AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60999


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60999.t1 MTR_8g066730 100.000 110 0 0 1 110 267 376 9.11e-78 233
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60999.t1 AT1G32360 61.739 115 38 5 1 110 271 384 1.12e-36 128
MS.gene60999.t1 AT2G35430 54.464 112 36 5 1 110 154 252 8.77e-31 109
MS.gene60999.t1 AT3G19360 40.541 111 48 5 1 109 280 374 4.91e-15 69.7
MS.gene60999.t1 AT3G19360 40.541 111 48 5 1 109 280 374 4.91e-15 69.7

Find 33 sgRNAs with CRISPR-Local

Find 117 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACATTATCAGCATGAGTTT+TGG 0.299688 8.1:+37755576 None:intergenic
CAGATATGGAGGTGGGCTTA+TGG 0.316746 8.1:-37755659 MS.gene60999:CDS
GATAAAATCAGTAGGATATA+TGG 0.337131 8.1:-37755436 MS.gene60999:CDS
GGTTCAGATGTTTATCATCT+TGG 0.353688 8.1:-37755532 MS.gene60999:CDS
TTCTGATGAGCTCTCTGTCC+TGG 0.376334 8.1:+37755472 None:intergenic
CTGTAGCACCATGAGCAAAA+TGG 0.399102 8.1:+37757245 None:intergenic
GTTGCATCAAATCCTCCTAT+TGG 0.403665 8.1:-37755553 MS.gene60999:CDS
TGTAATAAGTGGGAGATGAC+TGG 0.409320 8.1:-37757292 None:intergenic
ACTACAGAATTACACAGATA+TGG 0.413749 8.1:-37755673 MS.gene60999:intron
ATGACTGGGTATTGTCCCTT+TGG 0.419828 8.1:-37757277 MS.gene60999:CDS
TGATAAACATCTGAACCAAT+AGG 0.439056 8.1:+37755538 None:intergenic
TGTTGCGTCTGACACAAAAC+AGG 0.449665 8.1:-37755608 MS.gene60999:CDS
CAATGGAAGGTCTCTGTGAA+GGG 0.514650 8.1:+37755506 None:intergenic
TCAGTAGGATATATGGCGAT+TGG 0.521816 8.1:-37755429 MS.gene60999:CDS
AAAATGGCATTTGTTACCAA+AGG 0.546912 8.1:+37757261 None:intergenic
GACAGAGAGCTCATCAGAAG+TGG 0.547469 8.1:-37755468 MS.gene60999:CDS
GGCCTCTGACTCACAATGGA+AGG 0.553370 8.1:+37755493 None:intergenic
AAATGGCATTTGTTACCAAA+GGG 0.557541 8.1:+37757262 None:intergenic
GTAATAAGTGGGAGATGACT+GGG 0.557999 8.1:-37757291 None:intergenic
TCCATTGTGAGTCAGAGGCC+AGG 0.568730 8.1:-37755490 MS.gene60999:CDS
ACAATGGAAGGTCTCTGTGA+AGG 0.570880 8.1:+37755505 None:intergenic
GACCTTCCATTGTGAGTCAG+AGG 0.582385 8.1:-37755495 MS.gene60999:CDS
TATGGAGGTGGGCTTATGGA+AGG 0.583879 8.1:-37755655 MS.gene60999:CDS
TCCTGGCCTCTGACTCACAA+TGG 0.594508 8.1:+37755489 None:intergenic
CAAAACTCATGCTGATAATG+TGG 0.598802 8.1:-37755575 MS.gene60999:CDS
AGAGCTCATCAGAAGTGGAA+AGG 0.606297 8.1:-37755463 MS.gene60999:CDS
GAATTACACAGATATGGAGG+TGG 0.619283 8.1:-37755667 MS.gene60999:CDS
AAGGTCCCGATAAAATCAGT+AGG 0.622761 8.1:-37755444 MS.gene60999:CDS
