AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78252


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78252.t1 MTR_4g120040 94.118 102 6 0 1 102 1 102 4.00e-69 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78252.t1 AT4G15910 41.379 87 48 1 15 101 20 103 2.86e-15 65.9
MS.gene78252.t1 AT1G02820 43.421 76 27 3 23 95 25 87 6.38e-11 54.3

Find 38 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTCTGTAGTATCCGGTTTC+TGG 0.094835 8.4:+11746511 None:intergenic
TAGACATGGGCTTCTCTTCA+AGG 0.339449 8.4:+11746572 None:intergenic
GTCTGGCGCCCATGCCGAAC+AGG 0.356618 8.4:+11746534 None:intergenic
GTCTGTAGTATCCGGTTTCT+GGG 0.391156 8.4:+11746512 None:intergenic
TAGTATCCGGTTTCTGGGTC+TGG 0.400740 8.4:+11746517 None:intergenic
AGCCCATGGCTACGGAAAGC+TGG 0.420672 8.4:-11746599 MS.gene78252:CDS
TGCTTCAGCTAGAGTTGGAT+TGG 0.428759 8.4:-11746629 MS.gene78252:CDS
CTGACCGTTGAAGATGAAAC+AGG 0.428944 8.4:+11747500 None:intergenic
TTCCCAGCTTTCCGTAGCCA+TGG 0.438449 8.4:+11746596 None:intergenic
CTAGCTCTATTAGGATGATC+TGG 0.442792 8.4:+11746426 None:intergenic
CCCATGCCGAACAGGCCTCT+TGG 0.447286 8.4:+11746542 None:intergenic
TGGGCGCCAGACCCAGAAAC+CGG 0.464783 8.4:-11746523 MS.gene78252:CDS
CTCTTGGCCATCTCTAGACA+TGG 0.474198 8.4:+11746558 None:intergenic
AGATGGCCAAGAGGCCTGTT+CGG 0.475265 8.4:-11746548 MS.gene78252:CDS
GCCAAGAGGCCTGTTCGGCA+TGG 0.485879 8.4:-11746543 MS.gene78252:CDS
CCAAGAGGCCTGTTCGGCAT+GGG 0.486297 8.4:-11746542 MS.gene78252:CDS
AGCATCTGTCGGAGCTCCAC+CGG 0.490620 8.4:+11746463 None:intergenic
ATTGATGGGTCTGTAGTATC+CGG 0.491419 8.4:+11746504 None:intergenic
GCTTCAGCTAGAGTTGGATT+GGG 0.505486 8.4:-11746628 MS.gene78252:CDS
TCCCAGCTTTCCGTAGCCAT+GGG 0.510770 8.4:+11746597 None:intergenic
TCTGATGCTTCAGCTAGAGT+TGG 0.513043 8.4:-11746634 MS.gene78252:CDS
GCCCATGGCTACGGAAAGCT+GGG 0.533179 8.4:-11746598 MS.gene78252:CDS
TGCGTTTGAGTAGCATCTGT+CGG 0.543834 8.4:+11746452 None:intergenic
GTTAGCTTGTGAGAGAGAGC+AGG 0.562013 8.4:+11747546 None:intergenic
AACTCTAGCTGAAGCATCAG+AGG 0.572077 8.4:+11746636 None:intergenic
GGTAGTATAGCCCATGGCTA+CGG 0.583121 8.4:-11746607 MS.gene78252:CDS
GCATCTGTCGGAGCTCCACC+GGG 0.595147 8.4:+11746464 None:intergenic
TCTTGGCCATCTCTAGACAT+GGG 0.599128 8.4:+11746559 None:intergenic
GAGAAGCCCATGTCTAGAGA+TGG 0.605275 8.4:-11746565 MS.gene78252:CDS
TGACCGTTGAAGATGAAACA+GGG 0.659345 8.4:+11747501 None:intergenic
