AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073588

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073588.t1 MTR_1g049370 96.567 233 8 0 1 233 1 233 4.75e-172 473
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073588.t1 AT2G39020 68.018 222 68 2 12 232 15 234 6.01e-106 305
MS.gene073588.t1 AT2G39030 61.712 222 83 1 7 228 3 222 1.67e-101 294

Find 71 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGACTCACTGGAGAGAATT+TGG 0.142625 1.1:-34368026 MS.gene073588:CDS
TGGCGTGGGAGGGAGGTTTC+TGG 0.225083 1.1:+34368631 None:intergenic
TGCGAAACAAGCTGTGAAAA+TGG 0.248102 1.1:-34368149 MS.gene073588:CDS
GAGGTTTCTGGCATGGTTGA+TGG 0.280184 1.1:+34368643 None:intergenic
AGACGGATGCGGGTGAAAAC+TGG 0.302785 1.1:+34368607 None:intergenic
TGTTATAGAAGGAAAGGATT+TGG 0.322014 1.1:-34368193 MS.gene073588:CDS
GGAGAGAATTTGGAGGCTTA+TGG 0.324071 1.1:-34368016 MS.gene073588:CDS
GTTATAGAAGGAAAGGATTT+GGG 0.325583 1.1:-34368192 MS.gene073588:CDS
TCCTTCTCTGGGTCATCGAT+TGG 0.329316 1.1:+34368337 None:intergenic
TTGGTGATGGGTTTGTAAAA+TGG 0.345052 1.1:+34368379 None:intergenic
GAGATCCAAGTTGATAGTTT+TGG 0.351337 1.1:+34368360 None:intergenic
GGTTTCTGGCATGGTTGATG+GGG 0.365424 1.1:+34368645 None:intergenic
TTGAATGGGTTGTGCTTGAT+TGG 0.367695 1.1:-34368114 MS.gene073588:CDS
TGAAAACTGGGTGGCGTGGG+AGG 0.370191 1.1:+34368620 None:intergenic
GGTTCTGTCGGTGGTGGTGG+CGG 0.375662 1.1:+34368667 None:intergenic
AAAATGGGTCGTTGTCGAAA+TGG 0.382151 1.1:+34368395 None:intergenic
CCTTCTCTGGGTCATCGATT+GGG 0.385676 1.1:+34368338 None:intergenic
AGGTTTCTGGCATGGTTGAT+GGG 0.392190 1.1:+34368644 None:intergenic
TGGTGATGGGTTTGTAAAAT+GGG 0.402442 1.1:+34368380 None:intergenic
GCGAAACAAGCTGTGAAAAT+GGG 0.408362 1.1:-34368148 MS.gene073588:CDS
GGAGAAGAGAGTGGAGGAGT+AGG 0.423379 1.1:+34368489 None:intergenic
GGCGGTGCTGCGGAGGCCAT+TGG 0.427189 1.1:+34368685 None:intergenic
TTGTGAGAGAGTGTTATAGA+AGG 0.433799 1.1:-34368204 MS.gene073588:CDS
AAGGGGTGGCTAGACGGATG+CGG 0.439953 1.1:+34368596 None:intergenic
GAGGATGGTGGTGGAATGGA+AGG 0.442348 1.1:+34368453 None:intergenic
CCATTTGATGCATTAGTTTG+TGG 0.444519 1.1:+34368557 None:intergenic
AAATGGGTCGTTGTCGAAAT+GGG 0.450614 1.1:+34368396 None:intergenic
GTCGAAATGGGTATCGGTGA+AGG 0.459643 1.1:+34368408 None:intergenic
TGGAGGCTTTGCAGACTCAC+TGG 0.463120 1.1:-34368037 MS.gene073588:CDS
