AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63186


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63186.t1 MTR_8g469010 99.385 325 2 0 1 325 1 325 0.0 673
MS.gene63186.t1 MTR_1g050472 91.818 330 22 1 1 325 1 330 0.0 632
MS.gene63186.t1 MTR_0268s0080 91.515 330 23 1 1 325 1 330 0.0 632
MS.gene63186.t1 MTR_7g029110 91.212 330 24 1 1 325 1 330 0.0 610
MS.gene63186.t1 MTR_4g117370 75.926 324 74 1 6 325 18 341 0.0 529
MS.gene63186.t1 MTR_6g005270 69.767 43 13 0 265 307 25 67 3.61e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63186.t1 AT3G27060 81.024 332 56 3 1 325 1 332 0.0 537
MS.gene63186.t1 AT3G23580 76.543 324 72 1 6 325 18 341 0.0 520

Find 62 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCGAAGCGCGTGCATTCTA+TGG 0.247434 8.4:+41048770 MS.gene63186:CDS
ATGCACGCGCTTCGGAGATT+TGG 0.254019 8.4:-41048763 None:intergenic
CGCTTCCTTGCGCGTTGGTT+GGG 0.300830 8.4:+41049221 MS.gene63186:CDS
GTTTGTTGCTGATAGGTTAT+TGG 0.303774 8.4:+41049276 MS.gene63186:CDS
GGAGCGAGAAGAGGTTCTTC+TGG 0.345478 8.4:-41048506 None:intergenic
GTTGCTTTCGCTTGTGTTGA+AGG 0.362449 8.4:+41048977 MS.gene63186:CDS
GCGCTTCCTTGCGCGTTGGT+TGG 0.363506 8.4:+41049220 MS.gene63186:CDS
AAGCTGATTGGGCTTTGAAA+TGG 0.371966 8.4:+41048921 MS.gene63186:CDS
TTTGTTGCTGATAGGTTATT+GGG 0.379609 8.4:+41049277 MS.gene63186:CDS
ATGCAGAATCGGTCTGGGTT+TGG 0.382220 8.4:-41048527 None:intergenic
TGCTGATTATTGCTTTACTT+TGG 0.386701 8.4:+41049435 MS.gene63186:CDS
ATGTTCAGAACCCGTTTGAT+TGG 0.399675 8.4:+41049326 MS.gene63186:CDS
GAAAATCGCGCAGAAGCTTC+CGG 0.409737 8.4:-41049011 None:intergenic
ACCATAGAATGCACGCGCTT+CGG 0.410941 8.4:-41048771 None:intergenic
TGCGCGTTGGTTGGGATGAA+TGG 0.417042 8.4:+41049229 MS.gene63186:CDS
GGGAACATGCAGAATCGGTC+TGG 0.418807 8.4:-41048533 None:intergenic
GAGCGAGAAGAGGTTCTTCT+GGG 0.439709 8.4:-41048505 None:intergenic
GACTTCTTTCATGAATCTCC+CGG 0.450969 8.4:-41048741 None:intergenic
ATCAAATCCATCCAATCAAA+CGG 0.451073 8.4:-41049337 None:intergenic
TCAGAACCCGTTTGATTGGA+TGG 0.454228 8.4:+41049330 MS.gene63186:CDS
TATTGCTAAGAAAGCTGATT+GGG 0.465189 8.4:+41048910 MS.gene63186:CDS
AATCGCTTATATACGTTTCG+AGG 0.468396 8.4:-41048841 None:intergenic
GCCTTCTTCGCCGCTTCCGA+CGG 0.470916 8.4:+41048698 MS.gene63186:CDS
ACCGTCGGAAGCGGCGAAGA+AGG 0.474533 8.4:-41048699 None:intergenic
ATGGATTTGATTTCGCTTCA+AGG 0.479094 8.4:+41049349 MS.gene63186:CDS
GATAGGTTATTGGGTGAACT+TGG 0.489753 8.4:+41049286 MS.gene63186:CDS
GGAACATGCAGAATCGGTCT+GGG 0.489835 8.4:-41048532 None:intergenic
ATATTGAGTTTGTTGCTGAT+AGG 0.493329 8.4:+41049269 MS.gene63186:CDS
