AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene043625


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043625.t1 MTR_1g095890 94.086 186 7 2 1 182 1 186 1.07e-127 356
MS.gene043625.t1 MTR_1g095900 78.919 185 36 1 1 182 1 185 3.54e-105 299
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043625.t1 AT2G35810 66.854 178 52 3 4 178 22 195 1.75e-85 250
MS.gene043625.t1 AT2G35810 66.854 178 52 3 4 178 22 195 1.75e-85 250
MS.gene043625.t1 AT2G35820 65.363 179 56 2 4 180 8 182 1.22e-84 248
MS.gene043625.t1 AT2G35820 65.363 179 56 2 4 180 98 272 3.70e-83 247
MS.gene043625.t1 AT2G35830 67.416 178 52 3 4 178 8 182 7.83e-83 243
MS.gene043625.t1 AT2G35830 66.292 178 49 4 4 178 8 177 3.68e-78 231

Find 54 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGGTTAAGCTTGAGAAATT+TGG 0.260726 3.2:-45120482 None:intergenic
TCATCGGACGGTGAGGGGTT+TGG 0.318746 3.2:+45119757 MS.gene043625:CDS
GGTCCATTGGTGGTAATGTT+TGG 0.421411 3.2:+45120317 MS.gene043625:CDS
GGTGGTAATGTTTGGTACCT+TGG 0.440274 3.2:+45120325 MS.gene043625:CDS
GACCTGACCGTACTCTTTGA+AGG 0.444255 3.2:-45119725 None:intergenic
ACTCAGTGCCTTGGGTCCAT+TGG 0.468229 3.2:+45120304 MS.gene043625:CDS
AGGTCAAGCTGAGCATCGTT+TGG 0.468746 3.2:-45119781 None:intergenic
CAGTGCCTTGGGTCCATTGG+TGG 0.474720 3.2:+45120307 MS.gene043625:CDS
CAAGTGTGACTCAGTGCCTT+GGG 0.479051 3.2:+45120296 MS.gene043625:CDS
CATAAAGCTCAAATTACTCA+TGG 0.492947 3.2:-45120762 None:intergenic
GCAAGTGTGACTCAGTGCCT+TGG 0.493326 3.2:+45120295 MS.gene043625:CDS
TCTATTTAAGTCTGATACAA+TGG 0.496626 3.2:+45120525 MS.gene043625:CDS
ACCTTAGCCAAGGAATTCCC+AGG 0.496730 3.2:+45119800 MS.gene043625:CDS
AAATGAAATCAAGGATGACT+TGG 0.500047 3.2:+45120375 MS.gene043625:CDS
GAGGCTTCATCGGACGGTGA+GGG 0.503853 3.2:+45119751 MS.gene043625:CDS
ATGAAAACCTGGGAATTCCT+TGG 0.506846 3.2:-45119807 None:intergenic
TCATTTGCATCAACAATGGA+TGG 0.507162 3.2:-45120358 None:intergenic
ACCTGGGAATTCCTTGGCTA+AGG 0.513339 3.2:-45119801 None:intergenic
TGTTGATGCAAATGAAATCA+AGG 0.515537 3.2:+45120366 MS.gene043625:CDS
GTCATTGAGGCTTCATCGGA+CGG 0.541534 3.2:+45119745 MS.gene043625:CDS
AACCGTGGGACATGGCATGC+TGG 0.544561 3.2:+45120499 MS.gene043625:CDS
GATTTCATTTGCATCAACAA+TGG 0.549245 3.2:-45120362 None:intergenic
AGGCTTCATCGGACGGTGAG+GGG 0.550679 3.2:+45119752 MS.gene043625:CDS
GAAAACTTGAACATCCTCAA+TGG 0.552500 3.2:-45120446 None:intergenic
TCAGGTCATTGAGGCTTCAT+CGG 0.558495 3.2:+45119741 MS.gene043625:CDS
TCAAGCTTAACCGTGGGACA+TGG 0.558912 3.2:+45120491 MS.gene043625:CDS
ACTTGAACATCCTCAATGGC+AGG 0.565229 3.2:-45120442 None:intergenic
ACTTGCATGATGTGTGATGT+TGG 0.565925 3.2:-45120278 None:intergenic
