AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene47019


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47019.t1 MTR_4g113270 86.705 346 14 3 1 315 1 345 0.0 576
MS.gene47019.t1 MTR_4g113270 86.471 340 14 3 1 309 1 339 0.0 564
MS.gene47019.t1 MTR_1g100860 42.090 335 152 4 15 309 41 373 9.60e-76 237
MS.gene47019.t1 MTR_4g018770 41.791 335 153 4 15 309 35 367 1.37e-75 236
MS.gene47019.t1 MTR_1g100860 39.706 272 124 4 77 309 5 275 4.02e-54 178
MS.gene47019.t1 MTR_4g018770 39.927 273 122 4 77 309 5 275 4.29e-54 178
MS.gene47019.t1 MTR_3g109070 28.218 202 126 5 18 210 20 211 1.44e-11 64.7
MS.gene47019.t1 MTR_3g109070 28.218 202 126 5 18 210 20 211 1.61e-11 63.9
MS.gene47019.t1 MTR_3g109070 28.218 202 126 5 18 210 20 211 2.04e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47019.t1 AT5G19980 62.609 345 91 3 2 315 3 340 4.82e-138 394
MS.gene47019.t1 AT1G76340 42.901 324 150 5 15 306 37 357 2.35e-77 241
MS.gene47019.t1 AT4G31600 26.160 237 160 5 18 248 19 246 8.80e-13 68.2
MS.gene47019.t1 AT4G31600 27.136 199 132 3 18 210 19 210 2.59e-12 67.0

Find 61 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTTGGTTGTTATTCTTGC+TGG 0.233454 8.4:+15136095 MS.gene47019:CDS
GAAACCCTAATTTACCTAAA+AGG 0.287655 8.4:-15135863 None:intergenic
TTACACTCACGGCTTATTCT+TGG 0.301434 8.4:+15136150 MS.gene47019:CDS
TGAGTCTTGGGTTGAATACT+TGG 0.340183 8.4:+15136231 MS.gene47019:CDS
AATAACAACCAAGGACAAAA+AGG 0.342091 8.4:-15136087 None:intergenic
TACACTCACGGCTTATTCTT+GGG 0.343245 8.4:+15136151 MS.gene47019:CDS
GGTTATGTTGCTACTGATTC+CGG 0.348332 8.4:+15136125 MS.gene47019:CDS
TGGCAATTAATGTGACGATT+TGG 0.360897 8.4:+15136507 MS.gene47019:CDS
GATGGTTTATATTAAGCATA+TGG 0.374607 8.4:+15136205 MS.gene47019:CDS
GCATGCTAGTCCAGCTGGTT+TGG 0.378044 8.4:+15136535 MS.gene47019:CDS
CAGCAATCGGTGACTGGAAA+TGG 0.381275 8.4:+15136596 MS.gene47019:CDS
AAGCATATGGTTATGAGTCT+TGG 0.383947 8.4:+15136218 MS.gene47019:CDS
AGCATATGGTTATGAGTCTT+GGG 0.397212 8.4:+15136219 MS.gene47019:CDS
GGCAATTAATGTGACGATTT+GGG 0.402674 8.4:+15136508 MS.gene47019:CDS
GTTATTCTTGCTGGTGCTGT+TGG 0.419854 8.4:+15136104 MS.gene47019:CDS
GACTGGAAATGGTTCGCAAC+AGG 0.428349 8.4:+15136607 MS.gene47019:CDS
GATGTTGAAAGTAGTCTTGT+TGG 0.433983 8.4:+15136656 MS.gene47019:CDS
