AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050750


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050750.t1 MTR_7g112110 96.682 211 7 0 1 211 5 215 1.26e-151 419
MS.gene050750.t1 MTR_7g112120 78.641 206 40 2 1 202 1 206 2.33e-115 328
MS.gene050750.t1 MTR_1g084040 74.020 204 53 0 1 204 3 206 1.46e-105 305
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050750.t1 AT1G56423 66.010 203 69 0 1 203 1 203 9.21e-98 285
MS.gene050750.t1 AT1G56423 66.010 203 69 0 1 203 1 203 1.05e-97 285

Find 53 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTATTAAATTGCTTTGATA+TGG 0.171309 7.2:-4617761 MS.gene050750:CDS
TAATGTAAACTTCCCACTTT+TGG 0.220946 7.2:+4617780 None:intergenic
TGTGATGCGGTTGGCCTTAC+GGG 0.286048 7.2:+4617543 None:intergenic
AGAGGAACTGGTACGTTGTT+TGG 0.307326 7.2:-4617445 MS.gene050750:CDS
GAGCAAAGGCTTGGAAGATT+TGG 0.325168 7.2:-4617397 MS.gene050750:CDS
CTGTGATGCGGTTGGCCTTA+CGG 0.349279 7.2:+4617542 None:intergenic
AACTTACGGTGTAGGTTTCA+TGG 0.367784 7.2:-4617422 MS.gene050750:CDS
TTATTAAATTGCTTTGATAT+GGG 0.378126 7.2:-4617760 MS.gene050750:CDS
GGAAGATTTGGTTATCTTGT+TGG 0.387002 7.2:-4617385 MS.gene050750:CDS
TTATCTTGTTGGAAGTCAAT+TGG 0.396840 7.2:-4617374 MS.gene050750:CDS
TTGGAAGTCAATTGGGAAGT+TGG 0.398362 7.2:-4617366 MS.gene050750:CDS
AGTTGGATTGGAAGTAGAAT+AGG 0.408974 7.2:-4617349 MS.gene050750:CDS
TCTTGTTGATGCTGCTTCAC+AGG 0.412869 7.2:-4617632 MS.gene050750:CDS
AATTGCTTTGATATGGGCTC+AGG 0.437174 7.2:-4617754 MS.gene050750:CDS
GTGCATTTCGTGTTGCAGTA+TGG 0.438736 7.2:-4617298 MS.gene050750:CDS
TATCTTGTTGGAAGTCAATT+GGG 0.442064 7.2:-4617373 MS.gene050750:CDS
GAGGGATTCCTCAGAGGAAC+TGG 0.444285 7.2:-4617457 MS.gene050750:CDS
GGTACGTTGTTTGGAACTTA+CGG 0.445217 7.2:-4617436 MS.gene050750:CDS
AGTCAATTGGGAAGTTGGAT+TGG 0.450366 7.2:-4617361 MS.gene050750:CDS
GTCCCATCCGGAAGAGATGA+TGG 0.461346 7.2:+4617516 None:intergenic
ATGGTATATGATGTGGCTAA+TGG 0.468429 7.2:-4617322 MS.gene050750:CDS
TTTGAAGCTGTTTACTATGG+TGG 0.481190 7.2:-4617490 MS.gene050750:CDS
CAATGATGGCAGATACAGAT+AGG 0.486572 7.2:+4618528 None:intergenic
GAGAACGCGTCATCCAAAAG+TGG 0.497930 7.2:-4617793 MS.gene050750:CDS
GTTGGATTGGAAGTAGAATA+GGG 0.502946 7.2:-4617348 MS.gene050750:CDS
ACAGGTCCCATCATCTCTTC+CGG 0.504313 7.2:-4617523 MS.gene050750:CDS
ATCATTGTTCTTAGCATCAC+AGG 0.509850 7.2:-4618512 MS.gene050750:intron
CTTGTTGATGCTGCTTCACA+GGG 0.511056 7.2:-4617631 MS.gene050750:CDS
CAGCATCAACAAGAGCAGAT+TGG 0.514551 7.2:+4617641 None:intergenic
TTGTTTGGAACTTACGGTGT+AGG 0.526991 7.2:-4617430 MS.gene050750:CDS
CGTAAGGCCAACCGCATCAC+AGG 0.530423 7.2:-4617541 MS.gene050750:CDS
ACTTACGGTGTAGGTTTCAT+GGG 0.535716 7.2:-4617421 MS.gene050750:CDS
TCCCATCATCTCTTCCGGAT+GGG 0.537093 7.2:-4617518 MS.gene050750:CDS
GGCGAAATTGGCTACCCGTA+AGG 0.540905 7.2:-4617557 MS.gene050750:CDS