TGGTGGTGGCGGTGCTGCGG+AGG 0.474664 1.1:+34368678 None:intergenic
AGGGGTGGCTAGACGGATGC+GGG 0.475439 1.1:+34368597 None:intergenic
GGATGAGGATGGTGGTGGAA+TGG 0.477208 1.1:+34368449 None:intergenic
CCACAAACTAATGCATCAAA+TGG 0.477989 1.1:-34368557 MS.gene073588:CDS
AGAGAGTGTTATAGAAGGAA+AGG 0.484459 1.1:-34368199 MS.gene073588:CDS
TGGATGTAGGGAACGTCGGA+AGG 0.497082 1.1:+34368577 None:intergenic
CGGGTGAAAACTGGGTGGCG+TGG 0.497983 1.1:+34368616 None:intergenic
TGGGGTATGGAAGAGTTGAA+TGG 0.498138 1.1:-34368129 MS.gene073588:CDS
CATCACCAAAACTATCAACT+TGG 0.500837 1.1:-34368365 MS.gene073588:CDS
CGTCGGAAGGGGTGGCTAGA+CGG 0.500858 1.1:+34368590 None:intergenic
GAAAACTGGGTGGCGTGGGA+GGG 0.502318 1.1:+34368621 None:intergenic
TGGGAGGGAGGTTTCTGGCA+TGG 0.510483 1.1:+34368636 None:intergenic
TTTGAGAGACTTCAAGGATG+AGG 0.512897 1.1:+34368434 None:intergenic
GGGGTATGGAAGAGTTGAAT+GGG 0.513899 1.1:-34368128 MS.gene073588:CDS
GGGTGAAAACTGGGTGGCGT+GGG 0.521670 1.1:+34368617 None:intergenic
CGGTGGTGGTGGCGGTGCTG+CGG 0.522277 1.1:+34368675 None:intergenic
TGCATTAGTTTGTGGATGTA+GGG 0.523176 1.1:+34368565 None:intergenic
GATGTAGGGAACGTCGGAAG+GGG 0.527743 1.1:+34368579 None:intergenic
ATGCATTAGTTTGTGGATGT+AGG 0.527995 1.1:+34368564 None:intergenic
AACTGGGTGGCGTGGGAGGG+AGG 0.528341 1.1:+34368624 None:intergenic
GTAGGGAACGTCGGAAGGGG+TGG 0.529853 1.1:+34368582 None:intergenic
GTTTCTGGCATGGTTGATGG+GGG 0.538292 1.1:+34368646 None:intergenic
GACGGATGCGGGTGAAAACT+GGG 0.542885 1.1:+34368608 None:intergenic
CAAGCTGTGAAAATGGGGTA+TGG 0.543716 1.1:-34368142 MS.gene073588:CDS
ATGTGTGAGTTGTTCGAAAA+CGG 0.552949 1.1:+34368534 None:intergenic
TCGAAATGGGTATCGGTGAA+GGG 0.559274 1.1:+34368409 None:intergenic
TTCAAGGATGAGGATGGTGG+TGG 0.566001 1.1:+34368444 None:intergenic
TTCAGGGGAGAAGAGAGTGG+AGG 0.567933 1.1:+34368483 None:intergenic
ACTCACTGGAGAGAATTTGG+AGG 0.568925 1.1:-34368023 MS.gene073588:CDS
GTCGTTGTCGAAATGGGTAT+CGG 0.570206 1.1:+34368402 None:intergenic
CCCAATCGATGACCCAGAGA+AGG 0.579350 1.1:-34368338 MS.gene073588:CDS
GGATGTAGGGAACGTCGGAA+GGG 0.582464 1.1:+34368578 None:intergenic
CGAAATGGGTATCGGTGAAG+GGG 0.588125 1.1:+34368410 None:intergenic
AGAGACTTCAAGGATGAGGA+TGG 0.590756 1.1:+34368438 None:intergenic
CGAAACAAGCTGTGAAAATG+GGG 0.605125 1.1:-34368147 MS.gene073588:CDS