GACCTTCAAAGAGTACGGTC+AGG 0.570961 3.2:+45119723 MS.gene043625:CDS
TTATGTGCCTCCTGCCATTG+AGG 0.572418 3.2:+45120432 MS.gene043625:CDS
TGAGGCTTCATCGGACGGTG+AGG 0.573414 3.2:+45119750 MS.gene043625:CDS
GTCCTTCTTAAAGTTGTGTG+TGG 0.574527 3.2:-45120719 None:intergenic
TACCACACACAACTTTAAGA+AGG 0.575142 3.2:+45120717 MS.gene043625:CDS
CCGTACTCTTTGAAGGTCGC+CGG 0.579027 3.2:-45119718 None:intergenic
AATGGAGAGTGTGAAGGTGA+AGG 0.586847 3.2:+45119681 None:intergenic
GAAGGCAATTGAAGCAACTC+CGG 0.594897 3.2:+45119699 MS.gene043625:CDS
CACAACTTTAAGAAGGACAA+TGG 0.594981 3.2:+45120724 MS.gene043625:CDS
GTACCAAACATTACCACCAA+TGG 0.595761 3.2:-45120320 None:intergenic
GACCAGCATGCCATGTCCCA+CGG 0.605299 3.2:-45120501 None:intergenic
CCGGCGACCTTCAAAGAGTA+CGG 0.605471 3.2:+45119718 MS.gene043625:CDS
AATGAAATCAAGGATGACTT+GGG 0.606584 3.2:+45120376 MS.gene043625:CDS
TAATGTTTGGTACCTTGGAG+TGG 0.611311 3.2:+45120330 MS.gene043625:CDS
CTTTAAGAAGGACAATGGAG+TGG 0.614786 3.2:+45120729 MS.gene043625:CDS
AAATTTCTCAAGCTTAACCG+TGG 0.618191 3.2:+45120484 MS.gene043625:CDS
CATTACCACCAATGGACCCA+AGG 0.621913 3.2:-45120312 None:intergenic
ATTGTATCAGACTTAAATAG+AGG 0.622516 3.2:-45120523 None:intergenic
TGGATGGCTTAGCCACTCCA+AGG 0.635485 3.2:-45120342 None:intergenic
GCTCAGCTTGACCTTAGCCA+AGG 0.638940 3.2:+45119790 MS.gene043625:CDS
AATTTCTCAAGCTTAACCGT+GGG 0.640376 3.2:+45120485 MS.gene043625:CDS
AGAGTACGGTCAGGTCATTG+AGG 0.671075 3.2:+45119732 MS.gene043625:CDS
GTGATGTTGGAAAACTCAAG+TGG 0.699314 3.2:-45120265 None:intergenic
TGAACATCCTCAATGGCAGG+AGG 0.702078 3.2:-45120439 None:intergenic
GATCGGAATGGAGAGTGTGA+AGG 0.706029 3.2:+45119675 None:intergenic
ACAGTCGTGAAGTCACACAG+CGG 0.840888 3.2:+45120403 MS.gene043625:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAATTCCATTAAGTTAC+AGG - chr3.2:45120205-45120224 None:intergenic 20.0%
!! ATTAATTCCATTAAGTTACA+GGG - chr3.2:45120204-45120223 None:intergenic 20.0%
!!! TTTATTGTTTTATCAGATCT+TGG + chr3.2:45120064-45120083 MS.gene043625:intron 20.0%
! ATTGTATCAGACTTAAATAG+AGG - chr3.2:45120526-45120545 None:intergenic 25.0%
! TCTATTTAAGTCTGATACAA+TGG + chr3.2:45120525-45120544 MS.gene043625:CDS 25.0%
!!! GGAATTAATTTGTGTTTGTT+AGG + chr3.2:45120215-45120234 MS.gene043625:intron 25.0%
AAATGAAATCAAGGATGACT+TGG + chr3.2:45120375-45120394 MS.gene043625:CDS 30.0%
AATGAAATCAAGGATGACTT+GGG + chr3.2:45120376-45120395 MS.gene043625:CDS 30.0%
ATTGTTTAGATTCACAGAGA+TGG + chr3.2:45120040-45120059 MS.gene043625:intron 30.0%
GATTTCATTTGCATCAACAA+TGG - chr3.2:45120365-45120384 None:intergenic 30.0%
TCTATCAGCTTAATTTAGCT+GGG + chr3.2:45120162-45120181 MS.gene043625:intron 30.0%
