AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37042

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37042.t1 MTR_8g012210 94.428 341 10 1 2 333 30 370 0.0 661
MS.gene37042.t1 MTR_2g437030 23.024 291 211 8 26 311 172 454 3.74e-13 70.5
MS.gene37042.t1 MTR_2g437260 20.130 308 233 9 26 326 80 381 6.60e-13 69.3
MS.gene37042.t1 MTR_6g083110 58.182 55 19 1 235 289 1 51 8.98e-13 65.9
MS.gene37042.t1 MTR_2g437960 21.622 296 222 7 26 316 99 389 1.57e-12 68.2
MS.gene37042.t1 MTR_2g437960 21.622 296 222 7 26 316 99 389 1.59e-12 68.2
MS.gene37042.t1 MTR_4g084630 21.642 268 198 5 26 281 17 284 2.38e-12 67.4
MS.gene37042.t1 MTR_2g437020 20.861 302 227 6 1 296 60 355 5.17e-12 66.6
MS.gene37042.t1 MTR_2g436400 20.000 310 243 5 3 311 70 375 9.14e-12 65.9
MS.gene37042.t1 MTR_2g437080 22.013 318 227 8 3 311 63 368 1.72e-11 65.1
MS.gene37042.t1 MTR_4g120380 21.649 291 213 8 26 310 88 369 2.10e-11 64.7
MS.gene37042.t1 MTR_2g019810 21.356 295 219 9 25 314 74 360 2.55e-11 64.3
MS.gene37042.t1 MTR_2g437160 21.944 319 220 11 26 333 109 409 3.30e-11 64.3
MS.gene37042.t1 MTR_2g436440 22.260 292 212 8 26 311 92 374 4.85e-11 63.5
MS.gene37042.t1 MTR_2g436460 20.875 297 219 9 21 310 86 373 7.91e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37042.t1 AT1G79220 48.083 339 161 5 5 333 66 399 9.06e-107 318
MS.gene37042.t1 AT5G64950 25.090 279 183 7 50 311 107 376 1.43e-11 65.5
MS.gene37042.t1 AT1G21150 21.667 240 181 4 26 260 63 300 4.78e-11 63.5
MS.gene37042.t1 AT1G21150 20.623 257 201 3 7 260 80 336 5.85e-11 63.5
MS.gene37042.t1 AT1G62010 20.749 347 225 10 6 310 61 399 6.48e-11 63.5
MS.gene37042.t1 AT1G61990 21.212 330 205 9 25 312 94 410 7.08e-11 63.2
MS.gene37042.t1 AT1G61990 21.212 330 205 9 25 312 94 410 7.08e-11 63.2
MS.gene37042.t1 AT1G21150 20.623 257 201 3 7 260 144 400 7.29e-11 63.5

Find 60 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTAGTGATTTGGGTTT+AGG 0.176330 8.2:+80146928 MS.gene37042:CDS
TGCTTAGTGATTTGGGTTTA+GGG 0.253153 8.2:+80146929 MS.gene37042:CDS
ACTTCGCTTGCTTAGTGATT+TGG 0.257285 8.2:+80146921 MS.gene37042:CDS
ATTGACAATGTCAAAATATT+AGG 0.269638 8.2:-80147402 None:intergenic
CTTCGCTTGCTTAGTGATTT+GGG 0.280618 8.2:+80146922 MS.gene37042:CDS
AGCAATGAAGGTACAGAATA+TGG 0.288554 8.2:+80147551 MS.gene37042:CDS
AAGTCCCAGCTCAAAATAAA+TGG 0.292578 8.2:+80146785 MS.gene37042:CDS