TTTGTGGATGTAGGGAACGT+CGG 0.617809 1.1:+34368573 None:intergenic
TTTCACAGCTTGTTTCGCAA+CGG 0.622638 1.1:+34368153 None:intergenic
GACTTCAAGGATGAGGATGG+TGG 0.644873 1.1:+34368441 None:intergenic
AGGATGGTGGTGGAATGGAA+GGG 0.647470 1.1:+34368454 None:intergenic
GAAAACTTCAAAACTCAACA+TGG 0.690199 1.1:-34368316 MS.gene073588:CDS
GGAGTAGGAAGCTTCTGTCG+CGG 0.701269 1.1:+34368504 None:intergenic
GGATGCGGGTGAAAACTGGG+TGG 0.784201 1.1:+34368611 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAAGTTTTATGAAGATAT+GGG - chr1.1:34368606-34368625 MS.gene073588:CDS 15.0%
!!! TATAAAGTTTTATGAAGATA+TGG - chr1.1:34368605-34368624 MS.gene073588:CDS 15.0%
!!! CCTAACTATTCAACTTTTTT+GGG - chr1.1:34368429-34368448 MS.gene073588:CDS 25.0%
!!! CTAACTATTCAACTTTTTTG+GGG - chr1.1:34368430-34368449 MS.gene073588:CDS 25.0%
!!! TCCTAACTATTCAACTTTTT+TGG - chr1.1:34368428-34368447 MS.gene073588:CDS 25.0%
CCCAAAAAAGTTGAATAGTT+AGG + chr1.1:34368432-34368451 None:intergenic 30.0%
GAAAACTTCAAAACTCAACA+TGG - chr1.1:34368369-34368388 MS.gene073588:CDS 30.0%
GTTATAGAAGGAAAGGATTT+GGG - chr1.1:34368493-34368512 MS.gene073588:CDS 30.0%
TGTTATAGAAGGAAAGGATT+TGG - chr1.1:34368492-34368511 MS.gene073588:CDS 30.0%
! GTAATGAAGTTTTTGTTGCT+GGG - chr1.1:34368391-34368410 MS.gene073588:CDS 30.0%
!!! AAGTTGATAGTTTTGGTGAT+GGG + chr1.1:34368321-34368340 None:intergenic 30.0%
!!! TTTTGAAGTTTTCCTTCTCT+GGG + chr1.1:34368362-34368381 None:intergenic 30.0%
ATGTGTGAGTTGTTCGAAAA+CGG + chr1.1:34368154-34368173 None:intergenic 35.0%
CATCACCAAAACTATCAACT+TGG - chr1.1:34368320-34368339 MS.gene073588:CDS 35.0%
CCACAAACTAATGCATCAAA+TGG - chr1.1:34368128-34368147 MS.gene073588:CDS 35.0%
! CCATTTGATGCATTAGTTTG+TGG + chr1.1:34368131-34368150 None:intergenic 35.0%
! GGTAATGAAGTTTTTGTTGC+TGG - chr1.1:34368390-34368409 MS.gene073588:CDS 35.0%
!! AATGGAAGGGTTTGTTTTCA+GGG + chr1.1:34368221-34368240 None:intergenic 35.0%
!! AGAGAGTGTTATAGAAGGAA+AGG - chr1.1:34368486-34368505 MS.gene073588:CDS 35.0%
!! ATGCATTAGTTTGTGGATGT+AGG + chr1.1:34368124-34368143 None:intergenic 35.0%
!! TGCATTAGTTTGTGGATGTA+GGG + chr1.1:34368123-34368142 None:intergenic 35.0%
!! TGGTGATGGGTTTGTAAAAT+GGG + chr1.1:34368308-34368327 None:intergenic 35.0%
!! TTGGTGATGGGTTTGTAAAA+TGG + chr1.1:34368309-34368328 None:intergenic 35.0%
