AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000785.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000785.01.T01 MTR_1g008500 61.240 129 41 2 1 124 259 383 1.25e-41 142
MsG0180000785.01.T01 MTR_1g008580 52.518 139 37 3 1 124 46 170 2.37e-37 125
MsG0180000785.01.T01 MTR_1g008530 51.079 139 39 3 1 124 98 222 1.77e-36 125
MsG0180000785.01.T01 MTR_1g008560 52.518 139 37 3 1 124 204 328 4.03e-36 126
MsG0180000785.01.T01 MTR_1g008510 52.518 139 37 3 1 124 200 324 4.10e-36 126
MsG0180000785.01.T01 MTR_0312s0030 51.079 139 38 4 1 124 200 323 9.26e-34 120
MsG0180000785.01.T01 MTR_1g007520 51.079 139 38 4 1 124 200 323 9.26e-34 120
MsG0180000785.01.T01 MTR_1g008590 51.079 139 38 4 1 124 200 323 1.27e-33 120
MsG0180000785.01.T01 MTR_1g008470 76.471 68 14 2 1 68 176 241 2.81e-27 103
MsG0180000785.01.T01 MTR_1g008450 73.529 68 16 2 1 68 189 254 1.27e-26 101
MsG0180000785.01.T01 MTR_1g008460 75.000 68 15 2 1 68 173 238 2.59e-25 97.8
MsG0180000785.01.T01 MTR_3g109490 38.760 129 75 2 1 125 193 321 6.69e-21 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000785.01.T01 AT5G25610 37.857 140 55 6 1 123 265 389 6.68e-18 79.0