GGAGGAAAGATCGACTTCTT+CGG 0.499480 8.4:-41048615 None:intergenic
TCAAATCCATCCAATCAAAC+GGG 0.500850 8.4:-41049336 None:intergenic
TTATTGCTTTACTTTGGATG+AGG 0.510830 8.4:+41049441 MS.gene63186:CDS
TTTCCTCCGATCTTCAACAC+TGG 0.515193 8.4:+41048630 MS.gene63186:CDS
GTATTGCTAAGAAAGCTGAT+TGG 0.515724 8.4:+41048909 MS.gene63186:CDS
GGCGGTCCAGAAAGAAGCTT+CGG 0.516341 8.4:-41048594 None:intergenic
CAGAAAGCTTCTGTTATGAA+TGG 0.519026 8.4:+41049409 MS.gene63186:CDS
GGATTGGGAACATGCAGAAT+CGG 0.521690 8.4:-41048538 None:intergenic
GTGATGCAGTTGAGATTGAA+AGG 0.522321 8.4:+41049182 MS.gene63186:CDS
ATCGTCCTCGAAAACCTCGC+CGG 0.534897 8.4:+41048722 MS.gene63186:CDS
AGAGGTTCTTCTGGGAAAGA+AGG 0.536510 8.4:-41048497 None:intergenic
TGAAATAAGCTCGTTTGAGA+AGG 0.538441 8.4:-41049068 None:intergenic
TCGTCCTCGAAAACCTCGCC+GGG 0.543275 8.4:+41048723 MS.gene63186:CDS
CGATGCGCTTCCTTGCGCGT+TGG 0.545347 8.4:+41049216 MS.gene63186:CDS
TGGATTTGATTTCGCTTCAA+GGG 0.551257 8.4:+41049350 MS.gene63186:CDS
GTTGTTCCAGTGTTGAAGAT+CGG 0.557909 8.4:-41048636 None:intergenic
GACGAAGTGGCGTTCGCCGT+CGG 0.563379 8.4:-41048663 None:intergenic
GAGGACGATACCGTCGGAAG+CGG 0.563447 8.4:-41048708 None:intergenic
TCTGGGTTTGGAGCGAGAAG+AGG 0.577657 8.4:-41048515 None:intergenic
TGATGCAGTTGAGATTGAAA+GGG 0.582117 8.4:+41049183 MS.gene63186:CDS
TCGTTTGAGAAGGTTAATCC+CGG 0.587906 8.4:-41049058 None:intergenic
TTCATCCCAACCAACGCGCA+AGG 0.598863 8.4:-41049226 None:intergenic
CGGAAGCGGCGAAGAAGGCG+AGG 0.605540 8.4:-41048694 None:intergenic
GAGCTTATTTCACGTGACGA+AGG 0.607473 8.4:+41049079 MS.gene63186:CDS
CTTTCATGAATCTCCCGGCG+AGG 0.609684 8.4:-41048736 None:intergenic
CACTGGAACAACCTCACCGA+CGG 0.611309 8.4:+41048647 MS.gene63186:CDS
AGTGGCGTTCGCCGTCGGTG+AGG 0.618653 8.4:-41048658 None:intergenic
GTTCCAGTGTTGAAGATCGG+AGG 0.622372 8.4:-41048633 None:intergenic
CGAGGATGTGAGAGACGAAG+TGG 0.630959 8.4:-41048676 None:intergenic
TCAGCTTTCTTAGCAATACA+CGG 0.642160 8.4:-41048905 None:intergenic
GAAGCTGAGTACAGAGCGCG+TGG 0.656345 8.4:+41049147 MS.gene63186:CDS
AAAGCTTCTGTTATGAATGG+TGG 0.674687 8.4:+41049412 MS.gene63186:CDS
GGAAAGATCGACTTCTTCGG+CGG 0.687608 8.4:-41048612 None:intergenic
GAAGAGAATACATCTCAGAG+TGG 0.694344 8.4:-41048817 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AATCCAATACCCAAAAATCT+GGG + chr8.4:41048556-41048575 MS.gene63186:CDS 30.0%
ATCAAATCCATCCAATCAAA+CGG - chr8.4:41049340-41049359 None:intergenic 30.0%
TATTGCTAAGAAAGCTGATT+GGG + chr8.4:41048910-41048929 MS.gene63186:CDS 30.0%
TTATTGCTTTACTTTGGATG+AGG + chr8.4:41049441-41049460 MS.gene63186:CDS 30.0%
