AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039940.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039940.01.T03 MTR_7g081655 92.683 82 6 0 1 82 1 82 3.16e-49 155
MsG0780039940.01.T03 MTR_7g081655 86.957 46 6 0 77 122 153 198 7.35e-25 94.0
MsG0780039940.01.T03 MTR_7g092700 59.524 84 29 2 1 81 1 82 5.67e-28 101
MsG0780039940.01.T03 MTR_7g092710 57.317 82 32 2 1 81 1 80 1.63e-26 98.2
MsG0780039940.01.T02 MTR_7g081655 91.200 125 10 1 1 125 1 124 1.22e-76 226
MsG0780039940.01.T02 MTR_7g092700 63.934 122 39 2 1 119 1 120 7.06e-48 153
MsG0780039940.01.T02 MTR_7g092710 58.333 120 47 2 1 119 1 118 2.89e-43 141
MsG0780039940.01.T01 MTR_7g081655 73.737 198 8 1 1 154 1 198 2.05e-97 279
MsG0780039940.01.T01 MTR_7g092700 42.857 189 59 3 1 142 1 187 3.36e-42 139
MsG0780039940.01.T01 MTR_7g092710 42.021 188 58 6 1 142 1 183 2.72e-37 127
MsG0780039940.01.T04 MTR_7g081655 95.455 198 9 0 1 198 1 198 3.12e-136 379
MsG0780039940.01.T04 MTR_7g092700 59.788 189 71 2 1 186 1 187 1.75e-72 218
MsG0780039940.01.T04 MTR_7g092710 55.319 188 77 4 1 186 1 183 2.54e-64 197
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 27 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTGCTGTGCCTTTAGTTT+TGG 0.223985 7:-70851495 MsG0780039940.01.T04:CDS
ACACTGATTTCAAAATTTAC+TGG 0.263722 7:-70851838 MsG0780039940.01.T04:CDS
GCCGCGGCTTCTGAAGTTAA+AGG 0.280487 7:+70851803 None:intergenic
TACATAGAAGAGTTGATAAA+AGG 0.295698 7:-70851601 MsG0780039940.01.T04:CDS
GAAATGCTCTTAGTAGTAAA+TGG 0.339039 7:+70851639 None:intergenic
CTAGTTGGTCATAGTGAGTT+TGG 0.340454 7:-70851389 MsG0780039940.01.T04:CDS
TCTTAGTAGTAAATGGTAAA+TGG 0.348919 7:+70851646 None:intergenic
TGATGAAGGTGTTGTTGGTT+TGG 0.407827 7:+70851904 None:intergenic
ATAAGAAACATCGAAAATCT+TGG 0.416332 7:-70851770 MsG0780039940.01.T04:CDS
TCTATGTAGGACAACATTGT+TGG 0.455726 7:+70851616 None:intergenic
GAAATTGATGAAGGTGTTGT+TGG 0.457153 7:+70851899 None:intergenic
CTATGTAGGACAACATTGTT+GGG 0.459296 7:+70851617 None:intergenic
TTGTTGTTGTAACAAAGAAT+TGG 0.483614 7:-70851417 MsG0780039940.01.T04:CDS
TGAAGTTAAAGGAATGCTAA+AGG 0.485412 7:+70851814 None:intergenic
CATAGTGAGTTTGGAGGTGA+TGG 0.495696 7:-70851380 MsG0780039940.01.T04:CDS
GAAGTTAAAGGAATGCTAAA+GGG 0.499017 7:+70851815 None:intergenic
CAAAACATCATTGATTCTGT+TGG 0.502497 7:-70851690 MsG0780039940.01.T04:CDS
AAAGAATTGGCTCCACTAGT+TGG 0.507693 7:-70851404 MsG0780039940.01.T04:CDS
ATGGTAAATGGTTATCACAT+AGG 0.525062 7:+70851658 None:intergenic
ACTGCATGCCCCAAAACTAA+AGG 0.546097 7:+70851485 None:intergenic
TATGTTTCAGAAATTGATGA+AGG 0.554243 7:+70851890 None:intergenic
TCCTTTAACTTCAGAAGCCG+CGG 0.570738 7:-70851804 MsG0780039940.01.T04:CDS
TAAAGGCACAGCACAAGCTA+AGG 0.577950 7:+70851502 None:intergenic