GGAGAGATTGAGCAACAAGA+CGG 0.667162 8.4:+11747524 None:intergenic
GGATTGGGTAGTATAGCCCA+TGG 0.667307 8.4:-11746613 MS.gene78252:CDS
TCTAGCTGAAGCATCAGAGG+CGG 0.672860 8.4:+11746639 None:intergenic
CACTCCTAAAATTGACCCGG+TGG 0.689227 8.4:-11746479 MS.gene78252:CDS
TTACACTCCTAAAATTGACC+CGG 0.690275 8.4:-11746482 MS.gene78252:CDS
CATGTCTAGAGATGGCCAAG+AGG 0.705730 8.4:-11746557 MS.gene78252:CDS
ACCGTTGAAGATGAAACAGG+GGG 0.706818 8.4:+11747503 None:intergenic
GACCGTTGAAGATGAAACAG+GGG 0.712207 8.4:+11747502 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATATGTAAAATTTAGTT+TGG + chr8.4:11747093-11747112 None:intergenic 10.0%
!! ATAATATTATGAATCAAAGT+TGG + chr8.4:11746513-11746532 None:intergenic 15.0%
!! CAAATTATACTTTAAACTAA+GGG - chr8.4:11747177-11747196 MS.gene78252:intron 15.0%
!!! AAATTTTACATATAAACCAA+TGG - chr8.4:11747097-11747116 MS.gene78252:intron 15.0%
!!! ATCTTACACAAATTTAATTT+AGG - chr8.4:11746711-11746730 MS.gene78252:intron 15.0%
!!! GAATTTTTAAAACAATGTAA+GGG - chr8.4:11747260-11747279 MS.gene78252:intron 15.0%
!!! TATTTTAAAAGCCTTAAAAT+CGG - chr8.4:11746752-11746771 MS.gene78252:intron 15.0%
!!! TGAATTTTTAAAACAATGTA+AGG - chr8.4:11747259-11747278 MS.gene78252:intron 15.0%
!!! TTTCATTTTACAATTGTTTT+AGG - chr8.4:11747044-11747063 MS.gene78252:intron 15.0%
!! AACTATGTAAGTATTATTTG+CGG - chr8.4:11746849-11746868 MS.gene78252:intron 20.0%
!! CAAATAATACTTACATAGTT+TGG + chr8.4:11746849-11746868 None:intergenic 20.0%
!! CCAAATTATACTTTAAACTA+AGG - chr8.4:11747176-11747195 MS.gene78252:intron 20.0%
!! CTAAACTTTATACATAGATT+AGG - chr8.4:11747145-11747164 MS.gene78252:intron 20.0%
!! CTGTGATTATATATGAATTA+GGG - chr8.4:11746560-11746579 MS.gene78252:CDS 20.0%
!! TAAATGTTCAAATAAATCTC+TGG + chr8.4:11747287-11747306 None:intergenic 20.0%
!! TCTATGTATAAAGTTTAGTT+TGG + chr8.4:11747143-11747162 None:intergenic 20.0%
!! TCTGTGATTATATATGAATT+AGG - chr8.4:11746559-11746578 MS.gene78252:CDS 20.0%
!!! CAAGATAGTTTTATTATGTT+TGG - chr8.4:11746974-11746993 MS.gene78252:intron 20.0%
!!! CCTTAGTTTAAAGTATAATT+TGG + chr8.4:11747179-11747198 None:intergenic 20.0%
!!! TCTTATATGAACTTTAGTTT+TGG - chr8.4:11746642-11746661 MS.gene78252:CDS 20.0%
! AAATCAAACCTATAGTTGAA+AGG + chr8.4:11746811-11746830 None:intergenic 25.0%
! AATCAAACCTATAGTTGAAA+GGG + chr8.4:11746810-11746829 None:intergenic 25.0%