GGCTCAGGAACGCTAGCATG+TGG 0.544815 7.2:-4617739 MS.gene050750:CDS
GTCCCATCATCTCTTCCGGA+TGG 0.557344 7.2:-4617519 MS.gene050750:CDS
TCTGAGGAATCCCTCTGTAA+AGG 0.559119 7.2:+4617465 None:intergenic
CTCAGGAACGCTAGCATGTG+GGG 0.570098 7.2:-4617737 MS.gene050750:CDS
TGGAAGTAGAATAGGGCTCA+TGG 0.576358 7.2:-4617341 MS.gene050750:CDS
TCTCCTCTTCTGAAAATCCA+TGG 0.583117 7.2:+4618562 None:intergenic
TATGGTGGTACCTTTACAGA+GGG 0.585211 7.2:-4617475 MS.gene050750:CDS
GCTCAGGAACGCTAGCATGT+GGG 0.607284 7.2:-4617738 MS.gene050750:CDS
TCCCATCCGGAAGAGATGAT+GGG 0.613844 7.2:+4617517 None:intergenic
TGTGATGCTAAGAACAATGA+TGG 0.627342 7.2:+4618514 None:intergenic
GATGGGACCTGTGATGCGGT+TGG 0.637538 7.2:+4617534 None:intergenic
AGAACGCGTCATCCAAAAGT+GGG 0.637848 7.2:-4617792 MS.gene050750:CDS
AGGGCTCATGGTATATGATG+TGG 0.638967 7.2:-4617329 MS.gene050750:CDS
CTATGGTGGTACCTTTACAG+AGG 0.649919 7.2:-4617476 MS.gene050750:CDS
CTTACGGTGTAGGTTTCATG+GGG 0.659609 7.2:-4617420 MS.gene050750:CDS
TTTACAGAGGGATTCCTCAG+AGG 0.683356 7.2:-4617463 MS.gene050750:CDS
ACAACGTACCAGTTCCTCTG+AGG 0.700531 7.2:+4617449 None:intergenic
AGATGATGGGACCTGTGATG+CGG 0.719348 7.2:+4617530 None:intergenic
TTACGGTGTAGGTTTCATGG+GGG 0.787530 7.2:-4617419 MS.gene050750:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAATTATAATTAATGAAAA+TGG + chr7.2:4617977-4617996 None:intergenic 10.0%
!! ATTATTAAATTGCTTTGATA+TGG - chr7.2:4618075-4618094 MS.gene050750:intron 15.0%
!! ATTTGAATTTATCTATCTAA+TGG + chr7.2:4617844-4617863 None:intergenic 15.0%
!! TTATTAAATTGCTTTGATAT+GGG - chr7.2:4618076-4618095 MS.gene050750:intron 15.0%
!! AGGTTCAAAAATAGTATTAA+TGG + chr7.2:4617365-4617384 None:intergenic 20.0%
!! GGTTCAAAAATAGTATTAAT+GGG + chr7.2:4617364-4617383 None:intergenic 20.0%
!!! AATTGTCTTTATAACGTTTT+GGG - chr7.2:4617413-4617432 MS.gene050750:CDS 20.0%
!!! TAATTGTCTTTATAACGTTT+TGG - chr7.2:4617412-4617431 MS.gene050750:CDS 20.0%
! AAATTATTGACCCCAAAAAT+TGG - chr7.2:4617503-4617522 MS.gene050750:CDS 25.0%
! AATTAATGGCAGTAATTTAG+GGG - chr7.2:4617439-4617458 MS.gene050750:CDS 25.0%
! CAATTAATGGCAGTAATTTA+GGG - chr7.2:4617438-4617457 MS.gene050750:CDS 25.0%
! TCAATTAATGGCAGTAATTT+AGG - chr7.2:4617437-4617456 MS.gene050750:CDS 25.0%
!! TTTCTTTTCTATTCTAGCAT+GGG - chr7.2:4617541-4617560 MS.gene050750:CDS 25.0%
!!! AATTTTTGGGGTCAATAATT+TGG + chr7.2:4617504-4617523 None:intergenic 25.0%
!!! TTTTTTGAAGCTGTTTACTA+TGG - chr7.2:4618343-4618362 MS.gene050750:intron 25.0%
TATCTTGTTGGAAGTCAATT+GGG - chr7.2:4618463-4618482 MS.gene050750:intron 30.0%
TATTGTTCCTTACATCAAAG+TGG - chr7.2:4617913-4617932 MS.gene050750:intron 30.0%
TGAATAAGATAAACCTGATC+AGG + chr7.2:4617471-4617490 None:intergenic 30.0%
TGGGTTCTCATATTTAACTA+TGG - chr7.2:4617948-4617967 MS.gene050750:intron 30.0%
TTATCTTGTTGGAAGTCAAT+TGG - chr7.2:4618462-4618481 MS.gene050750:intron 30.0%