GTTGGTCATAGTGAGTTTGG+AGG 0.586778 7:-70851386 MsG0780039940.01.T04:CDS
TCTTATGACGCGGATTGCCG+CGG 0.600903 7:+70851787 None:intergenic
AACTCACTATGACCAACTAG+TGG 0.644557 7:+70851392 None:intergenic
TTTCGATGTTTCTTATGACG+CGG 0.700132 7:+70851777 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAAGAAACATCGAAAATCT+TGG - Chr7:70851532-70851551 MsG0780039940.01.T04:CDS 25.0%
! TATGTTTCAGAAATTGATGA+AGG + Chr7:70851415-70851434 None:intergenic 25.0%
! TCTTAGTAGTAAATGGTAAA+TGG + Chr7:70851659-70851678 None:intergenic 25.0%
!! AGCTTTTCATGAGATTTTTT+TGG + Chr7:70851442-70851461 None:intergenic 25.0%
!! TTGTTGTTGTAACAAAGAAT+TGG - Chr7:70851885-70851904 MsG0780039940.01.T04:CDS 25.0%
!! TTTTATCAACTCTTCTATGT+AGG + Chr7:70851702-70851721 None:intergenic 25.0%
!!! ACACTGATTTCAAAATTTAC+TGG - Chr7:70851464-70851483 MsG0780039940.01.T04:CDS 25.0%
!!! TACATAGAAGAGTTGATAAA+AGG - Chr7:70851701-70851720 MsG0780039940.01.T04:CDS 25.0%
!!! TATATTACACACTTTTTGTG+TGG - Chr7:70851557-70851576 MsG0780039940.01.T04:CDS 25.0%
!!! TTTCATGAGATTTTTTTGGT+TGG + Chr7:70851438-70851457 None:intergenic 25.0%
ATGGTAAATGGTTATCACAT+AGG + Chr7:70851647-70851666 None:intergenic 30.0%
GAAATGCTCTTAGTAGTAAA+TGG + Chr7:70851666-70851685 None:intergenic 30.0%
GAAGTTAAAGGAATGCTAAA+GGG + Chr7:70851490-70851509 None:intergenic 30.0%
TGAAGTTAAAGGAATGCTAA+AGG + Chr7:70851491-70851510 None:intergenic 30.0%
! ATCAATGATGTTTTGTGATG+AGG + Chr7:70851607-70851626 None:intergenic 30.0%
! TCAATGATGTTTTGTGATGA+GGG + Chr7:70851606-70851625 None:intergenic 30.0%
!! CAAAACATCATTGATTCTGT+TGG - Chr7:70851612-70851631 MsG0780039940.01.T04:CDS 30.0%
CTATGTAGGACAACATTGTT+GGG + Chr7:70851688-70851707 None:intergenic 35.0%
TCTATGTAGGACAACATTGT+TGG + Chr7:70851689-70851708 None:intergenic 35.0%
TTTCGATGTTTCTTATGACG+CGG + Chr7:70851528-70851547 None:intergenic 35.0%
!! GAAATTGATGAAGGTGTTGT+TGG + Chr7:70851406-70851425 None:intergenic 35.0%
!! GGTTAGTCACTATGTTTTTG+AGG - Chr7:70851846-70851865 MsG0780039940.01.T04:CDS 35.0%
!!! CAATTGATTTTGACTGATGC+AGG - Chr7:70851760-70851779 MsG0780039940.01.T04:CDS 35.0%
!!! TCACTATGTTTTTGAGGTTG+AGG - Chr7:70851852-70851871 MsG0780039940.01.T04:CDS 35.0%
AACTCACTATGACCAACTAG+TGG + Chr7:70851913-70851932 None:intergenic 40.0%
CTAGTTGGTCATAGTGAGTT+TGG - Chr7:70851913-70851932 MsG0780039940.01.T04:CDS 40.0%
! AAAGAATTGGCTCCACTAGT+TGG - Chr7:70851898-70851917 MsG0780039940.01.T04:CDS 40.0%
! ATGTTTTGTGATGAGGGATG+AGG + Chr7:70851600-70851619 None:intergenic 40.0%
!! TGATGAAGGTGTTGTTGGTT+TGG + Chr7:70851401-70851420 None:intergenic 40.0%
!! TTGTGCTGTGCCTTTAGTTT+TGG - Chr7:70851807-70851826 MsG0780039940.01.T04:CDS 40.0%
!! TTTGGGGCATGCAGTTTTAT+GGG - Chr7:70851825-70851844 MsG0780039940.01.T04:CDS 40.0%