GCCACAAGTGGCTTAGTAAT+CGG 0.437849 8.4:+15135726 MS.gene47019:CDS
ACCCGCGTTTACCGTTACTC+TGG 0.441703 8.4:+15136462 MS.gene47019:CDS
GGGAAGAATTTCTTAGCGAT+TGG 0.443284 8.4:-15135909 None:intergenic
AAGAAGAAAACGAGTGCTGC+AGG 0.450306 8.4:-15135930 None:intergenic
GAGTCTTGGGTTGAATACTT+GGG 0.451840 8.4:+15136232 MS.gene47019:CDS
CTTTATCAGCAATCGGTGAC+TGG 0.470901 8.4:+15136590 MS.gene47019:CDS
GGGTGTTCTTTATCAGCAAT+CGG 0.471127 8.4:+15136583 MS.gene47019:CDS
TGGTTCGCAACAGGCGGTTG+TGG 0.475038 8.4:+15136616 MS.gene47019:CDS
GTTAGCGTGACGAAGGAGAT+TGG 0.477146 8.4:-15135970 None:intergenic
CCCGCGTTTACCGTTACTCT+GGG 0.492806 8.4:+15136463 MS.gene47019:CDS
TGAAGAAGTGAGATATTGTA+AGG 0.495489 8.4:-15135829 None:intergenic
ATAAGCCGTGAGTGTAAAAC+CGG 0.495535 8.4:-15136144 None:intergenic
TGTAAGGCTGTTAAAAGACC+TGG 0.499578 8.4:-15135813 None:intergenic
CAATATCTCACTTCTTCACT+CGG 0.505402 8.4:+15135834 MS.gene47019:CDS
AGTCTTGGGTTGAATACTTG+GGG 0.509311 8.4:+15136233 MS.gene47019:CDS
GATAAGCATGCTAGTCCAGC+TGG 0.512847 8.4:+15136530 MS.gene47019:CDS
TGAAGATGAGAGTGAAGGAA+AGG 0.515215 8.4:+15136691 MS.gene47019:CDS
CTCGCTGATACTGCGTTTCG+CGG 0.516331 8.4:+15136041 MS.gene47019:CDS
ATAAACCATCTCAGTAGTAA+TGG 0.529935 8.4:-15136192 None:intergenic
GAAGATGAGAGTGAAGGAAA+GGG 0.531374 8.4:+15136692 MS.gene47019:CDS
AGCAAACAAACCAAACCAGC+TGG 0.537823 8.4:-15136545 None:intergenic
TTAGCGATTGGAATAGTGAA+AGG 0.542673 8.4:-15135897 None:intergenic
GGTTACCATTACTACTGAGA+TGG 0.551400 8.4:+15136187 MS.gene47019:CDS
CAGCGAGAGCAACAAGAAGA+GGG 0.556974 8.4:-15136025 None:intergenic
TCAGCGAGAGCAACAAGAAG+AGG 0.569697 8.4:-15136026 None:intergenic
CAACAACACTACGCCACAAG+TGG 0.587960 8.4:+15135714 MS.gene47019:CDS
GAAAGTAGTCTTGTTGGTGA+TGG 0.589182 8.4:+15136662 MS.gene47019:CDS
ACCAGCAAGAATAACAACCA+AGG 0.595444 8.4:-15136096 None:intergenic
ACTCCCAGTACTCGATCTCA+AGG 0.602204 8.4:-15136342 None:intergenic
AAGGTAAAATTAGACGGAGA+GGG 0.604146 8.4:-15136068 None:intergenic
GTAAGGCTGTTAAAAGACCT+GGG 0.614797 8.4:-15135812 None:intergenic
AAAGGTAAAATTAGACGGAG+AGG 0.624222 8.4:-15136069 None:intergenic
GTGACGAAGGAGATTGGTGT+TGG 0.632002 8.4:-15135964 None:intergenic
ACCGATTACTAAGCCACTTG+TGG 0.637733 8.4:-15135727 None:intergenic