! CTTTCTTTTCTATTCTAGCA+TGG - chr7.2:4617540-4617559 MS.gene050750:CDS 30.0%
! TAATGTAAACTTCCCACTTT+TGG + chr7.2:4618059-4618078 None:intergenic 30.0%
!!! AACGTTTTGGGTTCAATTAA+TGG - chr7.2:4617425-4617444 MS.gene050750:CDS 30.0%
AAGCTATCTTGAAGAGTTTG+TGG - chr7.2:4617735-4617754 MS.gene050750:CDS 35.0%
ATCATTGTTCTTAGCATCAC+AGG - chr7.2:4617324-4617343 MS.gene050750:CDS 35.0%
ATGGTATATGATGTGGCTAA+TGG - chr7.2:4618514-4618533 MS.gene050750:CDS 35.0%
CCTGAAACAAGGTAAAAAAG+CGG - chr7.2:4618258-4618277 MS.gene050750:intron 35.0%
TGTGATGCTAAGAACAATGA+TGG + chr7.2:4617325-4617344 None:intergenic 35.0%
TTGAATTGAGTCTGATGTGA+AGG + chr7.2:4617385-4617404 None:intergenic 35.0%
! AGTTGGATTGGAAGTAGAAT+AGG - chr7.2:4618487-4618506 MS.gene050750:intron 35.0%
! ATTTTCAGAAGAGGAGAGTT+CGG - chr7.2:4617280-4617299 MS.gene050750:CDS 35.0%
! CTATTCTAGCATGGGTTTTA+TGG - chr7.2:4617549-4617568 MS.gene050750:CDS 35.0%
! GGAAGATTTGGTTATCTTGT+TGG - chr7.2:4618451-4618470 MS.gene050750:intron 35.0%
! GTTGGATTGGAAGTAGAATA+GGG - chr7.2:4618488-4618507 MS.gene050750:intron 35.0%
! TTTGAAGCTGTTTACTATGG+TGG - chr7.2:4618346-4618365 MS.gene050750:intron 35.0%
!!! CGCTTTTTTACCTTGTTTCA+GGG + chr7.2:4618260-4618279 None:intergenic 35.0%
!!! GCATGTTTTTCTGAAGCAAT+TGG + chr7.2:4618238-4618257 None:intergenic 35.0%
AAATATGAGAACCCAGAGCT+AGG + chr7.2:4617943-4617962 None:intergenic 40.0%
AACTTACGGTGTAGGTTTCA+TGG - chr7.2:4618414-4618433 MS.gene050750:intron 40.0%
AATATGAGAACCCAGAGCTA+GGG + chr7.2:4617942-4617961 None:intergenic 40.0%
AATTGCTTTGATATGGGCTC+AGG - chr7.2:4618082-4618101 MS.gene050750:intron 40.0%
ACTTACGGTGTAGGTTTCAT+GGG - chr7.2:4618415-4618434 MS.gene050750:intron 40.0%
AGCTTCAAAAAAGTCCCATC+CGG + chr7.2:4618335-4618354 None:intergenic 40.0%
AGGGAAACCACTTTGATGTA+AGG + chr7.2:4617923-4617942 None:intergenic 40.0%
AGGTAAAAAAGCGGCGAAAT+TGG - chr7.2:4618267-4618286 MS.gene050750:intron 40.0%
AGTCAATTGGGAAGTTGGAT+TGG - chr7.2:4618475-4618494 MS.gene050750:intron 40.0%
CAATGATGGCAGATACAGAT+AGG + chr7.2:4617311-4617330 None:intergenic 40.0%
GAAAAACATGCCCTGAAACA+AGG - chr7.2:4618247-4618266 MS.gene050750:intron 40.0%
TATGGTGGTACCTTTACAGA+GGG - chr7.2:4618361-4618380 MS.gene050750:intron 40.0%
TTATTACCACATCACGACAC+AGG + chr7.2:4617884-4617903 None:intergenic 40.0%
TTGACCCCAAAAATTGGCAT+AGG - chr7.2:4617509-4617528 MS.gene050750:CDS 40.0%
TTGGAAGTCAATTGGGAAGT+TGG - chr7.2:4618470-4618489 MS.gene050750:intron 40.0%
! CGTCTCCTATGCCAATTTTT+GGG + chr7.2:4617517-4617536 None:intergenic 40.0%
! GGTACGTTGTTTGGAACTTA+CGG - chr7.2:4618400-4618419 MS.gene050750:intron 40.0%
! GTCTCCTATGCCAATTTTTG+GGG + chr7.2:4617516-4617535 None:intergenic 40.0%
! TCGTCTCCTATGCCAATTTT+TGG + chr7.2:4617518-4617537 None:intergenic 40.0%
! TTGTTTGGAACTTACGGTGT+AGG - chr7.2:4618406-4618425 MS.gene050750:intron 40.0%
