AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040833.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040833.01.T01 MTR_7g099390 96.403 139 4 1 1 139 1 138 5.32e-94 268
MsG0780040833.01.T01 MTR_1g069235 57.971 138 47 3 11 138 11 147 5.01e-34 116
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040833.01.T01 AT2G20260 52.667 150 48 3 6 139 3 145 1.62e-38 127
MsG0780040833.01.T01 AT4G28750 66.355 107 25 1 43 138 35 141 4.40e-32 111

Find 29 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTCACCTAATAATGTTTC+AGG 0.245319 7:-83128353 MsG0780040833.01.T01:CDS
CCAATTCTAGACTTGTTGTT+AGG 0.258382 7:-83128262 MsG0780040833.01.T01:CDS
ACACACCTTAGCACCTCTTT+TGG 0.283501 7:+83128163 None:intergenic
TTGTTGAATCTTACCACAAC+TGG 0.285947 7:+83127580 None:intergenic
ACAACTGGGTAGCGAGTATT+AGG 0.348189 7:+83127595 None:intergenic
AACATAGCATCAGCAGCTTC+AGG 0.370983 7:-83128383 MsG0780040833.01.T01:CDS
TCCTACTGGTTCAATGGTAT+TGG 0.371489 7:-83127735 MsG0780040833.01.T01:CDS
GTGTTGCCTGAAACATTATT+AGG 0.375498 7:+83128347 None:intergenic
TTCTGTTGTTGCTGTTGATC+AGG 0.388075 7:-83127712 MsG0780040833.01.T01:intron
CCTAACAACAAGTCTAGAAT+TGG 0.406311 7:+83128262 None:intergenic
ATCAACAAACAACTATGCTT+TGG 0.412222 7:-83127539 MsG0780040833.01.T01:CDS
TTGGTGTTCTTTGTAGTAGT+AGG 0.427451 7:+83128281 None:intergenic
CTATGCTTTGGATGAGATTG+AGG 0.451083 7:-83127527 MsG0780040833.01.T01:CDS
CAATTCTAGACTTGTTGTTA+GGG 0.467358 7:-83128261 MsG0780040833.01.T01:CDS
AAAGAATCCTACTGGTTCAA+TGG 0.482430 7:-83127741 MsG0780040833.01.T01:CDS
TGGTGTTCTTTGTAGTAGTA+GGG 0.490325 7:+83128282 None:intergenic
TTCTTAGAAAAGAATCCTAC+TGG 0.502179 7:-83127749 MsG0780040833.01.T01:CDS
GCTGCAACACCAACTGTTGA+AGG 0.512678 7:-83128224 MsG0780040833.01.T01:CDS
CCACCAATTGGTCCCAAAAG+AGG 0.526898 7:-83128176 MsG0780040833.01.T01:CDS
ACATAGCATCAGCAGCTTCA+GGG 0.527887 7:-83128382 MsG0780040833.01.T01:CDS
ACTTGTTGTTAGGGCATCTG+AGG 0.546313 7:-83128252 MsG0780040833.01.T01:CDS
TGGTCCCAAAAGAGGTGCTA+AGG 0.552862 7:-83128168 MsG0780040833.01.T01:intron
TGTTGTTAGGGCATCTGAGG+AGG 0.552889 7:-83128249 MsG0780040833.01.T01:CDS
GCTGCCTCACCTTCAACAGT+TGG 0.556449 7:+83128215 None:intergenic
TAATACTCGCTACCCAGTTG+TGG 0.602018 7:-83127593 MsG0780040833.01.T01:CDS
TGTTGAATCTTACCACAACT+GGG 0.616418 7:+83127581 None:intergenic
AACACCAACTGTTGAAGGTG+AGG 0.628187 7:-83128219 MsG0780040833.01.T01:CDS
ATTAGCATCTAGAATGAACA+TGG 0.637216 7:-83128312 MsG0780040833.01.T01:CDS
ACCAATACCATTGAACCAGT+AGG 0.681839 7:+83127734 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAAAGTATACTTTCATA+CGG + Chr7:83127813-83127832 None:intergenic 15.0%
!!! CTAAGTTTTATTTATTTTGT+TGG - Chr7:83128119-83128138 MsG0780040833.01.T01:intron 15.0%
!!! GTAGTTTTTTTTTAGAAATA+TGG - Chr7:83127834-83127853 MsG0780040833.01.T01:intron 15.0%
!!! TTTTTTAGAAATATGGAATT+GGG - Chr7:83127841-83127860 MsG0780040833.01.T01:intron 15.0%
!!! TTTTTTTAGAAATATGGAAT+TGG - Chr7:83127840-83127859 MsG0780040833.01.T01:intron 15.0%
!! AATTTCCAAATTACAAACTA+GGG + Chr7:83127905-83127924 None:intergenic 20.0%
!! ATTATAAACTGATAGTAACT+TGG - Chr7:83128046-83128065 MsG0780040833.01.T01:intron 20.0%
!!! TGTTTTTCCTACTAAATTAT+TGG + Chr7:83128087-83128106 None:intergenic 20.0%
! ATTCTTACTGGAAAAAACTA+AGG + Chr7:83127877-83127896 None:intergenic 25.0%
! CAATTTCCAAATTACAAACT+AGG + Chr7:83127906-83127925 None:intergenic 25.0%
! TTCATACGGCATAATTTATT+TGG + Chr7:83127799-83127818 None:intergenic 25.0%
! TTCTTACTGGAAAAAACTAA+GGG + Chr7:83127876-83127895 None:intergenic 25.0%
! TTGTCAACCAATAATTTAGT+AGG - Chr7:83128077-83128096 MsG0780040833.01.T01:intron 25.0%
!! CTAGTTTGTAATTTGGAAAT+TGG - Chr7:83127904-83127923 MsG0780040833.01.T01:intron 25.0%
!!! GTTTTTTCCAGTAAGAATTA+TGG - Chr7:83127879-83127898 MsG0780040833.01.T01:intron 25.0%
ATCAACAAACAACTATGCTT+TGG - Chr7:83128372-83128391 MsG0780040833.01.T01:CDS 30.0%
ATCCTACACAACACAATAAA+AGG + Chr7:83128296-83128315 None:intergenic 30.0%
CTACTTCAAAATCAATCATG+TGG - Chr7:83128234-83128253 MsG0780040833.01.T01:CDS 30.0%
GAAATATGGAATTGGGAAAA+TGG - Chr7:83127848-83127867 MsG0780040833.01.T01:intron 30.0%
TTCTTAGAAAAGAATCCTAC+TGG - Chr7:83128162-83128181 MsG0780040833.01.T01:intron 30.0%
TTGTCACCTAATAATGTTTC+AGG - Chr7:83127558-83127577 MsG0780040833.01.T01:CDS 30.0%