!! TTGTGAGAGAGTGTTATAGA+AGG - chr1.1:34368481-34368500 MS.gene073588:CDS 35.0%
!!! CAACTTTTTTGGGGAAACAT+GGG - chr1.1:34368439-34368458 MS.gene073588:CDS 35.0%
!!! CAAGTTGATAGTTTTGGTGA+TGG + chr1.1:34368322-34368341 None:intergenic 35.0%
!!! GAGATCCAAGTTGATAGTTT+TGG + chr1.1:34368328-34368347 None:intergenic 35.0%
!!! GTTTTGAAGTTTTCCTTCTC+TGG + chr1.1:34368363-34368382 None:intergenic 35.0%
!!! TCAACTTTTTTGGGGAAACA+TGG - chr1.1:34368438-34368457 MS.gene073588:CDS 35.0%
AAAATGGGTCGTTGTCGAAA+TGG + chr1.1:34368293-34368312 None:intergenic 40.0%
AAATGGGTCGTTGTCGAAAT+GGG + chr1.1:34368292-34368311 None:intergenic 40.0%
CGAAACAAGCTGTGAAAATG+GGG - chr1.1:34368538-34368557 MS.gene073588:CDS 40.0%
GCGAAACAAGCTGTGAAAAT+GGG - chr1.1:34368537-34368556 MS.gene073588:CDS 40.0%
TGCGAAACAAGCTGTGAAAA+TGG - chr1.1:34368536-34368555 MS.gene073588:CDS 40.0%
TTTGAGAGACTTCAAGGATG+AGG + chr1.1:34368254-34368273 None:intergenic 40.0%
! CTAAGATTTTGCAGGAATGG+AGG - chr1.1:34368631-34368650 MS.gene073588:CDS 40.0%
! GTGCTAAGATTTTGCAGGAA+TGG - chr1.1:34368628-34368647 MS.gene073588:CDS 40.0%
! TATGGGTGCTAAGATTTTGC+AGG - chr1.1:34368623-34368642 MS.gene073588:CDS 40.0%
! TTTCACAGCTTGTTTCGCAA+CGG + chr1.1:34368535-34368554 None:intergenic 40.0%
!! ATGGAAGGGTTTGTTTTCAG+GGG + chr1.1:34368220-34368239 None:intergenic 40.0%
!! GAATGGAAGGGTTTGTTTTC+AGG + chr1.1:34368222-34368241 None:intergenic 40.0%
!! TTGAATGGGTTGTGCTTGAT+TGG - chr1.1:34368571-34368590 MS.gene073588:CDS 40.0%
ACTCACTGGAGAGAATTTGG+AGG - chr1.1:34368662-34368681 MS.gene073588:CDS 45.0%
AGAGACTTCAAGGATGAGGA+TGG + chr1.1:34368250-34368269 None:intergenic 45.0%
CAAGCTGTGAAAATGGGGTA+TGG - chr1.1:34368543-34368562 MS.gene073588:CDS 45.0%
CAGACTCACTGGAGAGAATT+TGG - chr1.1:34368659-34368678 MS.gene073588:CDS 45.0%
GGAGAGAATTTGGAGGCTTA+TGG - chr1.1:34368669-34368688 MS.gene073588:CDS 45.0%
GGGGTATGGAAGAGTTGAAT+GGG - chr1.1:34368557-34368576 MS.gene073588:CDS 45.0%
GTCGTTGTCGAAATGGGTAT+CGG + chr1.1:34368286-34368305 None:intergenic 45.0%
TGGGGTATGGAAGAGTTGAA+TGG - chr1.1:34368556-34368575 MS.gene073588:CDS 45.0%
TTTGTGGATGTAGGGAACGT+CGG + chr1.1:34368115-34368134 None:intergenic 45.0%
!! AGGTTTCTGGCATGGTTGAT+GGG + chr1.1:34368044-34368063 None:intergenic 45.0%
!! TCGAAATGGGTATCGGTGAA+GGG + chr1.1:34368279-34368298 None:intergenic 45.0%