TAAACATCTGAACCAATAGG+AGG 0.638482 8.1:+37755541 None:intergenic
AATTACACAGATATGGAGGT+GGG 0.647774 8.1:-37755666 MS.gene60999:CDS
ATGGAAGGAGAAAGCAGAGA+CGG 0.651866 8.1:-37755640 MS.gene60999:CDS
ACAGAATTACACAGATATGG+AGG 0.670966 8.1:-37755670 MS.gene60999:intron
GTTGCGTCTGACACAAAACA+GGG 0.716294 8.1:-37755607 MS.gene60999:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAGATGTATAATAAATA+GGG + chr8.1:37756438-37756457 None:intergenic 10.0%
!! ATTTATATAAAATAGGTTAT+AGG + chr8.1:37756972-37756991 None:intergenic 10.0%
!!! GATTAAAGATTTTAATTTTA+TGG - chr8.1:37755507-37755526 MS.gene60999:CDS 10.0%
!! AAAAGATGTATAATAAATAG+GGG + chr8.1:37756437-37756456 None:intergenic 15.0%
!! AAAGAAATAATTAATGTAGT+TGG + chr8.1:37756405-37756424 None:intergenic 15.0%
!! AAGACAGATTTATATAAAAT+AGG + chr8.1:37756979-37756998 None:intergenic 15.0%
!! GAAAAAGATGTATAATAAAT+AGG + chr8.1:37756439-37756458 None:intergenic 15.0%
!!! TTTTAATTTTATGGTAATTG+AGG - chr8.1:37755516-37755535 MS.gene60999:CDS 15.0%
!! ACATAACAAAATCATCAAAA+TGG + chr8.1:37755481-37755500 None:intergenic 20.0%
!! GACAAAAAAAATTCTCAAAA+GGG + chr8.1:37756355-37756374 None:intergenic 20.0%
!!! ATATATCCTACTGATTTTAT+CGG + chr8.1:37757253-37757272 None:intergenic 20.0%
!!! GGTTTTTTCTTCATTTAATA+TGG - chr8.1:37755689-37755708 MS.gene60999:intron 20.0%
! AAGAAAAAACCAATCTTGTA+TGG + chr8.1:37755680-37755699 None:intergenic 25.0%
! ATGAAAAGTAATCGCAAAAA+AGG + chr8.1:37756068-37756087 None:intergenic 25.0%
! GATAAAATCAGTAGGATATA+TGG - chr8.1:37757252-37757271 MS.gene60999:CDS 25.0%
! GGACAAAAAAAATTCTCAAA+AGG + chr8.1:37756356-37756375 None:intergenic 25.0%
!! ATTTGAATTTGAAGCATACA+AGG + chr8.1:37756094-37756113 None:intergenic 25.0%
!! GTTATAAATAGTTTGTGTTG+TGG - chr8.1:37755589-37755608 MS.gene60999:CDS 25.0%
!! TACCATTTGGATACAATTTT+GGG - chr8.1:37755631-37755650 MS.gene60999:CDS 25.0%
!! TCAAAAGGGTCTTATAATTA+GGG + chr8.1:37756341-37756360 None:intergenic 25.0%
!! TCTTTTTATCCATACAAGAT+TGG - chr8.1:37755668-37755687 MS.gene60999:CDS 25.0%
!! TTACCATTTGGATACAATTT+TGG - chr8.1:37755630-37755649 MS.gene60999:CDS 25.0%
!! TTTTCATTGTGCAAAACATA+AGG + chr8.1:37755960-37755979 None:intergenic 25.0%
!! TTTTCTTAATCAGAAAGTGA+AGG + chr8.1:37756124-37756143 None:intergenic 25.0%
!!! ATAGAAAGTGCTATTAGAAT+TGG - chr8.1:37755563-37755582 MS.gene60999:CDS 25.0%
!!! ATTCCCGTTATTTTTTGAAA+AGG - chr8.1:37756575-37756594 MS.gene60999:intron 25.0%