! ATTAGCATCTAGAATGAACA+TGG - Chr7:83127599-83127618 MsG0780040833.01.T01:CDS 30.0%
! TTCCTTTTATTGTGTTGTGT+AGG - Chr7:83128291-83128310 MsG0780040833.01.T01:CDS 30.0%
!! CAATTCTAGACTTGTTGTTA+GGG - Chr7:83127650-83127669 MsG0780040833.01.T01:intron 30.0%
!!! CACATGATTGATTTTGAAGT+AGG + Chr7:83128236-83128255 None:intergenic 30.0%
!!! TTTTGTTGGTTCTACTTAAC+AGG - Chr7:83128133-83128152 MsG0780040833.01.T01:intron 30.0%
GTGTTGCCTGAAACATTATT+AGG + Chr7:83127567-83127586 None:intergenic 35.0%
TGGTGTTCTTTGTAGTAGTA+GGG + Chr7:83127632-83127651 None:intergenic 35.0%
TGTTGAATCTTACCACAACT+GGG + Chr7:83128333-83128352 None:intergenic 35.0%
TTGTTGAATCTTACCACAAC+TGG + Chr7:83128334-83128353 None:intergenic 35.0%
! CCTAACAACAAGTCTAGAAT+TGG + Chr7:83127652-83127671 None:intergenic 35.0%
! TATGGCCCTAGTTTGTAATT+TGG - Chr7:83127897-83127916 MsG0780040833.01.T01:intron 35.0%
! TGGTTCTACTTAACAGGTTA+AGG - Chr7:83128139-83128158 MsG0780040833.01.T01:intron 35.0%
! TTGGTGTTCTTTGTAGTAGT+AGG + Chr7:83127633-83127652 None:intergenic 35.0%
!! AAAGAATCCTACTGGTTCAA+TGG - Chr7:83128170-83128189 MsG0780040833.01.T01:CDS 35.0%
!! CCAATTCTAGACTTGTTGTT+AGG - Chr7:83127649-83127668 MsG0780040833.01.T01:intron 35.0%
ACCAATACCATTGAACCAGT+AGG + Chr7:83128180-83128199 None:intergenic 40.0%
ACTAGGGCCATAATTCTTAC+TGG + Chr7:83127889-83127908 None:intergenic 40.0%
! CTATGCTTTGGATGAGATTG+AGG - Chr7:83128384-83128403 MsG0780040833.01.T01:CDS 40.0%
! TTCTGTTGTTGCTGTTGATC+AGG - Chr7:83128199-83128218 MsG0780040833.01.T01:CDS 40.0%
!! TCCTACTGGTTCAATGGTAT+TGG - Chr7:83128176-83128195 MsG0780040833.01.T01:CDS 40.0%
AAAATCAAGCCCCCACCAAT+TGG - Chr7:83127723-83127742 MsG0780040833.01.T01:CDS 45.0%
AACACCAACTGTTGAAGGTG+AGG - Chr7:83127692-83127711 MsG0780040833.01.T01:intron 45.0%
AACATAGCATCAGCAGCTTC+AGG - Chr7:83127528-83127547 MsG0780040833.01.T01:CDS 45.0%
ACAACTGGGTAGCGAGTATT+AGG + Chr7:83128319-83128338 None:intergenic 45.0%
ACATAGCATCAGCAGCTTCA+GGG - Chr7:83127529-83127548 MsG0780040833.01.T01:CDS 45.0%
TAATACTCGCTACCCAGTTG+TGG - Chr7:83128318-83128337 MsG0780040833.01.T01:CDS 45.0%
! ACACACCTTAGCACCTCTTT+TGG + Chr7:83127751-83127770 None:intergenic 45.0%
! ATTGGTGGGGGCTTGATTTT+TGG + Chr7:83127723-83127742 None:intergenic 45.0%
! CACACCTTAGCACCTCTTTT+GGG + Chr7:83127750-83127769 None:intergenic 45.0%
!! ACTTGTTGTTAGGGCATCTG+AGG - Chr7:83127659-83127678 MsG0780040833.01.T01:intron 45.0%
!!! CTCTTTTGGGACCAATTGGT+GGG + Chr7:83127737-83127756 None:intergenic 45.0%
!!! TCTTTTGGGACCAATTGGTG+GGG + Chr7:83127736-83127755 None:intergenic 45.0%
!! AATTATCATATAAATTAAAA+AGG + Chr7:83127950-83127969 None:intergenic 5.0%
!! ATTATCATATAAATTAAAAA+GGG + Chr7:83127949-83127968 None:intergenic 5.0%
CCACCAATTGGTCCCAAAAG+AGG - Chr7:83127735-83127754 MsG0780040833.01.T01:CDS 50.0%
GCTGCAACACCAACTGTTGA+AGG - Chr7:83127687-83127706 MsG0780040833.01.T01:intron 50.0%
! TGTTGTTAGGGCATCTGAGG+AGG - Chr7:83127662-83127681 MsG0780040833.01.T01:intron 50.0%
!! TGGTCCCAAAAGAGGTGCTA+AGG - Chr7:83127743-83127762 MsG0780040833.01.T01:CDS 50.0%
!!! CCTCTTTTGGGACCAATTGG+TGG + Chr7:83127738-83127757 None:intergenic 50.0%
!!! CTTTTGGGACCAATTGGTGG+GGG + Chr7:83127735-83127754 None:intergenic 50.0%
!!! GCACCTCTTTTGGGACCAAT+TGG + Chr7:83127741-83127760 None:intergenic 50.0%
GCTGCCTCACCTTCAACAGT+TGG + Chr7:83127699-83127718 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 83127516 83128417 83127516 ID=MsG0780040833.01;Name=MsG0780040833.01
Chr7 mRNA 83127516 83128417 83127516 ID=MsG0780040833.01.T01;Parent=MsG0780040833.01;Name=MsG0780040833.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|3|0|139
Chr7 exon 83128169 83128417 83128169 ID=MsG0780040833.01.T01:exon:17407;Parent=MsG0780040833.01.T01
Chr7 exon 83127713 83127778 83127713 ID=MsG0780040833.01.T01:exon:17406;Parent=MsG0780040833.01.T01
Chr7 exon 83127516 83127620 83127516 ID=MsG0780040833.01.T01:exon:17405;Parent=MsG0780040833.01.T01
Chr7 CDS 83128169 83128417 83128169 ID=MsG0780040833.01.T01:cds;Parent=MsG0780040833.01.T01
Chr7 CDS 83127713 83127778 83127713 ID=MsG0780040833.01.T01:cds;Parent=MsG0780040833.01.T01
Chr7 CDS 83127516 83127620 83127516 ID=MsG0780040833.01.T01:cds;Parent=MsG0780040833.01.T01
Gene Sequence