! ATATAGTTAACCTCATAAGA+GGG + chr8.4:11746948-11746967 None:intergenic 25.0%
! CTATGGTAAATTGTTAAATC+TGG + chr8.4:11747224-11747243 None:intergenic 25.0%
! GGTTATTTAACAGATATTCA+GGG - chr8.4:11746995-11747014 MS.gene78252:intron 25.0%
! TATATAGTTAACCTCATAAG+AGG + chr8.4:11746949-11746968 None:intergenic 25.0%
! TGGTTATTTAACAGATATTC+AGG - chr8.4:11746994-11747013 MS.gene78252:intron 25.0%
! TTATACATAGATTAGGATCT+AGG - chr8.4:11747152-11747171 MS.gene78252:intron 25.0%
!!! AAAGTTTTAATTTGGTCCAT+TGG + chr8.4:11747116-11747135 None:intergenic 25.0%
!!! AATTTTAGGAGTGTAATTGA+TGG + chr8.4:11747499-11747518 None:intergenic 25.0%
!!! ATTGTTTTAGGTTTAACTGT+AGG - chr8.4:11747056-11747075 MS.gene78252:intron 25.0%
!!! ATTTTAGGAGTGTAATTGAT+GGG + chr8.4:11747498-11747517 None:intergenic 25.0%
!!! TTGGTCAGAAAGTTTTAATT+TGG + chr8.4:11747124-11747143 None:intergenic 25.0%
!!! TTGTTTTAGGTTTAACTGTA+GGG - chr8.4:11747057-11747076 MS.gene78252:intron 25.0%
! CAGTTTGATCATTTTCTCTA+TGG + chr8.4:11747241-11747260 None:intergenic 30.0%
!! GACTAACTTAACCGATTTTA+AGG + chr8.4:11746766-11746785 None:intergenic 30.0%
!! TATCACTTATTTTTCCCTGT+AGG - chr8.4:11747310-11747329 MS.gene78252:intron 30.0%
!!! AACTTTAGTTTTGGTGAAGT+GGG - chr8.4:11746651-11746670 MS.gene78252:CDS 30.0%
GTCTCTTAGCTTATCTATGT+TGG - chr8.4:11746783-11746802 MS.gene78252:intron 35.0%
TAACAGATATTCAGGGAACT+TGG - chr8.4:11747002-11747021 MS.gene78252:intron 35.0%
TACTCCTAACAAGTGTCTTA+GGG + chr8.4:11746890-11746909 None:intergenic 35.0%
TTACACTCCTAAAATTGACC+CGG - chr8.4:11747503-11747522 MS.gene78252:intron 35.0%
TTACTCCTAACAAGTGTCTT+AGG + chr8.4:11746891-11746910 None:intergenic 35.0%
!!! GAACTTTAGTTTTGGTGAAG+TGG - chr8.4:11746650-11746669 MS.gene78252:CDS 35.0%
ACTCCTAACAAGTGTCTTAG+GGG + chr8.4:11746889-11746908 None:intergenic 40.0%
CATCTGTTTACCCTCTTATG+AGG - chr8.4:11746935-11746954 MS.gene78252:intron 40.0%
TGACCGTTGAAGATGAAACA+GGG + chr8.4:11746487-11746506 None:intergenic 40.0%
TGTTGGTCCCTTTCAACTAT+AGG - chr8.4:11746800-11746819 MS.gene78252:intron 40.0%
! ATTGATGGGTCTGTAGTATC+CGG + chr8.4:11747484-11747503 None:intergenic 40.0%
ACCGTTGAAGATGAAACAGG+GGG + chr8.4:11746485-11746504 None:intergenic 45.0%
AGTCCCCTAAGACACTTGTT+AGG - chr8.4:11746883-11746902 MS.gene78252:intron 45.0%
CTGACCGTTGAAGATGAAAC+AGG + chr8.4:11746488-11746507 None:intergenic 45.0%
