T01:exon:9873;Parent=MsG0480019437.01.T01
Chr4 CDS 20415063 20415202 20415063 ID=MsG0480019437.01.T01:cds;Parent=MsG0480019437.01.T01
Chr4 CDS 20415271 20415586 20415271 ID=MsG0480019437.01.T01:cds;Parent=MsG0480019437.01.T01
Gene Sequence

>MsG0480019437.01.T01

ATGGGTAGAAGAAGTAAGGTTAAACATGCCTTCATTGTCAATGATGCTGCTAGGAAAGCAACATACAAAAAGGAAGAAGAGTCTATTCAAAAGGTTGTTGAACTTAGCACCCTATGTGGTATTGAGGCTTGTGCCATAGTGTTTTTGAGGATAAACATCCATCTAACTATTCTGTTTTTTAGGAATCATTGCATATATTTTCCTTGTGGGAACAAGATGTATATTCCTCCAGAAGCTACGGAAATGTTCAATCAGATTGAAGAAAAGAAAACATTACTACTGAAGATTGAAAAAGGTAGTAAAAAAGTAACTAAACATCTGAAGAAGTCTCAAGAAAAGTTCAAGAAAAAAGAGTTGAGATATAAAAAACATATAGATACAACACCGAAGCCTTTGGTCAAGGCATTGTTACAAAATCCAGAGATTGGGACACCTATGCTAGACTTAGGAGATTGA
Protein sequence

>MsG0480019437.01.T01

MGRRSKVKHAFIVNDAARKATYKKEEESIQKVVELSTLCGIEACAIVFLRINIHLTILFFRNHCIYFPCGNKMYIPPEATEMFNQIEEKKTLLLKIEKGSKKVTKHLKKSQEKFKKKELRYKKHIDTTPKPLVKALLQNPEIGTPMLDLGD*