TATCAACGTTAGCGTGACGA+AGG 0.639770 8.4:-15135977 None:intergenic
TTATTCACAACCCAGAGTAA+CGG 0.646208 8.4:-15136473 None:intergenic
TGGAAATGGTTCGCAACAGG+CGG 0.646327 8.4:+15136610 MS.gene47019:CDS
ATTACTCAATTCAACTACCC+AGG 0.649152 8.4:+15135795 MS.gene47019:CDS
AGAAGAAAACGAGTGCTGCA+GGG 0.656660 8.4:-15135929 None:intergenic
AGCGAGAGCAACAAGAAGAG+GGG 0.662395 8.4:-15136024 None:intergenic
TGTGAATAAGTTTCTGACTG+TGG 0.688581 8.4:+15136487 MS.gene47019:CDS
GAATCTGAAGATGAGAGTGA+AGG 0.699145 8.4:+15136686 MS.gene47019:CDS
ACCCAGAGTAACGGTAAACG+CGG 0.701906 8.4:-15136464 None:intergenic
CCCAGAGTAACGGTAAACGC+GGG 0.720693 8.4:-15136463 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTACCTTTTAGGTAAATTA+GGG + chr8.4:15135859-15135878 MS.gene47019:CDS 20.0%
! GACAAAAAGGTAAAATTAGA+CGG - chr8.4:15136077-15136096 None:intergenic 25.0%
! GATGGTTTATATTAAGCATA+TGG + chr8.4:15136205-15136224 MS.gene47019:CDS 25.0%
!! TAATTTTACCTTTTTGTCCT+TGG + chr8.4:15136079-15136098 MS.gene47019:CDS 25.0%
!!! GTTTACCTTTTAGGTAAATT+AGG + chr8.4:15135858-15135877 MS.gene47019:CDS 25.0%
!!! GTTTGCTTTTTACGATTATT+GGG + chr8.4:15136561-15136580 MS.gene47019:CDS 25.0%
!!! TGTTTGCTTTTTACGATTAT+TGG + chr8.4:15136560-15136579 MS.gene47019:CDS 25.0%
!!! TTTGCTTTTTACGATTATTG+GGG + chr8.4:15136562-15136581 MS.gene47019:CDS 25.0%
AATAACAACCAAGGACAAAA+AGG - chr8.4:15136090-15136109 None:intergenic 30.0%
ATAAACCATCTCAGTAGTAA+TGG - chr8.4:15136195-15136214 None:intergenic 30.0%
GAAACCCTAATTTACCTAAA+AGG - chr8.4:15135866-15135885 None:intergenic 30.0%
TGAAGAAGTGAGATATTGTA+AGG - chr8.4:15135832-15135851 None:intergenic 30.0%
!! GGTTTGTTGATTAGTTTCTT+TGG + chr8.4:15136412-15136431 MS.gene47019:intron 30.0%
!!! TTGCTTTTTACGATTATTGG+GGG + chr8.4:15136563-15136582 MS.gene47019:CDS 30.0%
AAAGGTAAAATTAGACGGAG+AGG - chr8.4:15136072-15136091 None:intergenic 35.0%
AAGCATATGGTTATGAGTCT+TGG + chr8.4:15136218-15136237 MS.gene47019:CDS 35.0%
AAGGTAAAATTAGACGGAGA+GGG - chr8.4:15136071-15136090 None:intergenic 35.0%
AGCATATGGTTATGAGTCTT+GGG + chr8.4:15136219-15136238 MS.gene47019:CDS 35.0%
ATTACTCAATTCAACTACCC+AGG + chr8.4:15135795-15135814 MS.gene47019:CDS 35.0%
CAATATCTCACTTCTTCACT+CGG + chr8.4:15135834-15135853 MS.gene47019:CDS 35.0%