GGAAATTGCTGATGAGTTAA+TGG 0.297355 8.2:+80147662 MS.gene37042:CDS
AAATATGTGGTGACATTAAT+AGG 0.301744 8.2:+80147285 MS.gene37042:CDS
TAGCAGTTTCATCAAGGAAT+TGG 0.311012 8.2:+80147718 MS.gene37042:CDS
CAAGCCTCTCGTCAAAATTA+TGG 0.328645 8.2:-80147011 None:intergenic
ATATTTGAAAACAACAGATA+TGG 0.357754 8.2:-80147498 None:intergenic
TTTGTACAATTTCGAATCCT+TGG 0.360192 8.2:-80147265 None:intergenic
TTTGACATTGTCAATTGATA+AGG 0.373162 8.2:+80147410 MS.gene37042:CDS
TTCATTGCTAGAAGCACTCT+TGG 0.407140 8.2:-80147537 None:intergenic
GCGCAATGCGGATCCTTCTC+AGG 0.407457 8.2:+80146888 MS.gene37042:CDS
TATGTCATTGTTTGAGTCAA+AGG 0.408420 8.2:+80147041 MS.gene37042:CDS
TTGTAAAGATTATCAATTGT+AGG 0.408436 8.2:+80146962 MS.gene37042:CDS
CATCAGCAATTTCCTTATCA+TGG 0.411377 8.2:-80147653 None:intergenic
ATGGAATATATAAGTAGGAT+TGG 0.421574 8.2:+80147237 MS.gene37042:CDS
AGCTGGGACTTTCGTCGAAT+AGG 0.432888 8.2:-80146773 None:intergenic
TGTGGAAACAATTCGCGAAA+AGG 0.448608 8.2:+80147317 MS.gene37042:CDS
CCTCAATGCTCTAAGTATTG+AGG 0.451275 8.2:-80147592 None:intergenic
CGTATTGTTGCACAGTATGA+AGG 0.453789 8.2:+80147129 MS.gene37042:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.456305 8.2:+80147218 MS.gene37042:CDS
CTCAATGCTCTAAGTATTGA+GGG 0.456627 8.2:-80147591 None:intergenic
GTTGCACAGTATGAAGGGTT+AGG 0.459567 8.2:+80147135 MS.gene37042:CDS
AAGGGTTAGGTATACCGAAA+AGG 0.464523 8.2:+80147148 MS.gene37042:CDS
GTCAAAGGAAATGCTTCATA+AGG 0.473131 8.2:+80147056 MS.gene37042:CDS
AGATTATCAATTGTAGGCCT+CGG 0.478601 8.2:+80146968 MS.gene37042:CDS
TGGAATATATAAGTAGGATT+GGG 0.487565 8.2:+80147238 MS.gene37042:CDS
GATCCGCATTGCGCAAAGAC+GGG 0.492040 8.2:-80146879 None:intergenic
AGGTATACCGAAAAGGGACT+TGG 0.507671 8.2:+80147155 MS.gene37042:CDS
GTTTGTCAGATGCCATGATA+AGG 0.508257 8.2:+80147641 MS.gene37042:CDS
TATTTGAAAACAACAGATAT+GGG 0.512551 8.2:-80147497 None:intergenic
CATATAAAAGTAGTTCAGAA+AGG 0.515005 8.2:-80147756 None:intergenic
GGATCCGCATTGCGCAAAGA+CGG 0.525836 8.2:-80146880 None:intergenic
AAGAGTGCTTCTAGCAATGA+AGG 0.527541 8.2:+80147539 MS.gene37042:CDS
AGGGTTAGGTATACCGAAAA+GGG 0.527814 8.2:+80147149 MS.gene37042:CDS
CAATGAAGGGTTTCTTGCAA+TGG 0.534493 8.2:-80147079 None:intergenic
AGAAGATGGAATATATAAGT+AGG 0.535407 8.2:+80147232 MS.gene37042:CDS
AGAGATTAGCAGTTTCATCA+AGG 0.536690 8.2:+80147712 MS.gene37042:CDS