TTTGTTGCTGATAGGTTATT+GGG + chr8.4:41049277-41049296 MS.gene63186:CDS 30.0%
! TGCTGATTATTGCTTTACTT+TGG + chr8.4:41049435-41049454 MS.gene63186:CDS 30.0%
! TGTACATTTCCCAGATTTTT+GGG - chr8.4:41048568-41048587 None:intergenic 30.0%
! TTGTACATTTCCCAGATTTT+TGG - chr8.4:41048569-41048588 None:intergenic 30.0%
!! ATATTGAGTTTGTTGCTGAT+AGG + chr8.4:41049269-41049288 MS.gene63186:CDS 30.0%
!!! AGATTTTTGGGTATTGGATT+GGG - chr8.4:41048556-41048575 None:intergenic 30.0%
!!! ATTTTCTGGTTGAAAAAACG+TGG + chr8.4:41049028-41049047 MS.gene63186:CDS 30.0%
AAAAAACGTGGTTTAATGCC+GGG + chr8.4:41049040-41049059 MS.gene63186:CDS 35.0%
AAAGCTTCTGTTATGAATGG+TGG + chr8.4:41049412-41049431 MS.gene63186:CDS 35.0%
AATCGCTTATATACGTTTCG+AGG - chr8.4:41048844-41048863 None:intergenic 35.0%
CAATCCAATACCCAAAAATC+TGG + chr8.4:41048555-41048574 MS.gene63186:CDS 35.0%
CAGAAAGCTTCTGTTATGAA+TGG + chr8.4:41049409-41049428 MS.gene63186:CDS 35.0%
GAAAAAACGTGGTTTAATGC+CGG + chr8.4:41049039-41049058 MS.gene63186:CDS 35.0%
GTATTGCTAAGAAAGCTGAT+TGG + chr8.4:41048909-41048928 MS.gene63186:CDS 35.0%
TCAAATCCATCCAATCAAAC+GGG - chr8.4:41049339-41049358 None:intergenic 35.0%
TCAGCTTTCTTAGCAATACA+CGG - chr8.4:41048908-41048927 None:intergenic 35.0%
TGAAATAAGCTCGTTTGAGA+AGG - chr8.4:41049071-41049090 None:intergenic 35.0%
TGATGCAGTTGAGATTGAAA+GGG + chr8.4:41049183-41049202 MS.gene63186:CDS 35.0%
! ATGGATTTGATTTCGCTTCA+AGG + chr8.4:41049349-41049368 MS.gene63186:CDS 35.0%
! GTTGAAGGAATTTTCTTCTC+CGG + chr8.4:41048992-41049011 MS.gene63186:CDS 35.0%
! GTTTGTTGCTGATAGGTTAT+TGG + chr8.4:41049276-41049295 MS.gene63186:CDS 35.0%
! TGGATTTGATTTCGCTTCAA+GGG + chr8.4:41049350-41049369 MS.gene63186:CDS 35.0%
!!! AATTTTTTTGAGAAGCGCGT+TGG + chr8.4:41049379-41049398 MS.gene63186:CDS 35.0%
!!! ATTTTTTTGAGAAGCGCGTT+GGG + chr8.4:41049380-41049399 MS.gene63186:CDS 35.0%
!!! CAGATTTTTGGGTATTGGAT+TGG - chr8.4:41048557-41048576 None:intergenic 35.0%
!!! TTTCCCAGATTTTTGGGTAT+TGG - chr8.4:41048562-41048581 None:intergenic 35.0%
AAAAAGCCGAAGCTTCTTTC+TGG + chr8.4:41048588-41048607 MS.gene63186:CDS 40.0%
ATGTTCAGAACCCGTTTGAT+TGG + chr8.4:41049326-41049345 MS.gene63186:CDS 40.0%
GAAGAGAATACATCTCAGAG+TGG - chr8.4:41048820-41048839 None:intergenic 40.0%
GACTTCTTTCATGAATCTCC+CGG - chr8.4:41048744-41048763 None:intergenic 40.0%
GATAGGTTATTGGGTGAACT+TGG + chr8.4:41049286-41049305 MS.gene63186:CDS 40.0%
GTGATGCAGTTGAGATTGAA+AGG + chr8.4:41049182-41049201 MS.gene63186:CDS 40.0%
TCGTTTGAGAAGGTTAATCC+CGG - chr8.4:41049061-41049080 None:intergenic 40.0%
