AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018653.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018653.01.T01 MTR_7g100560 52.239 134 14 1 24 157 187 270 4.22e-32 117
MsG0480018653.01.T01 MTR_7g021130 40.278 144 75 1 25 157 223 366 2.40e-25 101
MsG0480018653.01.T01 MTR_3g434850 37.931 145 79 2 25 158 220 364 5.34e-25 100
MsG0480018653.01.T01 MTR_1g102130 36.806 144 81 1 25 158 257 400 2.29e-24 98.6
MsG0480018653.01.T01 MTR_2g449850 36.735 147 76 2 25 158 230 372 2.02e-21 90.1
MsG0480018653.01.T01 MTR_3g498755 33.333 147 85 1 25 158 209 355 6.91e-21 88.6
MsG0480018653.01.T01 MTR_8g099930 32.653 147 86 1 25 158 226 372 5.05e-20 86.3
MsG0480018653.01.T01 MTR_1g040370 33.582 134 61 4 25 158 220 325 1.68e-14 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018653.01.T01 AT1G28110 36.111 144 81 2 25 157 224 367 2.42e-21 90.1
MsG0480018653.01.T01 AT1G28110 36.111 144 81 2 25 157 224 367 2.42e-21 90.1
MsG0480018653.01.T01 AT2G33530 34.247 146 83 1 25 157 226 371 4.66e-20 86.3

Find 40 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCTGCTACTCTTGGAATT+TGG 0.175791 4:+8059371 MsG0480018653.01.T01:CDS
CCCTTGTTAATGCAGGTTTA+AGG 0.179467 4:+8059568 MsG0480018653.01.T01:CDS
GATTGCAAACCTTCGTTAAA+AGG 0.206055 4:-8059230 None:intergenic
ATTAAAAGAGAACGGATTTA+TGG 0.220992 4:+8059261 MsG0480018653.01.T01:CDS
CTCTGCATGTCGGGCTCTTC+AGG 0.233313 4:+8059463 MsG0480018653.01.T01:CDS
CACCAACATCATGTACAAAT+TGG 0.273244 4:-8059317 None:intergenic
CCTTTGGGCATGGGTGGAAT+TGG 0.327705 4:+8058420 MsG0480018653.01.T01:CDS
CATGGGTGGAATTGGAAAAT+AGG 0.337278 4:+8058428 MsG0480018653.01.T01:CDS
CTAAAGTGTGGAGCTGCCTT+TGG 0.361862 4:+8058404 MsG0480018653.01.T01:CDS
CCTTGTTAATGCAGGTTTAA+GGG 0.377045 4:+8059569 MsG0480018653.01.T01:CDS
TGCAGGATGCTCTGCATGTC+GGG 0.385345 4:+8059454 MsG0480018653.01.T01:CDS
GTGGAGCTGCCTTTGGGCAT+GGG 0.414485 4:+8058411 MsG0480018653.01.T01:CDS
GGTTCCAAGCTTTAAGATCA+TGG 0.428585 4:-8059547 None:intergenic
CGGATTTATGGTGGAGTTCG+TGG 0.445613 4:+8059273 MsG0480018653.01.T01:CDS
TAAAGTGTGGAGCTGCCTTT+GGG 0.456142 4:+8058405 MsG0480018653.01.T01:CDS
TGTGGAGCTGCCTTTGGGCA+TGG 0.463970 4:+8058410 MsG0480018653.01.T01:CDS
TTGATAACATCTGCTACTCT+TGG 0.466352 4:+8059364 MsG0480018653.01.T01:CDS
CTTGGAACCCTTGTTAATGC+AGG 0.475968 4:+8059561 MsG0480018653.01.T01:CDS
CCCTTAAACCTGCATTAACA+AGG 0.480844 4:-8059569 None:intergenic
GAGCTGCCTTTGGGCATGGG+TGG 0.490494 4:+8058414 MsG0480018653.01.T01:CDS
GTTTAAGGGGTCCTAGCTTA+CGG 0.493709 4:+8059583 MsG0480018653.01.T01:CDS
GGCTCTTCAGGAAGAAGTCT+TGG 0.497131 4:+8059475 MsG0480018653.01.T01:CDS
ATTCCCATGATCTTAAAGCT+TGG 0.501172 4:+8059543 MsG0480018653.01.T01:CDS