!!! GATGATTTTGTTATGTGAAT+TGG - chr8.1:37755485-37755504 MS.gene60999:CDS 25.0%
!!! TATATCCTACTGATTTTATC+GGG + chr8.1:37757252-37757271 None:intergenic 25.0%
!!! TTCCCGTTATTTTTTGAAAA+GGG - chr8.1:37756576-37756595 MS.gene60999:intron 25.0%
AATGTAGTTGGAAATAGCAA+AGG + chr8.1:37756393-37756412 None:intergenic 30.0%
ACCAAAACAAAATTGACACT+AGG + chr8.1:37755769-37755788 None:intergenic 30.0%
ACTACAGAATTACACAGATA+TGG - chr8.1:37757015-37757034 MS.gene60999:intron 30.0%
ACTGTAAACCAAAAAACACT+TGG + chr8.1:37756041-37756060 None:intergenic 30.0%
ACTTTCATTGCTTTGATGTT+TGG - chr8.1:37756710-37756729 MS.gene60999:intron 30.0%
ATGTAGTTGGAAATAGCAAA+GGG + chr8.1:37756392-37756411 None:intergenic 30.0%
ATTGCATAGATTACTCAAGT+CGG + chr8.1:37755876-37755895 None:intergenic 30.0%
CCAAAACAAAATTGACACTA+GGG + chr8.1:37755768-37755787 None:intergenic 30.0%
GAAAAGAATAGTTTCATGAG+TGG - chr8.1:37756164-37756183 MS.gene60999:intron 30.0%
GTAATGTATATGTGCATGTT+TGG + chr8.1:37756877-37756896 None:intergenic 30.0%
TAATCTGTGTTGTCAAATAG+TGG - chr8.1:37756220-37756239 MS.gene60999:intron 30.0%
TGATAAACATCTGAACCAAT+AGG + chr8.1:37757153-37757172 None:intergenic 30.0%
TGATATGTAGTATGTGAATG+TGG - chr8.1:37755815-37755834 MS.gene60999:intron 30.0%
TGTACTTAATCGCATATTTG+CGG + chr8.1:37756293-37756312 None:intergenic 30.0%
TTCCCAAAATTGTATCCAAA+TGG + chr8.1:37755636-37755655 None:intergenic 30.0%
! AAAATGGCATTTGTTACCAA+AGG + chr8.1:37755430-37755449 None:intergenic 30.0%
! AAATGGCATTTGTTACCAAA+GGG + chr8.1:37755429-37755448 None:intergenic 30.0%
! AATAACGGGAATTAAGATAG+TGG + chr8.1:37756567-37756586 None:intergenic 30.0%
! AGGCCCTTTTCAAAAAATAA+CGG + chr8.1:37756582-37756601 None:intergenic 30.0%
! CTCAAAAGGGTCTTATAATT+AGG + chr8.1:37756342-37756361 None:intergenic 30.0%
! TGAAAAGGGCCTTATAATTA+GGG - chr8.1:37756590-37756609 MS.gene60999:intron 30.0%
! TTGAAAAGGGCCTTATAATT+AGG - chr8.1:37756589-37756608 MS.gene60999:intron 30.0%
!! AATTTTATCCTCTAAGAGAG+AGG + chr8.1:37756503-37756522 None:intergenic 30.0%
!! ATTTTATCCTCTAAGAGAGA+GGG + chr8.1:37756502-37756521 None:intergenic 30.0%
!!! GCAAATTTCCAAGTGTTTTT+TGG - chr8.1:37756030-37756049 MS.gene60999:intron 30.0%
!!! TTTTGTTTTGGTTGATGCTA+AGG - chr8.1:37755777-37755796 MS.gene60999:intron 30.0%
AAACATGCACGTAATGAACA+AGG + chr8.1:37756736-37756755 None:intergenic 35.0%
AAGAATAGTTTCATGAGTGG+TGG - chr8.1:37756167-37756186 MS.gene60999:intron 35.0%