ATATAAAAGTAGTTCAGAAA+GGG 0.539481 8.2:-80147755 None:intergenic
CTTCATACTGTGCAACAATA+CGG 0.541616 8.2:-80147128 None:intergenic
TTCGAAATTGTACAAATATG+TGG 0.547821 8.2:+80147272 MS.gene37042:CDS
AAGTAGGATTGGGCTTTCCA+AGG 0.560292 8.2:+80147248 MS.gene37042:CDS
TGTCAATTGATAAGGTTCAA+AGG 0.565097 8.2:+80147418 MS.gene37042:CDS
TTCCATCTTCTCATCATCAA+AGG 0.572098 8.2:-80147220 None:intergenic
TCAAGGAATTGGACTACTAG+AGG 0.573509 8.2:+80147729 MS.gene37042:CDS
CATTGAGGATGTCCGAGGAG+AGG 0.582695 8.2:+80147607 MS.gene37042:CDS
ACTTTCGTCGAATAGGTGGC+AGG 0.582772 8.2:-80146766 None:intergenic
CCCAGCTCAAAATAAATGGA+AGG 0.585808 8.2:+80146789 MS.gene37042:CDS
ATTAATAGGCATCTCTCGTG+TGG 0.591058 8.2:+80147299 MS.gene37042:CDS
CCTCAATACTTAGAGCATTG+AGG 0.607754 8.2:+80147592 MS.gene37042:CDS
GTATTGTTGCACAGTATGAA+GGG 0.608863 8.2:+80147130 MS.gene37042:CDS
TGGGACTTTCGTCGAATAGG+TGG 0.610226 8.2:-80146770 None:intergenic
GAAGTTCTCGAAATAACAGT+CGG 0.638101 8.2:-80147198 None:intergenic
AGTTTCGACTGAACCTGAGA+AGG 0.646506 8.2:-80146901 None:intergenic
TAGAGCATTGAGGATGTCCG+AGG 0.681763 8.2:+80147602 MS.gene37042:CDS
TTGCCCGTCTTTGCGCAATG+CGG 0.689638 8.2:+80146876 MS.gene37042:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTAATGGAATTTTATAAA+AGG + chr8.2:80147676-80147695 MS.gene37042:CDS 15.0%
!! ATATTTGAAAACAACAGATA+TGG - chr8.2:80147501-80147520 None:intergenic 20.0%
!! ATTGACAATGTCAAAATATT+AGG - chr8.2:80147405-80147424 None:intergenic 20.0%
!! TATTTGAAAACAACAGATAT+GGG - chr8.2:80147500-80147519 None:intergenic 20.0%
!! TTGTAAAGATTATCAATTGT+AGG + chr8.2:80146962-80146981 MS.gene37042:CDS 20.0%
!!! ATATCTGTTGTTTTCAAATA+TGG + chr8.2:80147500-80147519 MS.gene37042:CDS 20.0%
!!! ATTTTATAAAAGGACAAAAC+AGG + chr8.2:80147686-80147705 MS.gene37042:CDS 20.0%
!!! TTTTACAAAGTATGGTTTTT+CGG + chr8.2:80147347-80147366 MS.gene37042:CDS 20.0%
! AAATATGTGGTGACATTAAT+AGG + chr8.2:80147285-80147304 MS.gene37042:CDS 25.0%
! AGAAGATGGAATATATAAGT+AGG + chr8.2:80147232-80147251 MS.gene37042:CDS 25.0%
! ATGGAATATATAAGTAGGAT+TGG + chr8.2:80147237-80147256 MS.gene37042:CDS 25.0%
! TGGAATATATAAGTAGGATT+GGG + chr8.2:80147238-80147257 MS.gene37042:CDS 25.0%
! TTCGAAATTGTACAAATATG+TGG + chr8.2:80147272-80147291 MS.gene37042:CDS 25.0%
! TTTGACATTGTCAATTGATA+AGG + chr8.2:80147410-80147429 MS.gene37042:CDS 25.0%