TAGCGTGAGGTTCATGCTCA+TGG 0.511333 4:-8058384 None:intergenic
AAAACTCTCCACCGTAAGCT+AGG 0.520230 4:-8059594 None:intergenic
GTTCCAAGCTTTAAGATCAT+GGG 0.521081 4:-8059546 None:intergenic
TCTGAACAGAAGAGATGTGC+AGG 0.529267 4:+8059437 MsG0480018653.01.T01:CDS
AAGAGTAGCAGATGTTATCA+AGG 0.533660 4:-8059362 None:intergenic
TTCCAATTTGTACATGATGT+TGG 0.539564 4:+8059315 MsG0480018653.01.T01:CDS
ATTCCCAAATTAAAAGAGAA+CGG 0.539955 4:+8059253 MsG0480018653.01.T01:CDS
CTTGTTAATGCAGGTTTAAG+GGG 0.540203 4:+8059570 MsG0480018653.01.T01:CDS
AAAAGAGAACGGATTTATGG+TGG 0.557679 4:+8059264 MsG0480018653.01.T01:CDS
GTGCAGGATGCTCTGCATGT+CGG 0.559726 4:+8059453 MsG0480018653.01.T01:CDS
AACCTTCGTTAAAAGGTCAA+AGG 0.590559 4:-8059223 None:intergenic
CCAATTCCACCCATGCCCAA+AGG 0.590613 4:-8058420 None:intergenic
CAGCTCCACACTTTAGCGTG+AGG 0.621748 4:-8058397 None:intergenic
ATGAACCTCACGCTAAAGTG+TGG 0.648300 4:+8058392 MsG0480018653.01.T01:CDS
CCTTAAACCTGCATTAACAA+GGG 0.669692 4:-8059568 None:intergenic
TAAGGGGTCCTAGCTTACGG+TGG 0.691178 4:+8059586 MsG0480018653.01.T01:CDS
TGGGAATTTCATAATCACGA+AGG 0.694646 4:-8059527 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAATCATATAAATTTGA+AGG + Chr4:8059107-8059126 MsG0480018653.01.T01:intron 10.0%
!! AAAAATCATATAAATTTGAA+GGG + Chr4:8059108-8059127 MsG0480018653.01.T01:intron 10.0%
!! AAAATCATATAAATTTGAAG+GGG + Chr4:8059109-8059128 MsG0480018653.01.T01:intron 15.0%
!! TAAATAATAAAAGTCATACT+AGG + Chr4:8058791-8058810 MsG0480018653.01.T01:intron 15.0%
!! AATAAAATGTTTAGGTGATT+TGG + Chr4:8058743-8058762 MsG0480018653.01.T01:intron 20.0%
!! CAAAATAGAAAAATAATTGG+AGG - Chr4:8058924-8058943 None:intergenic 20.0%
!! GCACAAAATAGAAAAATAAT+TGG - Chr4:8058927-8058946 None:intergenic 20.0%
!!! ATTATTTTTCTATTTTGTGC+AGG + Chr4:8058927-8058946 MsG0480018653.01.T01:intron 20.0%
!!! TTGTTTTTATAGTAAGAAAG+AGG - Chr4:8058702-8058721 None:intergenic 20.0%
! ATTCCCAAATTAAAAGAGAA+CGG + Chr4:8059253-8059272 MsG0480018653.01.T01:CDS 25.0%
! TGAAACTAAAGTATACATGT+CGG - Chr4:8058881-8058900 None:intergenic 25.0%
!! ATTAAAAGAGAACGGATTTA+TGG + Chr4:8059261-8059280 MsG0480018653.01.T01:CDS 25.0%
!!! AAACTTTTTCCTCTTTATAG+TGG + Chr4:8058660-8058679 MsG0480018653.01.T01:intron 25.0%
!!! AAATCCGTTCTCTTTTAATT+TGG - Chr4:8059260-8059279 None:intergenic 25.0%
!!! AATCCGTTCTCTTTTAATTT+GGG - Chr4:8059259-8059278 None:intergenic 25.0%
AAGAATCAGATTTGCAAGTT+GGG - Chr4:8059082-8059101 None:intergenic 30.0%
AGGATAAAGATATGAGTGTT+TGG - Chr4:8058904-8058923 None:intergenic 30.0%
CTTTATAGTGGTAAATCGTA+GGG + Chr4:8058672-8058691 MsG0480018653.01.T01:intron 30.0%
GAAACTAAAGTATACATGTC+GGG - Chr4:8058880-8058899 None:intergenic 30.0%