CCAGTCAAAAACCAAAAAAC+AGG - chr8.4:15136299-15136318 None:intergenic 35.0%
GGCAATTAATGTGACGATTT+GGG + chr8.4:15136508-15136527 MS.gene47019:CDS 35.0%
TGGCAATTAATGTGACGATT+TGG + chr8.4:15136507-15136526 MS.gene47019:CDS 35.0%
TGTGAATAAGTTTCTGACTG+TGG + chr8.4:15136487-15136506 MS.gene47019:CDS 35.0%
TTAGCGATTGGAATAGTGAA+AGG - chr8.4:15135900-15135919 None:intergenic 35.0%
TTATTCACAACCCAGAGTAA+CGG - chr8.4:15136476-15136495 None:intergenic 35.0%
! TTCTTGGGCTTTTGCTTATT+TGG + chr8.4:15136166-15136185 MS.gene47019:CDS 35.0%
! TTTGACTGGTGAGAATTTTG+AGG + chr8.4:15136310-15136329 MS.gene47019:CDS 35.0%
!! GATGTTGAAAGTAGTCTTGT+TGG + chr8.4:15136656-15136675 MS.gene47019:CDS 35.0%
!!! CCTGTTTTTTGGTTTTTGAC+TGG + chr8.4:15136296-15136315 MS.gene47019:CDS 35.0%
!!! TGATGATTGCTCCTGTTTTT+TGG + chr8.4:15136285-15136304 MS.gene47019:CDS 35.0%
ACCAGCAAGAATAACAACCA+AGG - chr8.4:15136099-15136118 None:intergenic 40.0%
ATAAGCCGTGAGTGTAAAAC+CGG - chr8.4:15136147-15136166 None:intergenic 40.0%
GAAGATGAGAGTGAAGGAAA+GGG + chr8.4:15136692-15136711 MS.gene47019:CDS 40.0%
GAATCTGAAGATGAGAGTGA+AGG + chr8.4:15136686-15136705 MS.gene47019:CDS 40.0%
GGGAAGAATTTCTTAGCGAT+TGG - chr8.4:15135912-15135931 None:intergenic 40.0%
GGGTGTTCTTTATCAGCAAT+CGG + chr8.4:15136583-15136602 MS.gene47019:CDS 40.0%
GGTTACCATTACTACTGAGA+TGG + chr8.4:15136187-15136206 MS.gene47019:CDS 40.0%
GTAAGGCTGTTAAAAGACCT+GGG - chr8.4:15135815-15135834 None:intergenic 40.0%
GTTTCGTTGTCTTGTGTGTT+TGG + chr8.4:15136391-15136410 MS.gene47019:intron 40.0%
TACACTCACGGCTTATTCTT+GGG + chr8.4:15136151-15136170 MS.gene47019:CDS 40.0%
TGAAGATGAGAGTGAAGGAA+AGG + chr8.4:15136691-15136710 MS.gene47019:CDS 40.0%
TGTAAGGCTGTTAAAAGACC+TGG - chr8.4:15135816-15135835 None:intergenic 40.0%
TTACACTCACGGCTTATTCT+TGG + chr8.4:15136150-15136169 MS.gene47019:CDS 40.0%
! GTTCGATGTGAATGCGTTTT+TGG + chr8.4:15136366-15136385 MS.gene47019:intron 40.0%
! TCCTTGGTTGTTATTCTTGC+TGG + chr8.4:15136095-15136114 MS.gene47019:CDS 40.0%
! TGATTCCGGTTTTACACTCA+CGG + chr8.4:15136139-15136158 MS.gene47019:CDS 40.0%
!! AGTCTTGGGTTGAATACTTG+GGG + chr8.4:15136233-15136252 MS.gene47019:CDS 40.0%
!! GAAAGTAGTCTTGTTGGTGA+TGG + chr8.4:15136662-15136681 MS.gene47019:CDS 40.0%