!! ATGAAATATTCGGTCTTTTT+GGG + chr8.2:80147373-80147392 MS.gene37042:CDS 25.0%
!! GTGTTGAATTTTACAAAGTA+TGG + chr8.2:80147339-80147358 MS.gene37042:CDS 25.0%
!! TTTTCGGATGATGAAATATT+CGG + chr8.2:80147363-80147382 MS.gene37042:CDS 25.0%
!!! TACTGAAGTTTTGAGTAAAT+GGG + chr8.2:80146816-80146835 MS.gene37042:CDS 25.0%
TATGTCATTGTTTGAGTCAA+AGG + chr8.2:80147041-80147060 MS.gene37042:CDS 30.0%
TGTCAATTGATAAGGTTCAA+AGG + chr8.2:80147418-80147437 MS.gene37042:CDS 30.0%
TTTGTACAATTTCGAATCCT+TGG - chr8.2:80147268-80147287 None:intergenic 30.0%
! AGGAACATGACTTTCATTTT+AGG + chr8.2:80147438-80147457 MS.gene37042:CDS 30.0%
! GATGAAATATTCGGTCTTTT+TGG + chr8.2:80147372-80147391 MS.gene37042:CDS 30.0%
! TATTTTCACACAGCAATGAA+GGG - chr8.2:80147095-80147114 None:intergenic 30.0%
! TTATTTTCACACAGCAATGA+AGG - chr8.2:80147096-80147115 None:intergenic 30.0%
!! TTAACCATAATTTTGACGAG+AGG + chr8.2:80147007-80147026 MS.gene37042:CDS 30.0%
!!! ACTGAAGTTTTGAGTAAATG+GGG + chr8.2:80146817-80146836 MS.gene37042:CDS 30.0%
!!! CTACTGAAGTTTTGAGTAAA+TGG + chr8.2:80146815-80146834 MS.gene37042:CDS 30.0%
AAGTCCCAGCTCAAAATAAA+TGG + chr8.2:80146785-80146804 MS.gene37042:CDS 35.0%
AGAGATTAGCAGTTTCATCA+AGG + chr8.2:80147712-80147731 MS.gene37042:CDS 35.0%
AGATTATCAATTGTAGGCCT+CGG + chr8.2:80146968-80146987 MS.gene37042:CDS 35.0%
CATCAGCAATTTCCTTATCA+TGG - chr8.2:80147656-80147675 None:intergenic 35.0%
CTTCATACTGTGCAACAATA+CGG - chr8.2:80147131-80147150 None:intergenic 35.0%
GAAGTTCTCGAAATAACAGT+CGG - chr8.2:80147201-80147220 None:intergenic 35.0%
GGAAATTGCTGATGAGTTAA+TGG + chr8.2:80147662-80147681 MS.gene37042:CDS 35.0%
GTATTGTTGCACAGTATGAA+GGG + chr8.2:80147130-80147149 MS.gene37042:CDS 35.0%
GTCAAAGGAAATGCTTCATA+AGG + chr8.2:80147056-80147075 MS.gene37042:CDS 35.0%
TAGCAGTTTCATCAAGGAAT+TGG + chr8.2:80147718-80147737 MS.gene37042:CDS 35.0%
TTCCATCTTCTCATCATCAA+AGG - chr8.2:80147223-80147242 None:intergenic 35.0%
! AGCAATGAAGGTACAGAATA+TGG + chr8.2:80147551-80147570 MS.gene37042:CDS 35.0%
! ATTTGAACCAAGTCCCTTTT+CGG - chr8.2:80147165-80147184 None:intergenic 35.0%
! TGCTTAGTGATTTGGGTTTA+GGG + chr8.2:80146929-80146948 MS.gene37042:CDS 35.0%
! TTGCTTAGTGATTTGGGTTT+AGG + chr8.2:80146928-80146947 MS.gene37042:CDS 35.0%