GTTAAAACCAAGAAGAGAAT+TGG - Chr4:8059145-8059164 None:intergenic 30.0%
TACGATTTACCACTATAAAG+AGG - Chr4:8058672-8058691 None:intergenic 30.0%
TCTTTATAGTGGTAAATCGT+AGG + Chr4:8058671-8058690 MsG0480018653.01.T01:intron 30.0%
TTCCAATTTGTACATGATGT+TGG + Chr4:8059315-8059334 MsG0480018653.01.T01:CDS 30.0%
! ACTTTTGGATCTTGGAAAAT+AGG + Chr4:8058497-8058516 MsG0480018653.01.T01:intron 30.0%
! ATTCTGTAGCCAGTTTTTAT+TGG + Chr4:8059175-8059194 MsG0480018653.01.T01:intron 30.0%
!! AAAGAGGAAAAAGTTTTGTG+TGG - Chr4:8058656-8058675 None:intergenic 30.0%
!!! ACATGATGTTGGTGATTTTA+GGG + Chr4:8059326-8059345 MsG0480018653.01.T01:CDS 30.0%
!!! TACATGATGTTGGTGATTTT+AGG + Chr4:8059325-8059344 MsG0480018653.01.T01:CDS 30.0%
!!! TTCTCTTCTAAGGTTACTTT+TGG + Chr4:8058482-8058501 MsG0480018653.01.T01:intron 30.0%
AACCTTCGTTAAAAGGTCAA+AGG - Chr4:8059226-8059245 None:intergenic 35.0%
AAGAGTAGCAGATGTTATCA+AGG - Chr4:8059365-8059384 None:intergenic 35.0%
ACCATGAGACCAATAAAAAC+TGG - Chr4:8059187-8059206 None:intergenic 35.0%
AGAATCAGATTTGCAAGTTG+GGG - Chr4:8059081-8059100 None:intergenic 35.0%
ATTCCCATGATCTTAAAGCT+TGG + Chr4:8059543-8059562 MsG0480018653.01.T01:CDS 35.0%
CACCAACATCATGTACAAAT+TGG - Chr4:8059320-8059339 None:intergenic 35.0%
CCTTAAACCTGCATTAACAA+GGG - Chr4:8059571-8059590 None:intergenic 35.0%
CCTTGTTAATGCAGGTTTAA+GGG + Chr4:8059569-8059588 MsG0480018653.01.T01:CDS 35.0%
CTTGTTAATGCAGGTTTAAG+GGG + Chr4:8059570-8059589 MsG0480018653.01.T01:CDS 35.0%
GAAGAATCAGATTTGCAAGT+TGG - Chr4:8059083-8059102 None:intergenic 35.0%
GATTGCAAACCTTCGTTAAA+AGG - Chr4:8059233-8059252 None:intergenic 35.0%
TCTTCTTGCTTTCTCTTCTA+AGG + Chr4:8058472-8058491 MsG0480018653.01.T01:intron 35.0%
TGGGAATTTCATAATCACGA+AGG - Chr4:8059530-8059549 None:intergenic 35.0%
! AAAAGAGAACGGATTTATGG+TGG + Chr4:8059264-8059283 MsG0480018653.01.T01:CDS 35.0%
! TTGATAACATCTGCTACTCT+TGG + Chr4:8059364-8059383 MsG0480018653.01.T01:CDS 35.0%
! TTTTCTATTTTGTGCAGGCT+TGG + Chr4:8058932-8058951 MsG0480018653.01.T01:intron 35.0%
!! GGTGATTTGGTAATTGTGTT+TGG + Chr4:8058756-8058775 MsG0480018653.01.T01:intron 35.0%
!! GTTCCAAGCTTTAAGATCAT+GGG - Chr4:8059549-8059568 None:intergenic 35.0%
!!! CATGATGTTGGTGATTTTAG+GGG + Chr4:8059327-8059346 MsG0480018653.01.T01:CDS 35.0%
!!! CTAAGGTTACTTTTGGATCT+TGG + Chr4:8058489-8058508 MsG0480018653.01.T01:intron 35.0%
CATCTGCTACTCTTGGAATT+TGG + Chr4:8059371-8059390 MsG0480018653.01.T01:CDS 40.0%
CATGGGTGGAATTGGAAAAT+AGG + Chr4:8058428-8058447 MsG0480018653.01.T01:CDS 40.0%
CCCTTAAACCTGCATTAACA+AGG - Chr4:8059572-8059591 None:intergenic 40.0%
CCCTTGTTAATGCAGGTTTA+AGG + Chr4:8059568-8059587 MsG0480018653.01.T01:CDS 40.0%