!!! TGTGCTGTGCCTTTAGTTTT+GGG - Chr7:70851808-70851827 MsG0780039940.01.T04:CDS 40.0%
!!! TTTTGGGGCATGCAGTTTTA+TGG - Chr7:70851824-70851843 MsG0780039940.01.T04:CDS 40.0%
ACTGCATGCCCCAAAACTAA+AGG + Chr7:70851820-70851839 None:intergenic 45.0%
CATAGTGAGTTTGGAGGTGA+TGG - Chr7:70851922-70851941 MsG0780039940.01.T04:CDS 45.0%
GTTGGTCATAGTGAGTTTGG+AGG - Chr7:70851916-70851935 MsG0780039940.01.T04:CDS 45.0%
! TAAAGGCACAGCACAAGCTA+AGG + Chr7:70851803-70851822 None:intergenic 45.0%
! TCCTTTAACTTCAGAAGCCG+CGG - Chr7:70851498-70851517 MsG0780039940.01.T04:CDS 45.0%
!!! GTGCTGTGCCTTTAGTTTTG+GGG - Chr7:70851809-70851828 MsG0780039940.01.T04:CDS 45.0%
! TCTTATGACGCGGATTGCCG+CGG + Chr7:70851518-70851537 None:intergenic 55.0%
!! GCCGCGGCTTCTGAAGTTAA+AGG + Chr7:70851502-70851521 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 70851364 70851960 70851364 ID=MsG0780039940.01;Name=MsG0780039940.01
Chr7 mRNA 70851364 70851960 70851364 ID=MsG0780039940.01.T01;Parent=MsG0780039940.01;Name=MsG0780039940.01.T01;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|0|0|2|0|154
Chr7 exon 70851364 70851581 70851364 ID=MsG0780039940.01.T01:exon:13567;Parent=MsG0780039940.01.T01
Chr7 CDS 70851714 70851960 70851714 ID=MsG0780039940.01.T01:cds;Parent=MsG0780039940.01.T01
Chr7 CDS 70851364 70851581 70851364 ID=MsG0780039940.01.T01:cds;Parent=MsG0780039940.01.T01
Chr7 mRNA 70851473 70851960 70851473 ID=MsG0780039940.01.T02;Parent=MsG0780039940.01;Name=MsG0780039940.01.T02;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|0|0|2|0|137
Chr7 exon 70851473 70851527 70851473 ID=MsG0780039940.01.T02:exon:13569;Parent=MsG0780039940.01.T02
Chr7 exon 70851602 70851960 70851602 ID=MsG0780039940.01.T02:exon:13568;Parent=MsG0780039940.01.T02
Chr7 CDS 70851602 70851960 70851602 ID=MsG0780039940.01.T02:cds;Parent=MsG0780039940.01.T02
Chr7 CDS 70851473 70851527 70851473 ID=MsG0780039940.01.T02:cds;Parent=MsG0780039940.01.T02
Chr7 mRNA 70851364 70851960 70851364 ID=MsG0780039940.01.T03;Parent=MsG0780039940.01;Name=MsG0780039940.01.T03;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|0|0|2|0|122
Chr7 exon 70851364 70851485 70851364 ID=MsG0780039940.01.T03:exon:13570;Parent=MsG0780039940.01.T03
Chr7 CDS 70851714 70851960 70851714 ID=MsG0780039940.01.T03:cds;Parent=MsG0780039940.01.T03
Chr7 CDS 70851364 70851485 70851364 ID=MsG0780039940.01.T03:cds;Parent=MsG0780039940.01.T03
Chr7 mRNA 70851364 70851960 70851364 ID=MsG0780039940.01.T04;Parent=MsG0780039940.01;Name=MsG0780039940.01.T04;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|198
Chr7 exon 70851364 70851960 70851364 ID=MsG0780039940.01.T04:exon:13571;Parent=MsG0780039940.01.T04
Chr7 CDS 70851364 70851960 70851364 ID=MsG0780039940.01.T04:cds;Parent=MsG0780039940.01.T04
Gene Sequence

