AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012126


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012126.t1 MTR_5g028350 86.159 289 37 2 1 286 1 289 5.96e-171 474
MS.gene012126.t1 MTR_8g075400 87.108 287 10 2 1 287 14 273 5.10e-164 456
MS.gene012126.t1 MTR_8g075400 98.198 222 4 0 1 222 1 222 5.39e-159 443
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012126.t1 AT3G22660 64.583 288 95 3 2 288 12 293 7.03e-126 360

Find 69 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGCCTCCAAAGCCAAATT+TGG 0.135328 8.4:-29801669 None:intergenic
GCTGATACTACTAATGATTT+TGG 0.192046 8.4:+29801716 MS.gene012126:CDS
GATGTTAAGAATTCCAAATT+TGG 0.278385 8.4:+29801656 MS.gene012126:CDS
ATTAGCTGAACCATCTAAAA+AGG 0.298870 8.4:+29801028 MS.gene012126:CDS
AGAAAGGGCCAAGCAGAAAA+AGG 0.337714 8.4:+29801430 MS.gene012126:CDS
TGTATCCATTCCACATTCTC+TGG 0.362791 8.4:-29801101 None:intergenic
AATTCCAAATTTGGCTTTGG+AGG 0.373337 8.4:+29801665 MS.gene012126:CDS
AAGAATTCCAAATTTGGCTT+TGG 0.378859 8.4:+29801662 MS.gene012126:CDS
CTGAAGAGAGAAGAAAGGCC+AGG 0.422247 8.4:+29801363 MS.gene012126:CDS
GAAAAGACCTGGAGTGTCTC+CGG 0.423295 8.4:+29801571 MS.gene012126:CDS
AGATAATCTCTTGGCCTCCC+TGG 0.430466 8.4:-29801381 None:intergenic
AGTCACAGAAATTAAAAGAA+AGG 0.442695 8.4:+29801414 MS.gene012126:CDS
GTGTCTCCGGGTGACCGATC+AGG 0.444973 8.4:+29801584 MS.gene012126:CDS
TAGTCTGCAGGCCTTAGAAA+AGG 0.445288 8.4:-29801257 None:intergenic
CTTTGAGAAACTTCAGTCAA+TGG 0.454306 8.4:+29801229 MS.gene012126:CDS
CGATGGCGCAGATAAGGCTT+TGG 0.456534 8.4:+29801511 MS.gene012126:CDS
TGCAGACTATTATGCTGAAA+TGG 0.457564 8.4:+29801271 MS.gene012126:CDS
CTGCTCTTGATCGATGTCAA+TGG 0.460523 8.4:-29801132 None:intergenic
GTCACAGAAATTAAAAGAAA+GGG 0.462057 8.4:+29801415 MS.gene012126:CDS
GGTAAGGCAAAGCAAGCCTT+TGG 0.462245 8.4:+29801608 MS.gene012126:CDS
TGGCTTCTTTCCCTTTCCAA+AGG 0.463981 8.4:-29801624 None:intergenic
TGCTGACGATGGCGCAGATA+AGG 0.473187 8.4:+29801505 MS.gene012126:CDS
TTTGAGAAACTTCAGTCAAT+GGG 0.475684 8.4:+29801230 MS.gene012126:CDS
ACATTGAATCTGTTAAGAAA+TGG 0.479309 8.4:+29801456 MS.gene012126:CDS
GAGGAAGTAAGAAGAGAAAG+AGG 0.489339 8.4:+29801765 MS.gene012126:CDS