TGTTGATGCAAATGAAATCA+AGG + chr3.2:45120366-45120385 MS.gene043625:CDS 30.0%
TTCTATCAGCTTAATTTAGC+TGG + chr3.2:45120161-45120180 MS.gene043625:intron 30.0%
! GCATCGTTGATAAAAATTGA+AGG - chr3.2:45119837-45119856 None:intergenic 30.0%
! TGTTGATAAGTGTGATTAAG+AGG - chr3.2:45119863-45119882 None:intergenic 30.0%
AAATTTCTCAAGCTTAACCG+TGG + chr3.2:45120484-45120503 MS.gene043625:CDS 35.0%
AATGTAACACTACACTGGAA+GGG - chr3.2:45120599-45120618 None:intergenic 35.0%
AATTTCTCAAGCTTAACCGT+GGG + chr3.2:45120485-45120504 MS.gene043625:CDS 35.0%
ACGGTTAAGCTTGAGAAATT+TGG - chr3.2:45120485-45120504 None:intergenic 35.0%
CATGTAATGTAACACTACAC+TGG - chr3.2:45120604-45120623 None:intergenic 35.0%
GAAAACTTGAACATCCTCAA+TGG - chr3.2:45120449-45120468 None:intergenic 35.0%
GTAGTAATTTCTCGCTGTTT+GGG + chr3.2:45120089-45120108 MS.gene043625:intron 35.0%
GTAGTTGCAATCATCTTGAT+TGG + chr3.2:45119883-45119902 MS.gene043625:intron 35.0%
TAATGTAACACTACACTGGA+AGG - chr3.2:45120600-45120619 None:intergenic 35.0%
TCATTTGCATCAACAATGGA+TGG - chr3.2:45120361-45120380 None:intergenic 35.0%
TGAAGGTTGAATGAAAACCT+GGG - chr3.2:45119820-45119839 None:intergenic 35.0%
TGTAGTAATTTCTCGCTGTT+TGG + chr3.2:45120088-45120107 MS.gene043625:intron 35.0%
TTGAAGGTTGAATGAAAACC+TGG - chr3.2:45119821-45119840 None:intergenic 35.0%
! AGAGCATCACATATGAATTC+AGG - chr3.2:45120629-45120648 None:intergenic 35.0%
! CACAACTTTAAGAAGGACAA+TGG + chr3.2:45120724-45120743 MS.gene043625:CDS 35.0%
! GATTTTGAGCACTTTATCTC+AGG - chr3.2:45120125-45120144 None:intergenic 35.0%
! TACCACACACAACTTTAAGA+AGG + chr3.2:45120717-45120736 MS.gene043625:CDS 35.0%
!! GTTCAAGTTTTCAAGGTTTC+AGG + chr3.2:45120457-45120476 MS.gene043625:CDS 35.0%
!! TGAGGATGTTCAAGTTTTCA+AGG + chr3.2:45120450-45120469 MS.gene043625:CDS 35.0%
!!! TGGTTTTGTATTCTGTGTTC+AGG + chr3.2:45120684-45120703 MS.gene043625:intron 35.0%
ACTTGCATGATGTGTGATGT+TGG - chr3.2:45120281-45120300 None:intergenic 40.0%
AGCTATGCCCTGTAACTTAA+TGG + chr3.2:45120194-45120213 MS.gene043625:intron 40.0%
ATGAAAACCTGGGAATTCCT+TGG - chr3.2:45119810-45119829 None:intergenic 40.0%
CAGTCGCTGTGATTAATGTA+TGG + chr3.2:45120664-45120683 MS.gene043625:intron 40.0%
GTACCAAACATTACCACCAA+TGG - chr3.2:45120323-45120342 None:intergenic 40.0%
GTCCTTCTTAAAGTTGTGTG+TGG - chr3.2:45120722-45120741 None:intergenic 40.0%
GTGATGTTGGAAAACTCAAG+TGG - chr3.2:45120268-45120287 None:intergenic 40.0%
TAATGTTTGGTACCTTGGAG+TGG + chr3.2:45120330-45120349 MS.gene043625:CDS 40.0%
! CTTTAAGAAGGACAATGGAG+TGG + chr3.2:45120729-45120748 MS.gene043625:CDS 40.0%
! GATTGGTTAACCGCTTGTAT+TGG + chr3.2:45119900-45119919 MS.gene043625:intron 40.0%