AATTACACAGATATGGAGGT+GGG - chr8.1:37757022-37757041 MS.gene60999:intron 35.0%
ACAGAATTACACAGATATGG+AGG - chr8.1:37757018-37757037 MS.gene60999:intron 35.0%
AGAATAGTTTCATGAGTGGT+GGG - chr8.1:37756168-37756187 MS.gene60999:intron 35.0%
CATTGTGCAAAACATAAGGA+AGG + chr8.1:37755956-37755975 None:intergenic 35.0%
GGTTCAGATGTTTATCATCT+TGG - chr8.1:37757156-37757175 MS.gene60999:intron 35.0%
TAAACATCTGAACCAATAGG+AGG + chr8.1:37757150-37757169 None:intergenic 35.0%
TGTAGTTGGAAATAGCAAAG+GGG + chr8.1:37756391-37756410 None:intergenic 35.0%
TTGTTCATTACGTGCATGTT+TGG - chr8.1:37756735-37756754 MS.gene60999:intron 35.0%
! AAGGGTCTTATAATTAGGGA+CGG + chr8.1:37756337-37756356 None:intergenic 35.0%
! AGCAAAGGGGTCTTATAAAA+AGG + chr8.1:37756378-37756397 None:intergenic 35.0%
! CAAAACTCATGCTGATAATG+TGG - chr8.1:37757113-37757132 MS.gene60999:intron 35.0%
! CACATTATCAGCATGAGTTT+TGG + chr8.1:37757115-37757134 None:intergenic 35.0%
! GCAAAGGGGTCTTATAAAAA+GGG + chr8.1:37756377-37756396 None:intergenic 35.0%
! GGCCCTTTTCAAAAAATAAC+GGG + chr8.1:37756581-37756600 None:intergenic 35.0%
! TGAAAGTATGCTGTCAATTG+CGG + chr8.1:37756697-37756716 None:intergenic 35.0%
!! CCCTAGTGTCAATTTTGTTT+TGG - chr8.1:37755765-37755784 MS.gene60999:intron 35.0%
!!! AACAAATGCCATTTTGCTCA+TGG - chr8.1:37755435-37755454 MS.gene60999:CDS 35.0%
!!! TTATCAGCATGAGTTTTGGA+AGG + chr8.1:37757111-37757130 None:intergenic 35.0%
AAGGTCCCGATAAAATCAGT+AGG - chr8.1:37757244-37757263 MS.gene60999:intron 40.0%
GAATTACACAGATATGGAGG+TGG - chr8.1:37757021-37757040 MS.gene60999:intron 40.0%
GTGGGTTCAGAATGAATAGA+TGG - chr8.1:37756186-37756205 MS.gene60999:intron 40.0%
GTTGCATCAAATCCTCCTAT+TGG - chr8.1:37757135-37757154 MS.gene60999:intron 40.0%
TACCTCCGTCCCTAATTATA+AGG + chr8.1:37756348-37756329 None:intergenic 40.0%
TACGTGCATGTTTGGATTGA+CGG - chr8.1:37756743-37756762 MS.gene60999:intron 40.0%
TATGATAGCACAGTACGTAG+TGG - chr8.1:37756641-37756660 MS.gene60999:intron 40.0%
TATGTGCATGTTTGGATCAG+CGG + chr8.1:37756869-37756888 None:intergenic 40.0%
TCAGTAGGATATATGGCGAT+TGG - chr8.1:37757259-37757278 MS.gene60999:CDS 40.0%
! AAGGGCCTTATAATTAGGGA+CGG - chr8.1:37756594-37756613 MS.gene60999:intron 40.0%
! GGCAGTGTTTTCTTACCATT+TGG - chr8.1:37755618-37755637 MS.gene60999:CDS 40.0%
! TAGTTTGTGTTGTGGAGTTG+TGG - chr8.1:37755597-37755616 MS.gene60999:CDS 40.0%
AAACCAACCCTCTCTCTTAG+AGG - chr8.1:37756492-37756511 MS.gene60999:intron 45.0%