! GGATGTTTTCAATAGCGATC+TGG - chr8.4:41048799-41048818 None:intergenic 40.0%
! GTTGTTCCAGTGTTGAAGAT+CGG - chr8.4:41048639-41048658 None:intergenic 40.0%
!! AAGCTGATTGGGCTTTGAAA+TGG + chr8.4:41048921-41048940 MS.gene63186:CDS 40.0%
!!! TTTTTTTGAGAAGCGCGTTG+GGG + chr8.4:41049381-41049400 MS.gene63186:CDS 40.0%
GAGCTTATTTCACGTGACGA+AGG + chr8.4:41049079-41049098 MS.gene63186:CDS 45.0%
GGATTGGGAACATGCAGAAT+CGG - chr8.4:41048541-41048560 None:intergenic 45.0%
TCAGAACCCGTTTGATTGGA+TGG + chr8.4:41049330-41049349 MS.gene63186:CDS 45.0%
TTTCCTCCGATCTTCAACAC+TGG + chr8.4:41048630-41048649 MS.gene63186:CDS 45.0%
! AGAGGTTCTTCTGGGAAAGA+AGG - chr8.4:41048500-41048519 None:intergenic 45.0%
! GGAGGAAAGATCGACTTCTT+CGG - chr8.4:41048618-41048637 None:intergenic 45.0%
! GTTGCTTTCGCTTGTGTTGA+AGG + chr8.4:41048977-41048996 MS.gene63186:CDS 45.0%
ACCATAGAATGCACGCGCTT+CGG - chr8.4:41048774-41048793 None:intergenic 50.0%
ATGCAGAATCGGTCTGGGTT+TGG - chr8.4:41048530-41048549 None:intergenic 50.0%
GAAAATCGCGCAGAAGCTTC+CGG - chr8.4:41049014-41049033 None:intergenic 50.0%
GAGCGAGAAGAGGTTCTTCT+GGG - chr8.4:41048508-41048527 None:intergenic 50.0%
GGAACATGCAGAATCGGTCT+GGG - chr8.4:41048535-41048554 None:intergenic 50.0%
! GAAGCTTCTGCGCGATTTTC+TGG + chr8.4:41049014-41049033 MS.gene63186:CDS 50.0%
! GGAAAGATCGACTTCTTCGG+CGG - chr8.4:41048615-41048634 None:intergenic 50.0%
! GTTCCAGTGTTGAAGATCGG+AGG - chr8.4:41048636-41048655 None:intergenic 50.0%
!! GTTTTCGAGGACGATACCGT+CGG - chr8.4:41048717-41048736 None:intergenic 50.0%
ATCGTCCTCGAAAACCTCGC+CGG + chr8.4:41048722-41048741 MS.gene63186:CDS 55.0%
ATGCACGCGCTTCGGAGATT+TGG - chr8.4:41048766-41048785 None:intergenic 55.0%
CACTGGAACAACCTCACCGA+CGG + chr8.4:41048647-41048666 MS.gene63186:CDS 55.0%
CGAGGATGTGAGAGACGAAG+TGG - chr8.4:41048679-41048698 None:intergenic 55.0%
CTTTCATGAATCTCCCGGCG+AGG - chr8.4:41048739-41048758 None:intergenic 55.0%
GGAGCGAGAAGAGGTTCTTC+TGG - chr8.4:41048509-41048528 None:intergenic 55.0%
GGCGGTCCAGAAAGAAGCTT+CGG - chr8.4:41048597-41048616 None:intergenic 55.0%
GGGAACATGCAGAATCGGTC+TGG - chr8.4:41048536-41048555 None:intergenic 55.0%
TCCGAAGCGCGTGCATTCTA+TGG + chr8.4:41048770-41048789 MS.gene63186:CDS 55.0%
TTCATCCCAACCAACGCGCA+AGG - chr8.4:41049229-41049248 None:intergenic 55.0%
! TCTGGGTTTGGAGCGAGAAG+AGG - chr8.4:41048518-41048537 None:intergenic 55.0%
!! TGCGCGTTGGTTGGGATGAA+TGG + chr8.4:41049229-41049248 MS.gene63186:CDS 55.0%
GAAGCTGAGTACAGAGCGCG+TGG + chr8.4:41049147-41049166 MS.gene63186:CDS 60.0%