!! GAGTCTTGGGTTGAATACTT+GGG + chr8.4:15136232-15136251 MS.gene47019:CDS 40.0%
!! GGTTATGTTGCTACTGATTC+CGG + chr8.4:15136125-15136144 MS.gene47019:CDS 40.0%
!! TGAGTCTTGGGTTGAATACT+TGG + chr8.4:15136231-15136250 MS.gene47019:CDS 40.0%
!!! TCACTCGGTGTTTACCTTTT+AGG + chr8.4:15135849-15135868 MS.gene47019:CDS 40.0%
ACCGATTACTAAGCCACTTG+TGG - chr8.4:15135730-15135749 None:intergenic 45.0%
AGCAAACAAACCAAACCAGC+TGG - chr8.4:15136548-15136567 None:intergenic 45.0%
CTTTATCAGCAATCGGTGAC+TGG + chr8.4:15136590-15136609 MS.gene47019:CDS 45.0%
GCCACAAGTGGCTTAGTAAT+CGG + chr8.4:15135726-15135745 MS.gene47019:CDS 45.0%
TATCAACGTTAGCGTGACGA+AGG - chr8.4:15135980-15135999 None:intergenic 45.0%
! AAGAAGAAAACGAGTGCTGC+AGG - chr8.4:15135933-15135952 None:intergenic 45.0%
! AGAAGAAAACGAGTGCTGCA+GGG - chr8.4:15135932-15135951 None:intergenic 45.0%
!! CGATGTGAATGCGTTTTTGG+CGG + chr8.4:15136369-15136388 MS.gene47019:intron 45.0%
!! GTTATTCTTGCTGGTGCTGT+TGG + chr8.4:15136104-15136123 MS.gene47019:CDS 45.0%
ACCCAGAGTAACGGTAAACG+CGG - chr8.4:15136467-15136486 None:intergenic 50.0%
ACTCCCAGTACTCGATCTCA+AGG - chr8.4:15136345-15136364 None:intergenic 50.0%
ACTGCCTTGAGATCGAGTAC+TGG + chr8.4:15136338-15136357 MS.gene47019:intron 50.0%
AGCGAGAGCAACAAGAAGAG+GGG - chr8.4:15136027-15136046 None:intergenic 50.0%
CAACAACACTACGCCACAAG+TGG + chr8.4:15135714-15135733 MS.gene47019:CDS 50.0%
CAGCAATCGGTGACTGGAAA+TGG + chr8.4:15136596-15136615 MS.gene47019:CDS 50.0%
CAGCGAGAGCAACAAGAAGA+GGG - chr8.4:15136028-15136047 None:intergenic 50.0%
CTGCCTTGAGATCGAGTACT+GGG + chr8.4:15136339-15136358 MS.gene47019:intron 50.0%
GACTGGAAATGGTTCGCAAC+AGG + chr8.4:15136607-15136626 MS.gene47019:CDS 50.0%
GATAAGCATGCTAGTCCAGC+TGG + chr8.4:15136530-15136549 MS.gene47019:CDS 50.0%
GTGACGAAGGAGATTGGTGT+TGG - chr8.4:15135967-15135986 None:intergenic 50.0%
GTTAGCGTGACGAAGGAGAT+TGG - chr8.4:15135973-15135992 None:intergenic 50.0%
TCAGCGAGAGCAACAAGAAG+AGG - chr8.4:15136029-15136048 None:intergenic 50.0%
TGGAAATGGTTCGCAACAGG+CGG + chr8.4:15136610-15136629 MS.gene47019:CDS 50.0%
ACCCGCGTTTACCGTTACTC+TGG + chr8.4:15136462-15136481 MS.gene47019:CDS 55.0%
CCCAGAGTAACGGTAAACGC+GGG - chr8.4:15136466-15136485 None:intergenic 55.0%