GCAAAGCAAGCCTTTGGAAA+GGG 0.492131 8.4:+29801614 MS.gene012126:CDS
AATGATGATACAATGGTTGA+TGG 0.492459 8.4:+29800942 MS.gene012126:CDS
AACCTCTTTAGATAATCTCT+TGG 0.505477 8.4:-29801390 None:intergenic
TTACCTCCTGATCGGTCACC+CGG 0.505687 8.4:-29801590 None:intergenic
TTTGGCTTTGGAGGCAAGAA+GGG 0.507591 8.4:+29801674 MS.gene012126:CDS
CATAAGCTGGCCAGAGAATG+TGG 0.514747 8.4:+29801091 MS.gene012126:CDS
AGATAAGGCTTTGGACTTCG+AGG 0.515894 8.4:+29801520 MS.gene012126:CDS
AGATTGAATGGAGCTGCCTC+TGG 0.515931 8.4:+29800917 None:intergenic
GGCATTGGAGGGTACTAGAC+AGG 0.518118 8.4:+29801205 MS.gene012126:CDS
TCTTCTGATTCTGATTCAGA+TGG 0.519325 8.4:-29800996 None:intergenic
ATTTGGCTTTGGAGGCAAGA+AGG 0.519353 8.4:+29801673 MS.gene012126:CDS
GCTTTGCCTTACCTCCTGAT+CGG 0.526130 8.4:-29801598 None:intergenic
AGAGGCTGAAGAGAGAAGAA+AGG 0.526636 8.4:+29801358 MS.gene012126:CDS
GATGCTCTATTAGATAAACT+TGG 0.532375 8.4:+29801065 MS.gene012126:CDS
AAAAGACCTGGAGTGTCTCC+GGG 0.535827 8.4:+29801572 MS.gene012126:CDS
ATTAGCAGAGAAGCAGAAGA+TGG 0.537363 8.4:+29801334 MS.gene012126:CDS
AGTCTGCAGGCCTTAGAAAA+GGG 0.538151 8.4:-29801256 None:intergenic
CGGTCAAAGAAGAAAAGACC+TGG 0.554286 8.4:+29801560 MS.gene012126:CDS
ATTTCAGCATAATAGTCTGC+AGG 0.562441 8.4:-29801269 None:intergenic
TGAAGAGAGAAGAAAGGCCA+GGG 0.563172 8.4:+29801364 MS.gene012126:CDS
CATTGACATCGATCAAGAGC+AGG 0.572289 8.4:+29801133 MS.gene012126:CDS
ATAAACTTGGAGACATAAGC+TGG 0.573791 8.4:+29801078 MS.gene012126:CDS
GGGTGACCGATCAGGAGGTA+AGG 0.574615 8.4:+29801592 MS.gene012126:CDS
CGGTCACCCGGAGACACTCC+AGG 0.576723 8.4:-29801578 None:intergenic
GGCCAAGAGATTATCTAAAG+AGG 0.579968 8.4:+29801388 MS.gene012126:CDS
GGCAAAGCAAGCCTTTGGAA+AGG 0.581107 8.4:+29801613 MS.gene012126:CDS
AGAGAAGCAGAAGATGGTAG+AGG 0.581371 8.4:+29801340 MS.gene012126:CDS
AGTAGATGTTAATGATGACT+TGG 0.588825 8.4:+29801157 MS.gene012126:CDS
TTGAATCTGTTAAGAAATGG+AGG 0.588933 8.4:+29801459 MS.gene012126:CDS
TTTGGACTTCGAGGACGGAA+AGG 0.593158 8.4:+29801529 MS.gene012126:CDS
AGGAAGCAGAGGCAACAAAG+TGG 0.602796 8.4:+29801479 MS.gene012126:CDS
AAGGCTTTGGACTTCGAGGA+CGG 0.606211 8.4:+29801524 MS.gene012126:CDS
GGAAGCAGAGGCAACAAAGT+GGG 0.615514 8.4:+29801480 MS.gene012126:CDS