>MsG0780039940.01.T03

ATGGCAATTCAAGCAACAACACATAGAACACAAACCAAACCAACAACACCTTCATCAATTTCTGAAACATACCAACCAAAAAAATCTCATGAAAAGCTCTACACTGATTTCAAAATTTACTGGCCCTTTAGCATTCCTTTAACTTCAGAAGCCGCGGCAATCCGCGTCATAAGAAACATCGAAAATCTTGGACTATATTACACACTTTTTGTGTGGATCATACTCTTCATAATCCTCATCCCTCATCTTTTATGGGTTAGTCACTATGTTTTTGAGGTTGAGGATGTTTCTTGTTGTTGTTGTAACAAAGAATTGGCTCCACTAGTTGGTCATAGTGAGTTTGGAGGTGATGGCTTAGAGAATGTTTGA

>MsG0780039940.01.T02

ATGGCAATTCAAGCAACAACACATAGAACACAAACCAAACCAACAACACCTTCATCAATTTCTGAAACATACCAACCAAAAAAATCTCATGAAAAGCTCTACACTGATTTCAAAATTTACTGGCCCTTTAGCATTCCTTTAACTTCAGAAGCCGCGGCAATCCGCGTCATAAGAAACATCGAAAATCTTGGACTATATTACACACTTTTTGTGTGGATCATACTCTTCATAATCCTCATCCCTCATCACAAAACATCATTGATTCTGTTGGTAATAATGACCTATGTGATAACCATTTACCATTTACTACTAAGAGCATTTCCCAACAATGTTGTCCTACATAGAAGAGTTGATAAAAGTTACCTTAGCTTGTGCTGTGCCTTTAGTTTTGGGGCATGCAGTTTTATGGGTTAG

>MsG0780039940.01.T01

ATGGCAATTCAAGCAACAACACATAGAACACAAACCAAACCAACAACACCTTCATCAATTTCTGAAACATACCAACCAAAAAAATCTCATGAAAAGCTCTACACTGATTTCAAAATTTACTGGCCCTTTAGCATTCCTTTAACTTCAGAAGCCGCGGCAATCCGCGTCATAAGAAACATCGAAAATCTTGGACTATATTACACACTTTTTGTGTGGATCATACTCTTCATAATCCTCATCCCTCATCTGTTTGCAACAATAGTGCAATTGATTTTGACTGATGCAGGTATTCGTCTTGCAGTTACCTTAGCTTGTGCTGTGCCTTTAGTTTTGGGGCATGCAGTTTTATGGGTTAGTCACTATGTTTTTGAGGTTGAGGATGTTTCTTGTTGTTGTTGTAACAAAGAATTGGCTCCACTAGTTGGTCATAGTGAGTTTGGAGGTGATGGCTTAGAGAATGTTTGA

>MsG0780039940.01.T04

ATGGCAATTCAAGCAACAACACATAGAACACAAACCAAACCAACAACACCTTCATCAATTTCTGAAACATACCAACCAAAAAAATCTCATGAAAAGCTCTACACTGATTTCAAAATTTACTGGCCCTTTAGCATTCCTTTAACTTCAGAAGCCGCGGCAATCCGCGTCATAAGAAACATCGAAAATCTTGGACTATATTACACACTTTTTGTGTGGATCATACTCTTCATAATCCTCATCCCTCATCACAAAACATCATTGATTCTGTTGGTAATAATGACCTATGTGATAACCATTTACCATTTACTACTAAGAGCATTTCCCAACAATGTTGTCCTACATAGAAGAGTTGATAAAAGGTTTGTATTATTTGTGTTAGTGTTTGCAACAATAGTGCAATTGATTTTGACTGATGCAGGTATTCGTCTTGCAGTTACCTTAGCTTGTGCTGTGCCTTTAGTTTTGGGGCATGCAGTTTTATGGGTTAGTCACTATGTTTTTGAGGTTGAGGATGTTTCTTGTTGTTGTTGTAACAAAGAATTGGCTCCACTAGTTGGTCATAGTGAGTTTGGAGGTGATGGCTTAGAGAATGTTTGA

Protein sequence

>MsG0780039940.01.T03

MAIQATTHRTQTKPTTPSSISETYQPKKSHEKLYTDFKIYWPFSIPLTSEAAAIRVIRNIENLGLYYTLFVWIILFIILIPHLLWVSHYVFEVEDVSCCCCNKELAPLVGHSEFGGDGLENV*

>MsG0780039940.01.T02

MAIQATTHRTQTKPTTPSSISETYQPKKSHEKLYTDFKIYWPFSIPLTSEAAAIRVIRNIENLGLYYTLFVWIILFIILIPHHKTSLILLVIMTYVITIYHLLLRAFPNNVVLHRRVDKSYLSLCCAFSFGACSFMG*

>MsG0780039940.01.T01

MAIQATTHRTQTKPTTPSSISETYQPKKSHEKLYTDFKIYWPFSIPLTSEAAAIRVIRNIENLGLYYTLFVWIILFIILIPHLFATIVQLILTDAGIRLAVTLACAVPLVLGHAVLWVSHYVFEVEDVSCCCCNKELAPLVGHSEFGGDGLENV*

>MsG0780039940.01.T04

MAIQATTHRTQTKPTTPSSISETYQPKKSHEKLYTDFKIYWPFSIPLTSEAAAIRVIRNIENLGLYYTLFVWIILFIILIPHHKTSLILLVIMTYVITIYHLLLRAFPNNVVLHRRVDKRFVLFVLVFATIVQLILTDAGIRLAVTLACAVPLVLGHAVLWVSHYVFEVEDVSCCCCNKELAPLVGHSEFGGDGLENV*