!!! AGGGGTTTTGAGAGACTTCA+AGG + chr1.1:34368260-34368279 None:intergenic 45.0%
GACTTCAAGGATGAGGATGG+TGG + chr1.1:34368247-34368266 None:intergenic 50.0%
TCCTTCTCTGGGTCATCGAT+TGG + chr1.1:34368351-34368370 None:intergenic 50.0%
! CCTTCTCTGGGTCATCGATT+GGG + chr1.1:34368350-34368369 None:intergenic 50.0%
! TTCAAGGATGAGGATGGTGG+TGG + chr1.1:34368244-34368263 None:intergenic 50.0%
!! AGGATGGTGGTGGAATGGAA+GGG + chr1.1:34368234-34368253 None:intergenic 50.0%
!! ATGGTTGATGGGGGTTCTGT+CGG + chr1.1:34368033-34368052 None:intergenic 50.0%
!! CGAAATGGGTATCGGTGAAG+GGG + chr1.1:34368278-34368297 None:intergenic 50.0%
!! GAGGTTTCTGGCATGGTTGA+TGG + chr1.1:34368045-34368064 None:intergenic 50.0%
!! GGTTTCTGGCATGGTTGATG+GGG + chr1.1:34368043-34368062 None:intergenic 50.0%
!! GTCGAAATGGGTATCGGTGA+AGG + chr1.1:34368280-34368299 None:intergenic 50.0%
!! GTTTCTGGCATGGTTGATGG+GGG + chr1.1:34368042-34368061 None:intergenic 50.0%
!! GTTTTCAGGGGAGAAGAGAG+TGG + chr1.1:34368208-34368227 None:intergenic 50.0%
AGACGGATGCGGGTGAAAAC+TGG + chr1.1:34368081-34368100 None:intergenic 55.0%
CCCAATCGATGACCCAGAGA+AGG - chr1.1:34368347-34368366 MS.gene073588:CDS 55.0%
GACGGATGCGGGTGAAAACT+GGG + chr1.1:34368080-34368099 None:intergenic 55.0%
GATGTAGGGAACGTCGGAAG+GGG + chr1.1:34368109-34368128 None:intergenic 55.0%
GGAGAAGAGAGTGGAGGAGT+AGG + chr1.1:34368199-34368218 None:intergenic 55.0%
GGAGTAGGAAGCTTCTGTCG+CGG + chr1.1:34368184-34368203 None:intergenic 55.0%
GGATGTAGGGAACGTCGGAA+GGG + chr1.1:34368110-34368129 None:intergenic 55.0%
TGGAGGCTTTGCAGACTCAC+TGG - chr1.1:34368648-34368667 MS.gene073588:CDS 55.0%
TGGATGTAGGGAACGTCGGA+AGG + chr1.1:34368111-34368130 None:intergenic 55.0%
TTCAGGGGAGAAGAGAGTGG+AGG + chr1.1:34368205-34368224 None:intergenic 55.0%
!! GAGGATGGTGGTGGAATGGA+AGG + chr1.1:34368235-34368254 None:intergenic 55.0%
!! GGATGAGGATGGTGGTGGAA+TGG + chr1.1:34368239-34368258 None:intergenic 55.0%
AAGGGGTGGCTAGACGGATG+CGG + chr1.1:34368092-34368111 None:intergenic 60.0%
GAAAACTGGGTGGCGTGGGA+GGG + chr1.1:34368067-34368086 None:intergenic 60.0%
GGATGCGGGTGAAAACTGGG+TGG + chr1.1:34368077-34368096 None:intergenic 60.0%
GGGTGAAAACTGGGTGGCGT+GGG + chr1.1:34368071-34368090 None:intergenic 60.0%
TGAAAACTGGGTGGCGTGGG+AGG + chr1.1:34368068-34368087 None:intergenic 60.0%