CAAAGTGGGTTTGCTGACGA+TGG 0.619387 8.4:+29801494 MS.gene012126:CDS
TTAAGAAATGGAGGAAGCAG+AGG 0.621715 8.4:+29801468 MS.gene012126:CDS
CATTGACTGAAGTTTCTCAA+AGG 0.625618 8.4:-29801228 None:intergenic
TCTCCGGGTGACCGATCAGG+AGG 0.644315 8.4:+29801587 MS.gene012126:CDS
GCTGGCCAGAGAATGTGGAA+TGG 0.647233 8.4:+29801096 MS.gene012126:CDS
AGAGAGAAGAAAGGCCAGGG+AGG 0.661477 8.4:+29801367 MS.gene012126:CDS
TCTGGTTAATGATGATACAA+TGG 0.663757 8.4:+29800935 MS.gene012126:CDS
ATTGTATCATCATTAACCAG+AGG 0.690136 8.4:-29800933 None:intergenic
TGAAGCTGAGTATTTGAGTG+AGG 0.691291 8.4:+29800965 MS.gene012126:CDS
AGGACGGAAAGGTGTTCGAG+CGG 0.718016 8.4:+29801540 MS.gene012126:CDS
GGTGAAGACAGATAGCCACA+TGG 0.738846 8.4:+29801292 MS.gene012126:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACATTGAATCTGTTAAGAAA+TGG + chr8.4:29801456-29801475 MS.gene012126:CDS 25.0%
! AGTCACAGAAATTAAAAGAA+AGG + chr8.4:29801414-29801433 MS.gene012126:CDS 25.0%
! GATGTTAAGAATTCCAAATT+TGG + chr8.4:29801656-29801675 MS.gene012126:CDS 25.0%
! GTCACAGAAATTAAAAGAAA+GGG + chr8.4:29801415-29801434 MS.gene012126:CDS 25.0%
!! TTATTTACTGCCTTTTTAGA+TGG - chr8.4:29801041-29801060 None:intergenic 25.0%
!! TTCTTAACATCTCTTTTCTT+TGG - chr8.4:29801647-29801666 None:intergenic 25.0%
AACCTCTTTAGATAATCTCT+TGG - chr8.4:29801393-29801412 None:intergenic 30.0%
AATGATGATACAATGGTTGA+TGG + chr8.4:29800942-29800961 MS.gene012126:CDS 30.0%
ACATGGAAAAAGTGAAAAGT+CGG + chr8.4:29801309-29801328 MS.gene012126:CDS 30.0%
AGTAGATGTTAATGATGACT+TGG + chr8.4:29801157-29801176 MS.gene012126:CDS 30.0%
ATTAGCTGAACCATCTAAAA+AGG + chr8.4:29801028-29801047 MS.gene012126:CDS 30.0%
ATTGTATCATCATTAACCAG+AGG - chr8.4:29800936-29800955 None:intergenic 30.0%
GATGCTCTATTAGATAAACT+TGG + chr8.4:29801065-29801084 MS.gene012126:CDS 30.0%
TCTGGTTAATGATGATACAA+TGG + chr8.4:29800935-29800954 MS.gene012126:CDS 30.0%
TTGAATCTGTTAAGAAATGG+AGG + chr8.4:29801459-29801478 MS.gene012126:CDS 30.0%
TTTGAGAAACTTCAGTCAAT+GGG + chr8.4:29801230-29801249 MS.gene012126:CDS 30.0%
! AAGAATTCCAAATTTGGCTT+TGG + chr8.4:29801662-29801681 MS.gene012126:CDS 30.0%
! GATACTACTAATGATTTTGG+TGG + chr8.4:29801719-29801738 MS.gene012126:CDS 30.0%
! GCTGATACTACTAATGATTT+TGG + chr8.4:29801716-29801735 MS.gene012126:CDS 30.0%