ACAATGGAAGGTCTCTGTGA+AGG + chr8.1:37757186-37757205 None:intergenic 45.0%
AGAGCTCATCAGAAGTGGAA+AGG - chr8.1:37757225-37757244 MS.gene60999:intron 45.0%
ATGGAAGGAGAAAGCAGAGA+CGG - chr8.1:37757048-37757067 MS.gene60999:intron 45.0%
ATTGACACTAGGGACAATGC+AGG + chr8.1:37755758-37755777 None:intergenic 45.0%
CAATGGAAGGTCTCTGTGAA+GGG + chr8.1:37757185-37757204 None:intergenic 45.0%
CGGTGAGATTGGCATAATCA+TGG + chr8.1:37756849-37756868 None:intergenic 45.0%
CTGTAGCACCATGAGCAAAA+TGG + chr8.1:37755446-37755465 None:intergenic 45.0%
GTTGCGTCTGACACAAAACA+GGG - chr8.1:37757081-37757100 MS.gene60999:intron 45.0%
TGTTGCGTCTGACACAAAAC+AGG - chr8.1:37757080-37757099 MS.gene60999:intron 45.0%
TTGACACTAGGGACAATGCA+GGG + chr8.1:37755757-37755776 None:intergenic 45.0%
! ATGACTGGGTATTGTCCCTT+TGG - chr8.1:37755411-37755430 MS.gene60999:CDS 45.0%
! GGTCTTATAATTAGGGACGG+AGG + chr8.1:37756334-37756353 None:intergenic 45.0%
! TATCCTCTAAGAGAGAGGGT+TGG + chr8.1:37756498-37756517 None:intergenic 45.0%
!!! CATTTTGCTCATGGTGCTAC+AGG - chr8.1:37755444-37755463 MS.gene60999:CDS 45.0%
ACGGAGGTAGTAGCGTTTAC+AGG - chr8.1:37756613-37756632 MS.gene60999:intron 50.0%
CGGAGGTAGTAGCGTTTACA+GGG - chr8.1:37756614-37756633 MS.gene60999:intron 50.0%
GACAGAGAGCTCATCAGAAG+TGG - chr8.1:37757220-37757239 MS.gene60999:intron 50.0%
GACCTTCCATTGTGAGTCAG+AGG - chr8.1:37757193-37757212 MS.gene60999:intron 50.0%
GTTTGGATCAGCGGTGAGAT+TGG + chr8.1:37756860-37756879 None:intergenic 50.0%
TTCTGATGAGCTCTCTGTCC+TGG + chr8.1:37757219-37757238 None:intergenic 50.0%
! CAGATATGGAGGTGGGCTTA+TGG - chr8.1:37757029-37757048 MS.gene60999:intron 50.0%
! GGCCTTATAATTAGGGACGG+AGG - chr8.1:37756597-37756616 MS.gene60999:intron 50.0%
! TATGGAGGTGGGCTTATGGA+AGG - chr8.1:37757033-37757052 MS.gene60999:intron 50.0%
CGAGTTTAGCAAGATCGCGG+TGG - chr8.1:37756766-37756785 MS.gene60999:intron 55.0%
CGGCGAGTTTAGCAAGATCG+CGG - chr8.1:37756763-37756782 MS.gene60999:intron 55.0%
GGCCTCTGACTCACAATGGA+AGG + chr8.1:37757198-37757217 None:intergenic 55.0%
TCCATTGTGAGTCAGAGGCC+AGG - chr8.1:37757198-37757217 MS.gene60999:intron 55.0%
TCCTGGCCTCTGACTCACAA+TGG + chr8.1:37757202-37757221 None:intergenic 55.0%
! GGTGCTACAGCGCTATCGTG+TGG - chr8.1:37756241-37756260 MS.gene60999:intron 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 37755411 37757299 37755411 ID=MS.gene60999
chr8.1 mRNA 37755411 37757299 37755411 ID=MS.gene60999.t1;Parent=MS.gene60999