GACCGTTGAAGATGAAACAG+GGG + chr8.4:11746486-11746505 None:intergenic 45.0%
GCTTCAGCTAGAGTTGGATT+GGG - chr8.4:11747357-11747376 MS.gene78252:intron 45.0%
GGAGAGATTGAGCAACAAGA+CGG + chr8.4:11746464-11746483 None:intergenic 45.0%
GTCTGTAGTATCCGGTTTCT+GGG + chr8.4:11747476-11747495 None:intergenic 45.0%
TAGACATGGGCTTCTCTTCA+AGG + chr8.4:11747416-11747435 None:intergenic 45.0%
TCCCCCTGTTTCATCTTCAA+CGG - chr8.4:11746481-11746500 MS.gene78252:CDS 45.0%
TCTGATGCTTCAGCTAGAGT+TGG - chr8.4:11747351-11747370 MS.gene78252:intron 45.0%
TCTTGGCCATCTCTAGACAT+GGG + chr8.4:11747429-11747448 None:intergenic 45.0%
TGCGTTTGAGTAGCATCTGT+CGG + chr8.4:11747536-11747555 None:intergenic 45.0%
TGCTTCAGCTAGAGTTGGAT+TGG - chr8.4:11747356-11747375 MS.gene78252:intron 45.0%
! AACTCTAGCTGAAGCATCAG+AGG + chr8.4:11747352-11747371 None:intergenic 45.0%
!! CTTATTTTTCCCTGTAGGCG+AGG - chr8.4:11747315-11747334 MS.gene78252:intron 45.0%
CACTCCTAAAATTGACCCGG+TGG - chr8.4:11747506-11747525 MS.gene78252:CDS 50.0%
CATGTCTAGAGATGGCCAAG+AGG - chr8.4:11747428-11747447 MS.gene78252:intron 50.0%
CTCTTGGCCATCTCTAGACA+TGG + chr8.4:11747430-11747449 None:intergenic 50.0%
GAGAAGCCCATGTCTAGAGA+TGG - chr8.4:11747420-11747439 MS.gene78252:intron 50.0%
GGATTGGGTAGTATAGCCCA+TGG - chr8.4:11747372-11747391 MS.gene78252:intron 50.0%
GGTAGTATAGCCCATGGCTA+CGG - chr8.4:11747378-11747397 MS.gene78252:intron 50.0%
GGTCTGTAGTATCCGGTTTC+TGG + chr8.4:11747477-11747496 None:intergenic 50.0%
! AGCTCCACCGGGTCAATTTT+AGG + chr8.4:11747513-11747532 None:intergenic 50.0%
! TAGTATCCGGTTTCTGGGTC+TGG + chr8.4:11747471-11747490 None:intergenic 50.0%
! TCTAGCTGAAGCATCAGAGG+CGG + chr8.4:11747349-11747368 None:intergenic 50.0%
!! GTTAGCTTGTGAGAGAGAGC+AGG + chr8.4:11746442-11746461 None:intergenic 50.0%
AGATGGCCAAGAGGCCTGTT+CGG - chr8.4:11747437-11747456 MS.gene78252:intron 55.0%
GCTGCAAAACCTCGCCTACA+GGG + chr8.4:11747327-11747346 None:intergenic 55.0%
TCCCAGCTTTCCGTAGCCAT+GGG + chr8.4:11747391-11747410 None:intergenic 55.0%
TTCCCAGCTTTCCGTAGCCA+TGG + chr8.4:11747392-11747411 None:intergenic 55.0%
AGCATCTGTCGGAGCTCCAC+CGG + chr8.4:11747525-11747544 None:intergenic 60.0%
AGCCCATGGCTACGGAAAGC+TGG - chr8.4:11747386-11747405 MS.gene78252:intron 60.0%
CCAAGAGGCCTGTTCGGCAT+GGG - chr8.4:11747443-11747462 MS.gene78252:intron 60.0%