ATAAACTTGGAGACATAAGC+TGG + chr8.4:29801078-29801097 MS.gene012126:CDS 35.0%
ATTTCAGCATAATAGTCTGC+AGG - chr8.4:29801272-29801291 None:intergenic 35.0%
TCTTCTGATTCTGATTCAGA+TGG - chr8.4:29800999-29801018 None:intergenic 35.0%
TGCAGACTATTATGCTGAAA+TGG + chr8.4:29801271-29801290 MS.gene012126:CDS 35.0%
! CATTGACTGAAGTTTCTCAA+AGG - chr8.4:29801231-29801250 None:intergenic 35.0%
! CTTTGAGAAACTTCAGTCAA+TGG + chr8.4:29801229-29801248 MS.gene012126:CDS 35.0%
! TTTGGTGGCTTCAGTAAAAA+GGG + chr8.4:29801734-29801753 MS.gene012126:CDS 35.0%
!! AATTCCAAATTTGGCTTTGG+AGG + chr8.4:29801665-29801684 MS.gene012126:CDS 35.0%
!! TTTTGGTGGCTTCAGTAAAA+AGG + chr8.4:29801733-29801752 MS.gene012126:CDS 35.0%
!!! GACTTTTCACTTTTTCCATG+TGG - chr8.4:29801310-29801329 None:intergenic 35.0%
ATTAGCAGAGAAGCAGAAGA+TGG + chr8.4:29801334-29801353 MS.gene012126:CDS 40.0%
GAGGAAGTAAGAAGAGAAAG+AGG + chr8.4:29801765-29801784 MS.gene012126:CDS 40.0%
GGCCAAGAGATTATCTAAAG+AGG + chr8.4:29801388-29801407 MS.gene012126:CDS 40.0%
TGAAGCTGAGTATTTGAGTG+AGG + chr8.4:29800965-29800984 MS.gene012126:CDS 40.0%
TGTATCCATTCCACATTCTC+TGG - chr8.4:29801104-29801123 None:intergenic 40.0%
TTAAGAAATGGAGGAAGCAG+AGG + chr8.4:29801468-29801487 MS.gene012126:CDS 40.0%
! AATGTCGTCCTTTTTCTGCT+TGG - chr8.4:29801441-29801460 None:intergenic 40.0%
! AGAGCTTGCATTTTACACTC+AGG + chr8.4:29801184-29801203 MS.gene012126:CDS 40.0%
! TGCATTTTACACTCAGGCAT+TGG + chr8.4:29801190-29801209 MS.gene012126:CDS 40.0%
!! TTCAGTAAAAAGGGTGCTGT+TGG + chr8.4:29801743-29801762 MS.gene012126:CDS 40.0%
!!! ATTTTACACTCAGGCATTGG+AGG + chr8.4:29801193-29801212 MS.gene012126:CDS 40.0%
!!! TTTTACACTCAGGCATTGGA+GGG + chr8.4:29801194-29801213 MS.gene012126:CDS 40.0%
AGAAAGGGCCAAGCAGAAAA+AGG + chr8.4:29801430-29801449 MS.gene012126:CDS 45.0%
AGAGAAGCAGAAGATGGTAG+AGG + chr8.4:29801340-29801359 MS.gene012126:CDS 45.0%
AGAGGCTGAAGAGAGAAGAA+AGG + chr8.4:29801358-29801377 MS.gene012126:CDS 45.0%
AGTCTGCAGGCCTTAGAAAA+GGG - chr8.4:29801259-29801278 None:intergenic 45.0%
CATTGACATCGATCAAGAGC+AGG + chr8.4:29801133-29801152 MS.gene012126:CDS 45.0%
CGGTCAAAGAAGAAAAGACC+TGG + chr8.4:29801560-29801579 MS.gene012126:CDS 45.0%