chr8.1 exon 37757245 37757299 37757245 ID=MS.gene60999.t1.exon1;Parent=MS.gene60999.t1
chr8.1 CDS 37757245 37757299 37757245 ID=cds.MS.gene60999.t1;Parent=MS.gene60999.t1
chr8.1 exon 37755411 37755688 37755411 ID=MS.gene60999.t1.exon2;Parent=MS.gene60999.t1
chr8.1 CDS 37755411 37755688 37755411 ID=cds.MS.gene60999.t1;Parent=MS.gene60999.t1
Gene Sequence

>MS.gene60999

ATGACTGGGTATTGTCCCTTTGGTAACAAATGCCATTTTGCTCATGGTGCTACAGGTATGATACAATCCATTTTGATGATTTTGTTATGTGAATTGGATTAAAGATTTTAATTTTATGGTAATTGAGGTGATTATGTTGTGTTGATATGATTATAGAAAGTGCTATTAGAATTGGAAAGTTATAAATAGTTTGTGTTGTGGAGTTGTGGCAGTGTTTTCTTACCATTTGGATACAATTTTGGGAATTGATGTTAGATTCTTTTTATCCATACAAGATTGGTTTTTTCTTCATTTAATATGGTCTGTTACAGCTTTGATTTCTACTATTTTGTTTTAATGAGTACCCTGCATTGTCCCTAGTGTCAATTTTGTTTTGGTTGATGCTAAGGCAGAACATAACATTTTGATATGTAGTATGTGAATGTGGTGTTTCATTGAGCATAACATTTTGTTTGTAAGTTGCCGACTTGAGTAATCTATGCAATTTTTTTGTATAAAAGTAATTACATTCTAGAGAAGATACACACGATAGTAGAAATGCACCTTCCTTATGTTTTGCACAATGAAAAACATAAACAACTAAGTTTACAACAGAGAAGAACTCTGAAGACGAAACTGTGCAAATTTCCAAGTGTTTTTTGGTTTACAGTGCTTCCTTTTTTGCGATTACTTTTCATATGCCTTGTATGCTTCAAATTCAAATGTCTAAGCCTTCACTTTCTGATTAAGAAAAGCGCTGACTTCAAGAGATAAGAAAAGAATAGTTTCATGAGTGGTGGGTTCAGAATGAATAGATGGCAGCTTAGATCTAATCTGTGTTGTCAAATAGTGGTGCTACAGCGCTATCGTGTGGCAGAATTTTAACAAATTGCTATTGTTCCGCAAATATGCGATTAAGTACAAAGTGTTGTCAAATACTACCTCCGTCCCTAATTATAAGACCCTTTTGAGAATTTTTTTTGTCCCTTTTTATAAGACCCCTTTGCTATTTCCAACTACATTAATTATTTCTTTACATACATGCCCCTATTTATTATACATCTTTTTCTTCAATCAGCAATAAATAACATGTTGAAAACATAAACCAACCCTCTCTCTTAGAGGATAAAATTGTAAAAACAATAGTAATTACAAACATATTTAATACAAATATCCACTATCTTAATTCCCGTTATTTTTTGAAAAGGGCCTTATAATTAGGGACGGAGGTAGTAGCGTTTACAGGGTCTATATGATAGCACAGTACGTAGTGGAATTCAAACAAATCACTCTCTTTTTGTGATCCGCAATTGACAGCATACTTTCATTGCTTTGATGTTTGGCCTTGTTCATTACGTGCATGTTTGGATTGACGGCGAGTTTAGCAAGATCGCGGTGGCACTGTGATTTTGTTGAAACTTCAAAGTGTAGATTTTGTTTAAATCGTAGTGAGTTACCATGATTATGCCAATCTCACCGCTGATCCAAACATGCACATATACATTACATTCAAAATCATTTTCTTAGATTGACACACACAAGTGTTTTATTGACTTAAATTGATTATCTGTCAAAATGTCCTATAACCTATTTTATATAAATCTGTCTTTGATATTGAGTTTGCGACTACAGAATTACACAGATATGGAGGTGGGCTTATGGAAGGAGAAAGCAGAGACGGTGTTTCTGTTGTTGCGTCTGACACAAAACAGGGAGTTCCTTCCAAAACTCATGCTGATAATGTGGTTGCATCAAATCCTCCTATTGGTTCAGATGTTTATCATCTTGGAGTCCCTTCACAGAGACCTTCCATTGTGAGTCAGAGGCCAGGACAGAGAGCTCATCAGAAGTGGAAAGGTCCCGATAAAATCAGTAGGATATATGGCGATTGGATCGATGACTTCGAATAG

Protein sequence

>MS.gene60999.t1

MTGYCPFGNKCHFAHGATELHRYGGGLMEGESRDGVSVVASDTKQGVPSKTHADNVVASNPPIGSDVYHLGVPSQRPSIVSQRPGQRAHQKWKGPDKISRIYGDWIDDFE