GCCCATGGCTACGGAAAGCT+GGG - chr8.4:11747387-11747406 MS.gene78252:intron 60.0%
GGCTGCAAAACCTCGCCTAC+AGG + chr8.4:11747328-11747347 None:intergenic 60.0%
CCCATGCCGAACAGGCCTCT+TGG + chr8.4:11747446-11747465 None:intergenic 65.0%
GCATCTGTCGGAGCTCCACC+GGG + chr8.4:11747524-11747543 None:intergenic 65.0%
GCCAAGAGGCCTGTTCGGCA+TGG - chr8.4:11747442-11747461 MS.gene78252:intron 65.0%
TGGGCGCCAGACCCAGAAAC+CGG - chr8.4:11747462-11747481 MS.gene78252:intron 65.0%
GTCTGGCGCCCATGCCGAAC+AGG + chr8.4:11747454-11747473 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 11746435 11747572 11746435 ID=MS.gene78252
chr8.4 mRNA 11746435 11747572 11746435 ID=MS.gene78252.t1;Parent=MS.gene78252
chr8.4 exon 11747505 11747572 11747505 ID=MS.gene78252.t1.exon1;Parent=MS.gene78252.t1
chr8.4 CDS 11747505 11747572 11747505 ID=cds.MS.gene78252.t1;Parent=MS.gene78252.t1
chr8.4 exon 11746435 11746675 11746435 ID=MS.gene78252.t1.exon2;Parent=MS.gene78252.t1
chr8.4 CDS 11746435 11746675 11746435 ID=cds.MS.gene78252.t1;Parent=MS.gene78252.t1
Gene Sequence

>MS.gene78252

ATGGCCTGCTCTCTCTCACAAGCTAACCGTCTTGTTGCTCAATCTCTCCCCCTGTTTCATCTTCAACGGTCAGTTCCAACTTTGATTCATAATATTATATTATTTCATTTAGTAATCATTATTTTCTGTGATTATATATGAATTAGGGATATGTGTATACAGATTCAACATTTCTTTTATAAAACGATTATGAATATTTGTTTCAGTTCTTATATGAACTTTAGTTTTGGTGAAGTGGGTGTCAATATATTTTCTTTTTACATAAATAAAAATCTAATCTTACACAAATTTAATTTAGGCTTAAATGCATCTTTATCTATTTTAAAAGCCTTAAAATCGGTTAAGTTAGTCTCTTAGCTTATCTATGTTGGTCCCTTTCAACTATAGGTTTGATTTTAGAGACTAAACTGACCAAACTATGTAAGTATTATTTGCGGCATACTAAACTAGTCCCCTAAGACACTTGTTAGGAGTAAAAAATTGTATTTGAAAATAAATCACATCTGTTTACCCTCTTATGAGGTTAACTATATAAATTTCAAGATAGTTTTATTATGTTTGGTTATTTAACAGATATTCAGGGAACTTGGTAGCTTTTTTTTCATATTGTTTCATTTTACAATTGTTTTAGGTTTAACTGTAGGGATCAATTTGACCAAACTAAATTTTACATATAAACCAATGGACCAAATTAAAACTTTCTGACCAAACTAAACTTTATACATAGATTAGGATCTAGGACCAAATTATACTTTAAACTAAGGGACTAAACTGAATTTTTCGAAACCAGATTTAACAATTTACCATAGAGAAAATGATCAAACTGAATTTTTAAAACAATGTAAGGGACCAGAGATTTATTTGAACATTTAATTTATCACTTATTTTTCCCTGTAGGCGAGGTTTTGCAGCCGCCTCTGATGCTTCAGCTAGAGTTGGATTGGGTAGTATAGCCCATGGCTACGGAAAGCTGGGAAGCCTTGAAGAGAAGCCCATGTCTAGAGATGGCCAAGAGGCCTGTTCGGCATGGGCGCCAGACCCAGAAACCGGATACTACAGACCCATCAATTACACTCCTAAAATTGACCCGGTGGAGCTCCGACAGATGCTACTCAAACGCAATACCAGATCATCCTAA

Protein sequence

>MS.gene78252.t1

MACSLSQANRLVAQSLPLFHLQRRGFAAASDASARVGLGSIAHGYGKLGSLEEKPMSRDGQEACSAWAPDPETGYYRPINYTPKIDPVELRQMLLKRNTRSS