CTGCTCTTGATCGATGTCAA+TGG - chr8.4:29801135-29801154 None:intergenic 45.0%
CTTGCCTCCAAAGCCAAATT+TGG - chr8.4:29801672-29801691 None:intergenic 45.0%
TAGTCTGCAGGCCTTAGAAA+AGG - chr8.4:29801260-29801279 None:intergenic 45.0%
TGAAGAGAGAAGAAAGGCCA+GGG + chr8.4:29801364-29801383 MS.gene012126:CDS 45.0%
TGGCTTCTTTCCCTTTCCAA+AGG - chr8.4:29801627-29801646 None:intergenic 45.0%
! CAATGGGTCTCCCTTTTCTA+AGG + chr8.4:29801246-29801265 MS.gene012126:CDS 45.0%
! GCAAAGCAAGCCTTTGGAAA+GGG + chr8.4:29801614-29801633 MS.gene012126:CDS 45.0%
!! AGATAAGGCTTTGGACTTCG+AGG + chr8.4:29801520-29801539 MS.gene012126:CDS 45.0%
!! AGTAAAAAGGGTGCTGTTGG+AGG + chr8.4:29801746-29801765 MS.gene012126:CDS 45.0%
!! ATTTGGCTTTGGAGGCAAGA+AGG + chr8.4:29801673-29801692 MS.gene012126:CDS 45.0%
!! TTTGGCTTTGGAGGCAAGAA+GGG + chr8.4:29801674-29801693 MS.gene012126:CDS 45.0%
AGATAATCTCTTGGCCTCCC+TGG - chr8.4:29801384-29801403 None:intergenic 50.0%
AGGAAGCAGAGGCAACAAAG+TGG + chr8.4:29801479-29801498 MS.gene012126:CDS 50.0%
CATAAGCTGGCCAGAGAATG+TGG + chr8.4:29801091-29801110 MS.gene012126:CDS 50.0%
CTGAAGAGAGAAGAAAGGCC+AGG + chr8.4:29801363-29801382 MS.gene012126:CDS 50.0%
GCTTTGCCTTACCTCCTGAT+CGG - chr8.4:29801601-29801620 None:intergenic 50.0%
GGAAGCAGAGGCAACAAAGT+GGG + chr8.4:29801480-29801499 MS.gene012126:CDS 50.0%
GGTAAGGCAAAGCAAGCCTT+TGG + chr8.4:29801608-29801627 MS.gene012126:CDS 50.0%
GGTGAAGACAGATAGCCACA+TGG + chr8.4:29801292-29801311 MS.gene012126:CDS 50.0%
TTTGGACTTCGAGGACGGAA+AGG + chr8.4:29801529-29801548 MS.gene012126:CDS 50.0%
! AAAAGACCTGGAGTGTCTCC+GGG + chr8.4:29801572-29801591 MS.gene012126:CDS 50.0%
! GAAAAGACCTGGAGTGTCTC+CGG + chr8.4:29801571-29801590 MS.gene012126:CDS 50.0%
! GGCAAAGCAAGCCTTTGGAA+AGG + chr8.4:29801613-29801632 MS.gene012126:CDS 50.0%
!! AAGGCTTTGGACTTCGAGGA+CGG + chr8.4:29801524-29801543 MS.gene012126:CDS 50.0%
!! CAAAGTGGGTTTGCTGACGA+TGG + chr8.4:29801494-29801513 MS.gene012126:CDS 50.0%
AGAGAGAAGAAAGGCCAGGG+AGG + chr8.4:29801367-29801386 MS.gene012126:CDS 55.0%
CGATGGCGCAGATAAGGCTT+TGG + chr8.4:29801511-29801530 MS.gene012126:CDS 55.0%
GCTGGCCAGAGAATGTGGAA+TGG + chr8.4:29801096-29801115 MS.gene012126:CDS 55.0%