CCCGCGTTTACCGTTACTCT+GGG + chr8.4:15136463-15136482 MS.gene47019:CDS 55.0%
CTCGCTGATACTGCGTTTCG+CGG + chr8.4:15136041-15136060 MS.gene47019:CDS 55.0%
GCATGCTAGTCCAGCTGGTT+TGG + chr8.4:15136535-15136554 MS.gene47019:CDS 55.0%
TGGTTCGCAACAGGCGGTTG+TGG + chr8.4:15136616-15136635 MS.gene47019:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 15135693 15136733 15135693 ID=MS.gene47019
chr8.4 mRNA 15135693 15136733 15135693 ID=MS.gene47019.t1;Parent=MS.gene47019
chr8.4 exon 15135693 15136353 15135693 ID=MS.gene47019.t1.exon1;Parent=MS.gene47019.t1
chr8.4 CDS 15135693 15136353 15135693 ID=cds.MS.gene47019.t1;Parent=MS.gene47019.t1
chr8.4 exon 15136447 15136733 15136447 ID=MS.gene47019.t1.exon2;Parent=MS.gene47019.t1
chr8.4 CDS 15136447 15136733 15136447 ID=cds.MS.gene47019.t1;Parent=MS.gene47019.t1
Gene Sequence

>MS.gene47019

ATGTCATCAACAATATTGAAACAACAACACTACGCCACAAGTGGCTTAGTAATCGGTTACGCACTCTGTTCAAGCTTATTAGCAATCATAAACAAATACGCTATTACTCAATTCAACTACCCAGGTCTTTTAACAGCCTTACAATATCTCACTTCTTCACTCGGTGTTTACCTTTTAGGTAAATTAGGGTTTCTTCATCACGATCCTTTCACTATTCCAATCGCTAAGAAATTCTTCCCTGCAGCACTCGTTTTCTTCTTAGCGATCTTCACCAACACCAATCTCCTTCGTCACGCTAACGTTGATACGTTCATTGTTTTCAGATCTCTTACCCCTCTTCTTGTTGCTCTCGCTGATACTGCGTTTCGCGGTCAACCCTCTCCGTCTAATTTTACCTTTTTGTCCTTGGTTGTTATTCTTGCTGGTGCTGTTGGTTATGTTGCTACTGATTCCGGTTTTACACTCACGGCTTATTCTTGGGCTTTTGCTTATTTGGTTACCATTACTACTGAGATGGTTTATATTAAGCATATGGTTATGAGTCTTGGGTTGAATACTTGGGGTTTTGTGCTTTATAATAATGTATTGTCATTGATGATTGCTCCTGTTTTTTGGTTTTTGACTGGTGAGAATTTTGAGGTTTTTACTGCCTTGAGATCGAGTACTGGGAGTTGTTCGATGTGAATGCGTTTTTGGCGGTTTCGTTGTCTTGTGTGTTTGGTTTGTTGATTAGTTTCTTTGGATTTGCTGCTAGAAAGCTGTTTCTGCTACCCGCGTTTACCGTTACTCTGGGTTGTGAATAAGTTTCTGACTGTGGCAATTAATGTGACGATTTGGGATAAGCATGCTAGTCCAGCTGGTTTGGTTTGTTTGCTTTTTACGATTATTGGGGGTGTTCTTTATCAGCAATCGGTGACTGGAAATGGTTCGCAACAGGCGGTTGTGGTGACTAAACAACAGTCTGATGTTGAAAGTAGTCTTGTTGGTGATGGTGAATCTGAAGATGAGAGTGAAGGAAAGGGTAAACATGCTTCTCTATGA

Protein sequence

>MS.gene47019.t1

MSSTILKQQHYATSGLVIGYALCSSLLAIINKYAITQFNYPGLLTALQYLTSSLGVYLLGKLGFLHHDPFTIPIAKKFFPAALVFFLAIFTNTNLLRHANVDTFIVFRSLTPLLVALADTAFRGQPSPSNFTFLSLVVILAGAVGYVATDSGFTLTAYSWAFAYLVTITTEMVYIKHMVMSLGLNTWGFVLYNNVLSLMIAPVFWFLTGENFEVFTALRSKSCFCYPRLPLLWVVNKFLTVAINVTIWDKHASPAGLVCLLFTIIGGVLYQQSVTGNGSQQAVVVTKQQSDVESSLVGDGESEDESEGKGKHASL