GAGGACGATACCGTCGGAAG+CGG - chr8.4:41048711-41048730 None:intergenic 60.0%
TCGTCCTCGAAAACCTCGCC+GGG + chr8.4:41048723-41048742 MS.gene63186:CDS 60.0%
! ATCTCCCGGCGAGGTTTTCG+AGG - chr8.4:41048730-41048749 None:intergenic 60.0%
!! CGCTTCCTTGCGCGTTGGTT+GGG + chr8.4:41049221-41049240 MS.gene63186:CDS 60.0%
ACCGTCGGAAGCGGCGAAGA+AGG - chr8.4:41048702-41048721 None:intergenic 65.0%
CGATGCGCTTCCTTGCGCGT+TGG + chr8.4:41049216-41049235 MS.gene63186:CDS 65.0%
GACGAAGTGGCGTTCGCCGT+CGG - chr8.4:41048666-41048685 None:intergenic 65.0%
GCCTTCTTCGCCGCTTCCGA+CGG + chr8.4:41048698-41048717 MS.gene63186:CDS 65.0%
! GCGCTTCCTTGCGCGTTGGT+TGG + chr8.4:41049220-41049239 MS.gene63186:CDS 65.0%
AGTGGCGTTCGCCGTCGGTG+AGG - chr8.4:41048661-41048680 None:intergenic 70.0%
CGGAAGCGGCGAAGAAGGCG+AGG - chr8.4:41048697-41048716 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 41048494 41049471 41048494 ID=MS.gene63186
chr8.4 mRNA 41048494 41049471 41048494 ID=MS.gene63186.t1;Parent=MS.gene63186
chr8.4 exon 41048494 41049471 41048494 ID=MS.gene63186.t1.exon1;Parent=MS.gene63186.t1
chr8.4 CDS 41048494 41049471 41048494 ID=cds.MS.gene63186.t1;Parent=MS.gene63186.t1
Gene Sequence

>MS.gene63186

ATGCCTTCTTTCCCAGAAGAACCTCTTCTCGCTCCAAACCCAGACCGATTCTGCATGTTCCCAATCCAATACCCAAAAATCTGGGAAATGTACAAAAAAGCCGAAGCTTCTTTCTGGACCGCCGAAGAAGTCGATCTTTCCTCCGATCTTCAACACTGGAACAACCTCACCGACGGCGAACGCCACTTCGTCTCTCACATCCTCGCCTTCTTCGCCGCTTCCGACGGTATCGTCCTCGAAAACCTCGCCGGGAGATTCATGAAAGAAGTCCAAATCTCCGAAGCGCGTGCATTCTATGGTTTCCAGATCGCTATTGAAAACATCCACTCTGAGATGTATTCTCTTCTCCTCGAAACGTATATAAGCGATTCTGCTGAAAAGAATCGATTATTTCACGCAATTGACACAATTCCGTGTATTGCTAAGAAAGCTGATTGGGCTTTGAAATGGATCGATTCAAGCGATTCTTTTGCAGAAAGAATCGTTGCTTTCGCTTGTGTTGAAGGAATTTTCTTCTCCGGAAGCTTCTGCGCGATTTTCTGGTTGAAAAAACGTGGTTTAATGCCGGGATTAACCTTCTCAAACGAGCTTATTTCACGTGACGAAGGTTTACACTGCGATTTCGCTTGTTTGTTATACGCGCTACTGCGTCAGAAGCTGAGTACAGAGCGCGTGGTGAAGATTGTTCGTGATGCAGTTGAGATTGAAAGGGAGTTTGTATGCGATGCGCTTCCTTGCGCGTTGGTTGGGATGAATGGTGAATTGATGAGTCAGTATATTGAGTTTGTTGCTGATAGGTTATTGGGTGAACTTGGTTGTGAGAAAGTTTATAATGTTCAGAACCCGTTTGATTGGATGGATTTGATTTCGCTTCAAGGGAAGACGAATTTTTTTGAGAAGCGCGTTGGGGAGTATCAGAAAGCTTCTGTTATGAATGGTGGTGCTGATTATTGCTTTACTTTGGATGAGGATTTTTAG

Protein sequence

>MS.gene63186.t1

MPSFPEEPLLAPNPDRFCMFPIQYPKIWEMYKKAEASFWTAEEVDLSSDLQHWNNLTDGERHFVSHILAFFAASDGIVLENLAGRFMKEVQISEARAFYGFQIAIENIHSEMYSLLLETYISDSAEKNRLFHAIDTIPCIAKKADWALKWIDSSDSFAERIVAFACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYALLRQKLSTERVVKIVRDAVEIEREFVCDALPCALVGMNGELMSQYIEFVADRLLGELGCEKVYNVQNPFDWMDLISLQGKTNFFEKRVGEYQKASVMNGGADYCFTLDEDF