TGCTGACGATGGCGCAGATA+AGG + chr8.4:29801505-29801524 MS.gene012126:CDS 55.0%
TTACCTCCTGATCGGTCACC+CGG - chr8.4:29801593-29801612 None:intergenic 55.0%
!! AGGACGGAAAGGTGTTCGAG+CGG + chr8.4:29801540-29801559 MS.gene012126:CDS 55.0%
!! GGCATTGGAGGGTACTAGAC+AGG + chr8.4:29801205-29801224 MS.gene012126:CDS 55.0%
GGGTGACCGATCAGGAGGTA+AGG + chr8.4:29801592-29801611 MS.gene012126:CDS 60.0%
GTGTCTCCGGGTGACCGATC+AGG + chr8.4:29801584-29801603 MS.gene012126:CDS 65.0%
TCTCCGGGTGACCGATCAGG+AGG + chr8.4:29801587-29801606 MS.gene012126:CDS 65.0%
CGGTCACCCGGAGACACTCC+AGG - chr8.4:29801581-29801600 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 29800924 29801790 29800924 ID=MS.gene012126
chr8.4 mRNA 29800924 29801790 29800924 ID=MS.gene012126.t1;Parent=MS.gene012126
chr8.4 exon 29800924 29801790 29800924 ID=MS.gene012126.t1.exon1;Parent=MS.gene012126.t1
chr8.4 CDS 29800924 29801790 29800924 ID=cds.MS.gene012126.t1;Parent=MS.gene012126.t1
Gene Sequence

>MS.gene012126

ATGGAGCTGCCTCTGGTTAATGATGATACAATGGTTGATGGTGAAGCTGAGTATTTGAGTGAGGAAATGTCACCATCTGAATCAGAATCAGAAGAAGATGTGAAATTAGCTGAACCATCTAAAAAGGCAGTAAATAACAGAGATGCTCTATTAGATAAACTTGGAGACATAAGCTGGCCAGAGAATGTGGAATGGATACACAAACTCTCCATTGACATCGATCAAGAGCAGGAAGTAGATGTTAATGATGACTTGGCACGAGAGCTTGCATTTTACACTCAGGCATTGGAGGGTACTAGACAGGCCTTTGAGAAACTTCAGTCAATGGGTCTCCCTTTTCTAAGGCCTGCAGACTATTATGCTGAAATGGTGAAGACAGATAGCCACATGGAAAAAGTGAAAAGTCGGCTATTAGCAGAGAAGCAGAAGATGGTAGAGGCTGAAGAGAGAAGAAAGGCCAGGGAGGCCAAGAGATTATCTAAAGAGGTTCAGTCACAGAAATTAAAAGAAAGGGCCAAGCAGAAAAAGGACGACATTGAATCTGTTAAGAAATGGAGGAAGCAGAGGCAACAAAGTGGGTTTGCTGACGATGGCGCAGATAAGGCTTTGGACTTCGAGGACGGAAAGGTGTTCGAGCGGTCAAAGAAGAAAAGACCTGGAGTGTCTCCGGGTGACCGATCAGGAGGTAAGGCAAAGCAAGCCTTTGGAAAGGGAAAGAAGCCAAAGAAAAGAGATGTTAAGAATTCCAAATTTGGCTTTGGAGGCAAGAAGGGTTTGAAGAAGCAGAATACAGCTGATACTACTAATGATTTTGGTGGCTTCAGTAAAAAGGGTGCTGTTGGAGGAAGTAAGAAGAGAAAGAGGTAA

Protein sequence

>MS.gene012126.t1

MELPLVNDDTMVDGEAEYLSEEMSPSESESEEDVKLAEPSKKAVNNRDALLDKLGDISWPENVEWIHKLSIDIDQEQEVDVNDDLARELAFYTQALEGTRQAFEKLQSMGLPFLRPADYYAEMVKTDSHMEKVKSRLLAEKQKMVEAEERRKAREAKRLSKEVQSQKLKERAKQKKDDIESVKKWRKQRQQSGFADDGADKALDFEDGKVFERSKKKRPGVSPGDRSGGKAKQAFGKGKKPKKRDVKNSKFGFGGKKGLKKQNTADTTNDFGGFSKKGAVGGSKKRKR