ACTTGAACATCCTCAATGGC+AGG - chr3.2:45120445-45120464 None:intergenic 45.0%
AGGTTCCATGTCAATACCAC+CGG - chr3.2:45119927-45119946 None:intergenic 45.0%
GAAGGCAATTGAAGCAACTC+CGG + chr3.2:45119699-45119718 MS.gene043625:CDS 45.0%
TAACACTACACTGGAAGGGA+AGG - chr3.2:45120595-45120614 None:intergenic 45.0%
TCAGGTCATTGAGGCTTCAT+CGG + chr3.2:45119741-45119760 MS.gene043625:CDS 45.0%
TTCGATTCTGCAGTCTGAGT+GGG + chr3.2:45119980-45119999 MS.gene043625:intron 45.0%
! GGTCCATTGGTGGTAATGTT+TGG + chr3.2:45120317-45120336 MS.gene043625:CDS 45.0%
! GGTGGTAATGTTTGGTACCT+TGG + chr3.2:45120325-45120344 MS.gene043625:CDS 45.0%
! GTTAACCGCTTGTATTGGTC+CGG + chr3.2:45119905-45119924 MS.gene043625:intron 45.0%
ACAGTCGTGAAGTCACACAG+CGG + chr3.2:45120403-45120422 MS.gene043625:CDS 50.0%
ACCTGGGAATTCCTTGGCTA+AGG - chr3.2:45119804-45119823 None:intergenic 50.0%
ACCTTAGCCAAGGAATTCCC+AGG + chr3.2:45119800-45119819 MS.gene043625:CDS 50.0%
AGAGTACGGTCAGGTCATTG+AGG + chr3.2:45119732-45119751 MS.gene043625:CDS 50.0%
AGTGAGTGTGCTCCTCTTCA+AGG + chr3.2:45119950-45119969 MS.gene043625:intron 50.0%
CAAGTGTGACTCAGTGCCTT+GGG + chr3.2:45120296-45120315 MS.gene043625:CDS 50.0%
CATTACCACCAATGGACCCA+AGG - chr3.2:45120315-45120334 None:intergenic 50.0%
GACCTGACCGTACTCTTTGA+AGG - chr3.2:45119728-45119747 None:intergenic 50.0%
GTCATTGAGGCTTCATCGGA+CGG + chr3.2:45119745-45119764 MS.gene043625:CDS 50.0%
GTTCGATTCTGCAGTCTGAG+TGG + chr3.2:45119979-45119998 MS.gene043625:intron 50.0%
TACCACCGGACCAATACAAG+CGG - chr3.2:45119913-45119932 None:intergenic 50.0%
TCAAGCTTAACCGTGGGACA+TGG + chr3.2:45120491-45120510 MS.gene043625:CDS 50.0%
TCGAACGTGAGACCTTGAAG+AGG - chr3.2:45119965-45119984 None:intergenic 50.0%
TGAACATCCTCAATGGCAGG+AGG - chr3.2:45120442-45120461 None:intergenic 50.0%
TTATGTGCCTCCTGCCATTG+AGG + chr3.2:45120432-45120451 MS.gene043625:CDS 50.0%
! AGGTCAAGCTGAGCATCGTT+TGG - chr3.2:45119784-45119803 None:intergenic 50.0%
! GACCTTCAAAGAGTACGGTC+AGG + chr3.2:45119723-45119742 MS.gene043625:CDS 50.0%
!! TTGGTCCGGTGGTATTGACA+TGG + chr3.2:45119919-45119938 MS.gene043625:intron 50.0%
ACTCAGTGCCTTGGGTCCAT+TGG + chr3.2:45120304-45120323 MS.gene043625:CDS 55.0%
CCGGCGACCTTCAAAGAGTA+CGG + chr3.2:45119718-45119737 MS.gene043625:CDS 55.0%
GCAAGTGTGACTCAGTGCCT+TGG + chr3.2:45120295-45120314 MS.gene043625:CDS 55.0%
GCTCAGCTTGACCTTAGCCA+AGG + chr3.2:45119790-45119809 MS.gene043625:CDS 55.0%
TGGATGGCTTAGCCACTCCA+AGG - chr3.2:45120345-45120364 None:intergenic 55.0%
! AACCGCTTGTATTGGTCCGG+TGG + chr3.2:45119908-45119927 MS.gene043625:intron 55.0%
! AGAGGAGCACACTCACTCTC+AGG - chr3.2:45119947-45119966 None:intergenic 55.0%