!! CTCAATGCTCTAAGTATTGA+GGG - chr8.2:80147594-80147613 None:intergenic 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG + chr8.2:80147218-80147237 MS.gene37042:CDS 35.0%
!!! CCTTCCATTTATTTTGAGCT+GGG - chr8.2:80146792-80146811 None:intergenic 35.0%
!!! TCCTTCCATTTATTTTGAGC+TGG - chr8.2:80146793-80146812 None:intergenic 35.0%
AAGGGTTAGGTATACCGAAA+AGG + chr8.2:80147148-80147167 MS.gene37042:CDS 40.0%
ACTTCGCTTGCTTAGTGATT+TGG + chr8.2:80146921-80146940 MS.gene37042:CDS 40.0%
AGGGTTAGGTATACCGAAAA+GGG + chr8.2:80147149-80147168 MS.gene37042:CDS 40.0%
ATTAATAGGCATCTCTCGTG+TGG + chr8.2:80147299-80147318 MS.gene37042:CDS 40.0%
CAAGCCTCTCGTCAAAATTA+TGG - chr8.2:80147014-80147033 None:intergenic 40.0%
CAATGAAGGGTTTCTTGCAA+TGG - chr8.2:80147082-80147101 None:intergenic 40.0%
CCCAGCTCAAAATAAATGGA+AGG + chr8.2:80146789-80146808 MS.gene37042:CDS 40.0%
CGTATTGAAAAACCTCTCCT+CGG - chr8.2:80147622-80147641 None:intergenic 40.0%
CGTATTGTTGCACAGTATGA+AGG + chr8.2:80147129-80147148 MS.gene37042:CDS 40.0%
CTTCGCTTGCTTAGTGATTT+GGG + chr8.2:80146922-80146941 MS.gene37042:CDS 40.0%
GTTTGTCAGATGCCATGATA+AGG + chr8.2:80147641-80147660 MS.gene37042:CDS 40.0%
TCAAGGAATTGGACTACTAG+AGG + chr8.2:80147729-80147748 MS.gene37042:CDS 40.0%
TGTGGAAACAATTCGCGAAA+AGG + chr8.2:80147317-80147336 MS.gene37042:CDS 40.0%
! CCTCAATGCTCTAAGTATTG+AGG - chr8.2:80147595-80147614 None:intergenic 40.0%
!! AAGAGTGCTTCTAGCAATGA+AGG + chr8.2:80147539-80147558 MS.gene37042:CDS 40.0%
!! CCTCAATACTTAGAGCATTG+AGG + chr8.2:80147592-80147611 MS.gene37042:CDS 40.0%
!! GTTTTGAGTAAATGGGGTTG+TGG + chr8.2:80146823-80146842 MS.gene37042:CDS 40.0%
!! TTCATTGCTAGAAGCACTCT+TGG - chr8.2:80147540-80147559 None:intergenic 40.0%
AAGTAGGATTGGGCTTTCCA+AGG + chr8.2:80147248-80147267 MS.gene37042:CDS 45.0%
AGGTATACCGAAAAGGGACT+TGG + chr8.2:80147155-80147174 MS.gene37042:CDS 45.0%
AGTTTCGACTGAACCTGAGA+AGG - chr8.2:80146904-80146923 None:intergenic 45.0%
GTTGCACAGTATGAAGGGTT+AGG + chr8.2:80147135-80147154 MS.gene37042:CDS 45.0%
! ATTGTAGGCCTCGGTTTTTC+AGG + chr8.2:80146977-80146996 MS.gene37042:CDS 45.0%
ACTTTCGTCGAATAGGTGGC+AGG - chr8.2:80146769-80146788 None:intergenic 50.0%
AGCTGGGACTTTCGTCGAAT+AGG - chr8.2:80146776-80146795 None:intergenic 50.0%
TGGGACTTTCGTCGAATAGG+TGG - chr8.2:80146773-80146792 None:intergenic 50.0%
!! TAGAGCATTGAGGATGTCCG+AGG + chr8.2:80147602-80147621 MS.gene37042:CDS 50.0%