GCTATTGCCAATTCTCTTCT+TGG + Chr4:8059135-8059154 MsG0480018653.01.T01:intron 40.0%
TTGTGAAAAATCCCCACAGT+TGG + Chr4:8059036-8059055 MsG0480018653.01.T01:intron 40.0%
! GACCTTTGACCTTTTAACGA+AGG + Chr4:8059221-8059240 MsG0480018653.01.T01:CDS 40.0%
!! GCCAGTTTTTATTGGTCTCA+TGG + Chr4:8059183-8059202 MsG0480018653.01.T01:intron 40.0%
!! GGTTCCAAGCTTTAAGATCA+TGG - Chr4:8059550-8059569 None:intergenic 40.0%
AAAACTCTCCACCGTAAGCT+AGG - Chr4:8059597-8059616 None:intergenic 45.0%
AATCCCCACAGTTGGATATG+CGG + Chr4:8059044-8059063 MsG0480018653.01.T01:intron 45.0%
ACCCTCCTTTGTTAGTGTGA+AGG - Chr4:8059015-8059034 None:intergenic 45.0%
ACCCTTCACACTAACAAAGG+AGG + Chr4:8059010-8059029 MsG0480018653.01.T01:intron 45.0%
ATGAACCTCACGCTAAAGTG+TGG + Chr4:8058392-8058411 MsG0480018653.01.T01:CDS 45.0%
CCCTCCTTTGTTAGTGTGAA+GGG - Chr4:8059014-8059033 None:intergenic 45.0%
CCCTTCACACTAACAAAGGA+GGG + Chr4:8059011-8059030 MsG0480018653.01.T01:intron 45.0%
CTTGGAACCCTTGTTAATGC+AGG + Chr4:8059561-8059580 MsG0480018653.01.T01:CDS 45.0%
GTTTAAGGGGTCCTAGCTTA+CGG + Chr4:8059583-8059602 MsG0480018653.01.T01:CDS 45.0%
TAAAGTGTGGAGCTGCCTTT+GGG + Chr4:8058405-8058424 MsG0480018653.01.T01:CDS 45.0%
TCTGAACAGAAGAGATGTGC+AGG + Chr4:8059437-8059456 MsG0480018653.01.T01:CDS 45.0%
TGGACCCTTCACACTAACAA+AGG + Chr4:8059007-8059026 MsG0480018653.01.T01:intron 45.0%
!! AATTAATAAATAAAATGTTT+AGG + Chr4:8058735-8058754 MsG0480018653.01.T01:intron 5.0%
ATCCCCACAGTTGGATATGC+GGG + Chr4:8059045-8059064 MsG0480018653.01.T01:intron 50.0%
ATGACCCGCATATCCAACTG+TGG - Chr4:8059052-8059071 None:intergenic 50.0%
CTAAAGTGTGGAGCTGCCTT+TGG + Chr4:8058404-8058423 MsG0480018653.01.T01:CDS 50.0%
GGCTCTTCAGGAAGAAGTCT+TGG + Chr4:8059475-8059494 MsG0480018653.01.T01:CDS 50.0%
GGTCCATTCGACCTAAAACC+AGG - Chr4:8058993-8059012 None:intergenic 50.0%
TAGCGTGAGGTTCATGCTCA+TGG - Chr4:8058387-8058406 None:intergenic 50.0%
TGACCCGCATATCCAACTGT+GGG - Chr4:8059051-8059070 None:intergenic 50.0%
TGGTCCTGTGGTTGAATGGA+GGG + Chr4:8058967-8058986 MsG0480018653.01.T01:intron 50.0%
! CGGATTTATGGTGGAGTTCG+TGG + Chr4:8059273-8059292 MsG0480018653.01.T01:CDS 50.0%
!! TGAATGGAGGGCCTGGTTTT+AGG + Chr4:8058979-8058998 MsG0480018653.01.T01:intron 50.0%
CAGCTCCACACTTTAGCGTG+AGG - Chr4:8058400-8058419 None:intergenic 55.0%
CCAATTCCACCCATGCCCAA+AGG - Chr4:8058423-8058442 None:intergenic 55.0%
CCAGTGGTCCTGTGGTTGAA+TGG + Chr4:8058963-8058982 MsG0480018653.01.T01:intron 55.0%
CCATTCAACCACAGGACCAC+TGG - Chr4:8058966-8058985 None:intergenic 55.0%
CCTTTGGGCATGGGTGGAAT+TGG + Chr4:8058420-8058439 MsG0480018653.01.T01:CDS 55.0%