! GTTGATGGGGGTTCTGTCGG+TGG + chr1.1:34368030-34368049 None:intergenic 60.0%
!! TGGGAGGGAGGTTTCTGGCA+TGG + chr1.1:34368052-34368071 None:intergenic 60.0%
AGGGGTGGCTAGACGGATGC+GGG + chr1.1:34368091-34368110 None:intergenic 65.0%
CGGGTGAAAACTGGGTGGCG+TGG + chr1.1:34368072-34368091 None:intergenic 65.0%
CGTCGGAAGGGGTGGCTAGA+CGG + chr1.1:34368098-34368117 None:intergenic 65.0%
GATGGGGGTTCTGTCGGTGG+TGG + chr1.1:34368027-34368046 None:intergenic 65.0%
GTAGGGAACGTCGGAAGGGG+TGG + chr1.1:34368106-34368125 None:intergenic 65.0%
TGGCGTGGGAGGGAGGTTTC+TGG + chr1.1:34368057-34368076 None:intergenic 65.0%
!! GGTTCTGTCGGTGGTGGTGG+CGG + chr1.1:34368021-34368040 None:intergenic 65.0%
AACTGGGTGGCGTGGGAGGG+AGG + chr1.1:34368064-34368083 None:intergenic 70.0%
! GGGGGTTCTGTCGGTGGTGG+TGG + chr1.1:34368024-34368043 None:intergenic 70.0%
!! CGGTGGTGGTGGCGGTGCTG+CGG + chr1.1:34368013-34368032 None:intergenic 75.0%
!! TGGTGGTGGCGGTGCTGCGG+AGG + chr1.1:34368010-34368029 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 34368003 34368704 34368003 ID=MS.gene073588
chr1.1 mRNA 34368003 34368704 34368003 ID=MS.gene073588.t1;Parent=MS.gene073588
chr1.1 exon 34368003 34368704 34368003 ID=MS.gene073588.t1.exon1;Parent=MS.gene073588.t1
chr1.1 CDS 34368003 34368704 34368003 ID=cds.MS.gene073588.t1;Parent=MS.gene073588.t1
Gene Sequence

>MS.gene073588

ATGGCCTCCGCAGCACCGCCACCACCACCGACAGAACCCCCATCAACCATGCCAGAAACCTCCCTCCCACGCCACCCAGTTTTCACCCGCATCCGTCTAGCCACCCCTTCCGACGTTCCCTACATCCACAAACTAATGCATCAAATGGCCGTTTTCGAACAACTCACACATCTCATGACCGCGACAGAAGCTTCCTACTCCTCCACTCTCTTCTCCCCTGAAAACAAACCCTTCCATTCCACCACCATCCTCATCCTTGAAGTCTCTCAAAACCCCTTCACCGATACCCATTTCGACAACGACCCATTTTACAAACCCATCACCAAAACTATCAACTTGGATCTCCCAATCGATGACCCAGAGAAGGAAAACTTCAAAACTCAACATGGTAATGAAGTTTTTGTTGCTGGGTTTGTTTTGTTTTTTCCTAACTATTCAACTTTTTTGGGGAAACATGGGTTTTATGTTGAAGATCTGTTTGTGAGAGAGTGTTATAGAAGGAAAGGATTTGGGAAGATGTTGCTTACTGCCGTTGCGAAACAAGCTGTGAAAATGGGGTATGGAAGAGTTGAATGGGTTGTGCTTGATTGGAATGTTAATGCTATAAAGTTTTATGAAGATATGGGTGCTAAGATTTTGCAGGAATGGAGGCTTTGCAGACTCACTGGAGAGAATTTGGAGGCTTATGGAGCTATTGAGTAA
Protein sequence

>MS.gene073588.t1

MASAAPPPPPTEPPSTMPETSLPRHPVFTRIRLATPSDVPYIHKLMHQMAVFEQLTHLMTATEASYSSTLFSPENKPFHSTTILILEVSQNPFTDTHFDNDPFYKPITKTINLDLPIDDPEKENFKTQHGNEVFVAGFVLFFPNYSTFLGKHGFYVEDLFVRECYRRKGFGKMLLTAVAKQAVKMGYGRVEWVVLDWNVNAIKFYEDMGAKILQEWRLCRLTGENLEAYGAIE