AGCCGAGTCCTGAAAAACCG+AGG - chr8.2:80146988-80147007 None:intergenic 55.0%
CATTGAGGATGTCCGAGGAG+AGG + chr8.2:80147607-80147626 MS.gene37042:CDS 55.0%
GATCCGCATTGCGCAAAGAC+GGG - chr8.2:80146882-80146901 None:intergenic 55.0%
GGATCCGCATTGCGCAAAGA+CGG - chr8.2:80146883-80146902 None:intergenic 55.0%
TTGCCCGTCTTTGCGCAATG+CGG + chr8.2:80146876-80146895 MS.gene37042:CDS 55.0%
!!! GGCCTCGGTTTTTCAGGACT+CGG + chr8.2:80146983-80147002 MS.gene37042:CDS 55.0%
GCGCAATGCGGATCCTTCTC+AGG + chr8.2:80146888-80146907 MS.gene37042:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 80146763 80147764 80146763 ID=MS.gene37042
chr8.2 mRNA 80146763 80147764 80146763 ID=MS.gene37042.t1;Parent=MS.gene37042
chr8.2 exon 80146763 80147764 80146763 ID=MS.gene37042.t1.exon1;Parent=MS.gene37042.t1
chr8.2 CDS 80146763 80147764 80146763 ID=cds.MS.gene37042.t1;Parent=MS.gene37042.t1
Gene Sequence

>MS.gene37042

ATGCCTGCCACCTATTCGACGAAAGTCCCAGCTCAAAATAAATGGAAGGATGCTACTGAAGTTTTGAGTAAATGGGGTTGTGGTGATGACGATTTGACGAGAATATTCACTCGTTGCCCGTCTTTGCGCAATGCGGATCCTTCTCAGGTTCAGTCGAAACTTCGCTTGCTTAGTGATTTGGGTTTAGGGTCAGCTGAGCTTGTAAAGATTATCAATTGTAGGCCTCGGTTTTTCAGGACTCGGCTTAACCATAATTTTGACGAGAGGCTTGACTCTCTTATGTCATTGTTTGAGTCAAAGGAAATGCTTCATAAGGCCATTGCAAGAAACCCTTCATTGCTGTGTGAAAATAATTATGACATTGACCGTATTGTTGCACAGTATGAAGGGTTAGGTATACCGAAAAGGGACTTGGTTCAAATGATGATTTTGAGACCGACTGTTATTTCGAGAACTTCCTTTGATGATGAGAAGATGGAATATATAAGTAGGATTGGGCTTTCCAAGGATTCGAAATTGTACAAATATGTGGTGACATTAATAGGCATCTCTCGTGTGGAAACAATTCGCGAAAAGGTGTTGAATTTTACAAAGTATGGTTTTTCGGATGATGAAATATTCGGTCTTTTTGGGAAGTCTCCTAATATTTTGACATTGTCAATTGATAAGGTTCAAAGGAACATGACTTTCATTTTAGGCACAATGAAGCTTGAAGCTAACATAATCTTTACGTACCCATATCTGTTGTTTTCAAATATGGAGACTGTTTTGAAGCCAAGAGTGCTTCTAGCAATGAAGGTACAGAATATGGATTCTAATATGAAAACACCCTCAATACTTAGAGCATTGAGGATGTCCGAGGAGAGGTTTTTCAATACGTTTGTCAGATGCCATGATAAGGAAATTGCTGATGAGTTAATGGAATTTTATAAAAGGACAAAACAGGTCAAGAGATTAGCAGTTTCATCAAGGAATTGGACTACTAGAGGATTCCCTTTCTGA
Protein sequence

>MS.gene37042.t1

MPATYSTKVPAQNKWKDATEVLSKWGCGDDDLTRIFTRCPSLRNADPSQVQSKLRLLSDLGLGSAELVKIINCRPRFFRTRLNHNFDERLDSLMSLFESKEMLHKAIARNPSLLCENNYDIDRIVAQYEGLGIPKRDLVQMMILRPTVISRTSFDDEKMEYISRIGLSKDSKLYKYVVTLIGISRVETIREKVLNFTKYGFSDDEIFGLFGKSPNILTLSIDKVQRNMTFILGTMKLEANIIFTYPYLLFSNMETVLKPRVLLAMKVQNMDSNMKTPSILRALRMSEERFFNTFVRCHDKEIADELMEFYKRTKQVKRLAVSSRNWTTRGFPF