GACCCGCATATCCAACTGTG+GGG - Chr4:8059050-8059069 None:intergenic 55.0%
GTGCAGGATGCTCTGCATGT+CGG + Chr4:8059453-8059472 MsG0480018653.01.T01:CDS 55.0%
GTGGTCCTGTGGTTGAATGG+AGG + Chr4:8058966-8058985 MsG0480018653.01.T01:intron 55.0%
TAAGGGGTCCTAGCTTACGG+TGG + Chr4:8059586-8059605 MsG0480018653.01.T01:CDS 55.0%
TGCAGGATGCTCTGCATGTC+GGG + Chr4:8059454-8059473 MsG0480018653.01.T01:CDS 55.0%
! CAACCACAGGACCACTGGTT+TGG - Chr4:8058961-8058980 None:intergenic 55.0%
!!! GGGCCTGGTTTTAGGTCGAA+TGG + Chr4:8058987-8059006 MsG0480018653.01.T01:intron 55.0%
AGGCTTGGCCTCCAAACCAG+TGG + Chr4:8058947-8058966 MsG0480018653.01.T01:intron 60.0%
CAGGCCCTCCATTCAACCAC+AGG - Chr4:8058974-8058993 None:intergenic 60.0%
CCTCCAAACCAGTGGTCCTG+TGG + Chr4:8058955-8058974 MsG0480018653.01.T01:intron 60.0%
CTCTGCATGTCGGGCTCTTC+AGG + Chr4:8059463-8059482 MsG0480018653.01.T01:CDS 60.0%
CTGTGGTTGAATGGAGGGCC+TGG + Chr4:8058972-8058991 MsG0480018653.01.T01:intron 60.0%
GTGGAGCTGCCTTTGGGCAT+GGG + Chr4:8058411-8058430 MsG0480018653.01.T01:CDS 60.0%
TGTGGAGCTGCCTTTGGGCA+TGG + Chr4:8058410-8058429 MsG0480018653.01.T01:CDS 60.0%
!! CCACAGGACCACTGGTTTGG+AGG - Chr4:8058958-8058977 None:intergenic 60.0%
GAGCTGCCTTTGGGCATGGG+TGG + Chr4:8058414-8058433 MsG0480018653.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 8058379 8059623 8058379 ID=MsG0480018653.01;Name=MsG0480018653.01
Chr4 mRNA 8058379 8059623 8058379 ID=MsG0480018653.01.T01;Parent=MsG0480018653.01;Name=MsG0480018653.01.T01;_AED=0.39;_eAED=0.43;_QI=0|0|0|0.5|1|0.5|2|0|168
Chr4 exon 8058379 8058449 8058379 ID=MsG0480018653.01.T01:exon:1935;Parent=MsG0480018653.01.T01
Chr4 exon 8059188 8059623 8059188 ID=MsG0480018653.01.T01:exon:1936;Parent=MsG0480018653.01.T01
Chr4 CDS 8058379 8058449 8058379 ID=MsG0480018653.01.T01:cds;Parent=MsG0480018653.01.T01
Chr4 CDS 8059188 8059623 8059188 ID=MsG0480018653.01.T01:cds;Parent=MsG0480018653.01.T01
Gene Sequence

>MsG0480018653.01.T01

ACTCACCATGAGCATGAACCTCACGCTAAAGTGTGGAGCTGCCTTTGGGCATGGGTGGAATTGGAAAATAGTTTTTATTGGTCTCATGGTGTTATATCTGAGCAGACCTTTGACCTTTTAACGAAGGTTTGCAATCATTCCCAAATTAAAAGAGAACGGATTTATGGTGGAGTTCGTGGCATTTGCAAGCAAGTGTATTTCCAATTTGTACATGATGTTGGTGATTTTAGGGGTTACACTGATGTCCTTGATAACATCTGCTACTCTTGGAATTTGGATTTTGTGATCACTGACTGTGTTAATTATCTAACTTTCACATATCTGAACAGAAGAGATGTGCAGGATGCTCTGCATGTCGGGCTCTTCAGGAAGAAGTCTTGGTCATTTTGCACATTTCATGATGATTATGACCTTCGTGATTATGAAATTCCCATGATCTTAAAGCTTGGAACCCTTGTTAATGCAGGTTTAAGGGGTCCTAGCTTACGGTGGAGAGTTTTATTTTGA

Protein sequence

>MsG0480018653.01.T01

THHEHEPHAKVWSCLWAWVELENSFYWSHGVISEQTFDLLTKVCNHSQIKRERIYGGVRGICKQVYFQFVHDVGDFRGYTDVLDNICYSWNLDFVITDCVNYLTFTYLNRRDVQDALHVGLFRKKSWSFCTFHDDYDLRDYEIPMILKLGTLVNAGLRGPSLRWRVLF*