! CCGTACTCTTTGAAGGTCGC+CGG - chr3.2:45119721-45119740 None:intergenic 55.0%
AACCGTGGGACATGGCATGC+TGG + chr3.2:45120499-45120518 MS.gene043625:CDS 60.0%
AGGCTTCATCGGACGGTGAG+GGG + chr3.2:45119752-45119771 MS.gene043625:CDS 60.0%
CAGTGCCTTGGGTCCATTGG+TGG + chr3.2:45120307-45120326 MS.gene043625:CDS 60.0%
GACCAGCATGCCATGTCCCA+CGG - chr3.2:45120504-45120523 None:intergenic 60.0%
GAGGCTTCATCGGACGGTGA+GGG + chr3.2:45119751-45119770 MS.gene043625:CDS 60.0%
TCATCGGACGGTGAGGGGTT+TGG + chr3.2:45119757-45119776 MS.gene043625:CDS 60.0%
TGAGGCTTCATCGGACGGTG+AGG + chr3.2:45119750-45119769 MS.gene043625:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 45119682 45120771 45119682 ID=MS.gene043625
chr3.2 mRNA 45119682 45120771 45119682 ID=MS.gene043625.t1;Parent=MS.gene043625
chr3.2 exon 45119682 45119821 45119682 ID=MS.gene043625.t1.exon1;Parent=MS.gene043625.t1
chr3.2 CDS 45119682 45119821 45119682 ID=cds.MS.gene043625.t1;Parent=MS.gene043625.t1
chr3.2 exon 45120237 45120579 45120237 ID=MS.gene043625.t1.exon2;Parent=MS.gene043625.t1
chr3.2 CDS 45120237 45120579 45120237 ID=cds.MS.gene043625.t1;Parent=MS.gene043625.t1
chr3.2 exon 45120706 45120771 45120706 ID=MS.gene043625.t1.exon3;Parent=MS.gene043625.t1
chr3.2 CDS 45120706 45120771 45120706 ID=cds.MS.gene043625.t1;Parent=MS.gene043625.t1
Gene Sequence

>MS.gene043625

ATGGAGAGTGTGAAGGTGAAGGCAATTGAAGCAACTCCGGCGACCTTCAAAGAGTACGGTCAGGTCATTGAGGCTTCATCGGACGGTGAGGGGTTTGGTCCAAACGATGCTCAGCTTGACCTTAGCCAAGGAATTCCCAGGTTTTCATTCAACCTTCAATTTTTATCAACGATGCTCACCTCTTAATCACACTTATCAACAGTAGTTGCAATCATCTTGATTGGTTAACCGCTTGTATTGGTCCGGTGGTATTGACATGGAACCTGAGAGTGAGTGTGCTCCTCTTCAAGGTCTCACGTTCGATTCTGCAGTCTGAGTGGGCTAATTTAGCTTCTTAAAAAAAAAAAAAAAAACTTTGATTGTTTAGATTCACAGAGATGGATTTATTGTTTTATCAGATCTTGGTTGTAGTAATTTCTCGCTGTTTGGGTTGTATTTATCCTGAGATAAAGTGCTCAAAATCTGTTTCTCTACACATATTCTATCAGCTTAATTTAGCTGGGATAGTTATTAGCTATGCCCTGTAACTTAATGGAATTAATTTGTGTTTGTTAGGTTCTACATTATGCATCTTGAAAATCGTCCACTTGAGTTTTCCAACATCACACATCATGCAAGTGTGACTCAGTGCCTTGGGTCCATTGGTGGTAATGTTTGGTACCTTGGAGTGGCTAAGCCATCCATTGTTGATGCAAATGAAATCAAGGATGACTTGGGCAAGACAGTCGTGAAGTCACACAGCGGTCATTTTTATGTGCCTCCTGCCATTGAGGATGTTCAAGTTTTCAAGGTTTCAGGTTCCAAATTTCTCAAGCTTAACCGTGGGACATGGCATGCTGGTCCTCTATTTAAGTCTGATACAATGGACTTTTACAATCTAGAACTCAGCAATACAAATGTAAGTTTTTCACCTTCCCTTCCAGTGTAGTGTTACATTACATGCACCTGAATTCATATGTGATGCTCTTTTTTAAGTGTGACTCAGTCGCTGTGATTAATGTATGGTTTTGTATTCTGTGTTCAGGTTGTTGATCATACCACACACAACTTTAAGAAGGACAATGGAGTGGTTTTTTCGATCCATGAGTAA

Protein sequence

>MS.gene043625.t1

MESVKVKAIEATPATFKEYGQVIEASSDGEGFGPNDAQLDLSQGIPRFYIMHLENRPLEFSNITHHASVTQCLGSIGGNVWYLGVAKPSIVDANEIKDDLGKTVVKSHSGHFYVPPAIEDVQVFKVSGSKFLKLNRGTWHAGPLFKSDTMDFYNLELSNTNVVDHTTHNFKKDNGVVFSIHE