Find 25 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATATAGTGTTTATTATTTA+AGG 0.068665 1:+11143514 None:intergenic
GGCAAAAGGTGTGGAGAAAT+TGG 0.224012 1:-11143832 MsG0180000785.01.T01:CDS
CTCCACAAGATCATGTTGTT+TGG 0.237750 1:-11143581 MsG0180000785.01.T01:CDS
TCCACAAGATCATGTTGTTT+GGG 0.303403 1:-11143580 MsG0180000785.01.T01:CDS
ACTTGAAAAGCCAAATGTTT+AGG 0.303666 1:+11143643 None:intergenic
CTAAAGTTACTCTGTGCCTT+TGG 0.340403 1:-11143731 MsG0180000785.01.T01:CDS
GTGCCTTTGGAAGGTGTTGA+TGG 0.352034 1:-11143718 MsG0180000785.01.T01:CDS
ACAATGGAATCCTAAACATT+TGG 0.370419 1:-11143653 MsG0180000785.01.T01:CDS
TGACAAACTGGAACAGTTCC+AGG 0.395778 1:+11143608 None:intergenic
TTATTTAAGGATAATACCTA+TGG 0.429314 1:+11143527 None:intergenic
CAAGAATATGTAATGGCAAA+AGG 0.445313 1:-11143846 MsG0180000785.01.T01:CDS
TTGTGGAGGAAGTGACAAAC+TGG 0.452639 1:+11143596 None:intergenic
GCAAAAGGTGTGGAGAAATT+GGG 0.453308 1:-11143831 MsG0180000785.01.T01:CDS
GATTTCACTACTTCGAAACT+TGG 0.458312 1:-11143921 MsG0180000785.01.T01:CDS
AGGATTCCATTGTGAAGTAT+CGG 0.507263 1:+11143663 None:intergenic
AGTTACTCTGTGCCTTTGGA+AGG 0.530025 1:-11143727 MsG0180000785.01.T01:CDS
TGTTGATGGAACCAGAGTTA+AGG 0.531184 1:-11143704 MsG0180000785.01.T01:CDS
TCAAGTGCTCATGTTCAACC+TGG 0.532264 1:-11143626 MsG0180000785.01.T01:CDS
ACCCAAACAACATGATCTTG+TGG 0.578918 1:+11143579 None:intergenic
TGACTTGCAAGAATATGTAA+TGG 0.583650 1:-11143853 MsG0180000785.01.T01:CDS
ATATGTAATGGCAAAAGGTG+TGG 0.587207 1:-11143841 MsG0180000785.01.T01:CDS
CACAGCAACAGCCTTAACTC+TGG 0.600950 1:+11143693 None:intergenic
GTTCCATCAACACCTTCCAA+AGG 0.665654 1:+11143715 None:intergenic
CAAACAACATGATCTTGTGG+AGG 0.697151 1:+11143582 None:intergenic
GTCACACCGATACTTCACAA+TGG 0.714447 1:-11143669 MsG0180000785.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTAAGGATAATACCTA+TGG + Chr1:11143930-11143949 None:intergenic 20.0%
!!! ATTGAAAAGTTTTGATTACT+TGG + Chr1:11143902-11143921 None:intergenic 20.0%
!! AACTTTTCAATTTCATCCAT+AGG - Chr1:11143911-11143930 MsG0180000785.01.T01:CDS 25.0%
!!! TTTTTTCACTTCTGTTGAAA+CGG + Chr1:11143573-11143592 None:intergenic 25.0%
ACAATGGAATCCTAAACATT+TGG - Chr1:11143801-11143820 MsG0180000785.01.T01:CDS 30.0%
ACTTGAAAAGCCAAATGTTT+AGG + Chr1:11143814-11143833 None:intergenic 30.0%
CAAGAATATGTAATGGCAAA+AGG - Chr1:11143608-11143627 MsG0180000785.01.T01:CDS 30.0%
GACAGTAAAAAACTGCATAA+GGG + Chr1:11143688-11143707 None:intergenic 30.0%
TGACAGTAAAAAACTGCATA+AGG + Chr1:11143689-11143708 None:intergenic 30.0%
! TGACTTGCAAGAATATGTAA+TGG - Chr1:11143601-11143620 MsG0180000785.01.T01:CDS 30.0%
AGGATTCCATTGTGAAGTAT+CGG + Chr1:11143794-11143813 None:intergenic 35.0%
ATATGTAATGGCAAAAGGTG+TGG - Chr1:11143613-11143632 MsG0180000785.01.T01:CDS 35.0%
GATTTCACTACTTCGAAACT+TGG - Chr1:11143533-11143552 MsG0180000785.01.T01:CDS 35.0%
! TCCACAAGATCATGTTGTTT+GGG - Chr1:11143874-11143893 MsG0180000785.01.T01:CDS 35.0%
ACCCAAACAACATGATCTTG+TGG + Chr1:11143878-11143897 None:intergenic 40.0%
CAAACAACATGATCTTGTGG+AGG + Chr1:11143875-11143894 None:intergenic 40.0%
CTAAAGTTACTCTGTGCCTT+TGG - Chr1:11143723-11143742 MsG0180000785.01.T01:CDS 40.0%
CTCCACAAGATCATGTTGTT+TGG - Chr1:11143873-11143892 MsG0180000785.01.T01:CDS 40.0%
! GCAAAAGGTGTGGAGAAATT+GGG - Chr1:11143623-11143642 MsG0180000785.01.T01:CDS 40.0%
! TGTTGATGGAACCAGAGTTA+AGG - Chr1:11143750-11143769 MsG0180000785.01.T01:CDS 40.0%
AGTTACTCTGTGCCTTTGGA+AGG - Chr1:11143727-11143746 MsG0180000785.01.T01:CDS 45.0%
GTCACACCGATACTTCACAA+TGG - Chr1:11143785-11143804 MsG0180000785.01.T01:CDS 45.0%
GTTCCATCAACACCTTCCAA+AGG + Chr1:11143742-11143761 None:intergenic 45.0%
TCAAGTGCTCATGTTCAACC+TGG - Chr1:11143828-11143847 MsG0180000785.01.T01:CDS 45.0%
TGACAAACTGGAACAGTTCC+AGG + Chr1:11143849-11143868 None:intergenic 45.0%
TTGTGGAGGAAGTGACAAAC+TGG + Chr1:11143861-11143880 None:intergenic 45.0%
! GGCAAAAGGTGTGGAGAAAT+TGG - Chr1:11143622-11143641 MsG0180000785.01.T01:CDS 45.0%
CACAGCAACAGCCTTAACTC+TGG + Chr1:11143764-11143783 None:intergenic 50.0%
!! GTGCCTTTGGAAGGTGTTGA+TGG - Chr1:11143736-11143755 MsG0180000785.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 11143527 11143949 11143527 ID=MsG0180000785.01;Name=MsG0180000785.01
Chr1 mRNA 11143527 11143949 11143527 ID=MsG0180000785.01.T01;Parent=MsG0180000785.01;Name=MsG0180000785.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|140
Chr1 exon 11143527 11143949 11143527 ID=MsG0180000785.01.T01:exon:925;Parent=MsG0180000785.01.T01
Chr1 CDS 11143527 11143949 11143527 ID=MsG0180000785.01.T01:cds;Parent=MsG0180000785.01.T01
Gene Sequence

>MsG0180000785.01.T01

ATGGTTGATTTCACTACTTCGAAACTTGGAAACAATGTTGAAGCCGTTTCAACAGAAGTGAAAAAAGAAAGCAGTGACTTGCAAGAATATGTAATGGCAAAAGGTGTGGAGAAATTGGGAGAGAAGAATAAAGCTGTAGTGTGTCACAAAGAGAATTACCCTTATGCAGTTTTTTACTGTCACAAAACAGATTCAACTAAAGTTACTCTGTGCCTTTGGAAGGTGTTGATGGAACCAGAGTTAAGGCTGTTGCTGTGTGTCACACCGATACTTCACAATGGAATCCTAAACATTTGGCTTTTCAAGTGCTCATGTTCAACCTGGAACTGTTCCAGTTTGTCACTTCCTCCACAAGATCATGTTGTTTGGGTTCCAAGTAATCAAAACTTTTCAATTTCATCCATAGGTATTATCCTTAAATAA

Protein sequence

>MsG0180000785.01.T01

MVDFTTSKLGNNVEAVSTEVKKESSDLQEYVMAKGVEKLGEKNKAVVCHKENYPYAVFYCHKTDSTKVTLCLWKVLMEPELRLLLCVTPILHNGILNIWLFKCSCSTWNCSSLSLPPQDHVVWVPSNQNFSISSIGIILK*