>MsG0780040833.01.T01

ATGGCTAGTTGCAACATAGCATCAGCAGCTTCAGGGTTTGTGTTGTCACCTAATAATGTTTCAGGCAACACAAACACTAATTTATTAGCATCTAGAATGAACATGGTGATGTACCCTACTACTACAAAGAACACCAATTCTAGACTTGTTGTTAGGGCATCTGAGGAGGCTGCTGCAACACCAACTGTTGAAGGTGAGGCAGCTCCAAAAATCAAGCCCCCACCAATTGGTCCCAAAAGAGGTGCTAAGGTTAAGGTTCTTAGAAAAGAATCCTACTGGTTCAATGGTATTGGTTCTGTTGTTGCTGTTGATCAGGATCCTAATACTCGCTACCCAGTTGTGGTAAGATTCAACAAAGTTAACTATGCAAATGTATCAACAAACAACTATGCTTTGGATGAGATTGAGGAAGTCAAATGA

Protein sequence

>MsG0780040833.01.T01

MASCNIASAASGFVLSPNNVSGNTNTNLLASRMNMVMYPTTTKNTNSRLVVRASEEAAATPTVEGEAAPKIKPPPIGPKRGAKVKVLRKESYWFNGIGSVVAVDQDPNTRYPVVVRFNKVNYANVSTNNYALDEIEEVK*