!!! CCGCTTTTTTACCTTGTTTC+AGG + chr7.2:4618261-4618280 None:intergenic 40.0%
AGAACGCGTCATCCAAAAGT+GGG - chr7.2:4618044-4618063 MS.gene050750:intron 45.0%
AGAGGAACTGGTACGTTGTT+TGG - chr7.2:4618391-4618410 MS.gene050750:intron 45.0%
AGGGCTCATGGTATATGATG+TGG - chr7.2:4618507-4618526 MS.gene050750:intron 45.0%
CAGCATCAACAAGAGCAGAT+TGG + chr7.2:4618198-4618217 None:intergenic 45.0%
CCGTTCAGCTGAAAAATGCA+GGG - chr7.2:4618009-4618028 MS.gene050750:intron 45.0%
CTATGGTGGTACCTTTACAG+AGG - chr7.2:4618360-4618379 MS.gene050750:intron 45.0%
CTTACGGTGTAGGTTTCATG+GGG - chr7.2:4618416-4618435 MS.gene050750:intron 45.0%
GAAAAATGCAGGGAGCTTGT+TGG - chr7.2:4618019-4618038 MS.gene050750:intron 45.0%
GAGCAAAGGCTTGGAAGATT+TGG - chr7.2:4618439-4618458 MS.gene050750:intron 45.0%
GTGCATTTCGTGTTGCAGTA+TGG - chr7.2:4618538-4618557 MS.gene050750:CDS 45.0%
TCCGTTCAGCTGAAAAATGC+AGG - chr7.2:4618008-4618027 MS.gene050750:intron 45.0%
TCTGAGGAATCCCTCTGTAA+AGG + chr7.2:4618374-4618393 None:intergenic 45.0%
TGGAAGTAGAATAGGGCTCA+TGG - chr7.2:4618495-4618514 MS.gene050750:intron 45.0%
TTACGGTGTAGGTTTCATGG+GGG - chr7.2:4618417-4618436 MS.gene050750:intron 45.0%
TTTACAGAGGGATTCCTCAG+AGG - chr7.2:4618373-4618392 MS.gene050750:intron 45.0%
! AAAGTGGTTTCCCTAGCTCT+GGG - chr7.2:4617929-4617948 MS.gene050750:intron 45.0%
! CTTGTTGATGCTGCTTCACA+GGG - chr7.2:4618205-4618224 MS.gene050750:intron 45.0%
! TCTTGTTGATGCTGCTTCAC+AGG - chr7.2:4618204-4618223 MS.gene050750:intron 45.0%
! TTAGGGGAGTTTTCCTGATC+AGG - chr7.2:4617455-4617474 MS.gene050750:CDS 45.0%
!! CCCTGCATTTTTCAGCTGAA+CGG + chr7.2:4618012-4618031 None:intergenic 45.0%
AACAGACCTGTGTCGTGATG+TGG - chr7.2:4617875-4617894 MS.gene050750:intron 50.0%
ACAACGTACCAGTTCCTCTG+AGG + chr7.2:4618390-4618409 None:intergenic 50.0%
ACAGGTCCCATCATCTCTTC+CGG - chr7.2:4618313-4618332 MS.gene050750:intron 50.0%
CAAAGTGGTTTCCCTAGCTC+TGG - chr7.2:4617928-4617947 MS.gene050750:intron 50.0%
CATCACGACACAGGTCTGTT+TGG + chr7.2:4617875-4617894 None:intergenic 50.0%
GAGAACGCGTCATCCAAAAG+TGG - chr7.2:4618043-4618062 MS.gene050750:intron 50.0%
TAGGTTTCATGGGGGAGCAA+AGG - chr7.2:4618425-4618444 MS.gene050750:intron 50.0%
TCCCATCATCTCTTCCGGAT+GGG - chr7.2:4618318-4618337 MS.gene050750:intron 50.0%
TCCCATCCGGAAGAGATGAT+GGG + chr7.2:4618322-4618341 None:intergenic 50.0%
!! AGATGATGGGACCTGTGATG+CGG + chr7.2:4618309-4618328 None:intergenic 50.0%
CTCAGGAACGCTAGCATGTG+GGG - chr7.2:4618099-4618118 MS.gene050750:intron 55.0%
GAGGGATTCCTCAGAGGAAC+TGG - chr7.2:4618379-4618398 MS.gene050750:intron 55.0%
GCTCAGGAACGCTAGCATGT+GGG - chr7.2:4618098-4618117 MS.gene050750:intron 55.0%
GGCGAAATTGGCTACCCGTA+AGG - chr7.2:4618279-4618298 MS.gene050750:intron 55.0%
GTCCCATCATCTCTTCCGGA+TGG - chr7.2:4618317-4618336 MS.gene050750:intron 55.0%
GTCCCATCCGGAAGAGATGA+TGG + chr7.2:4618323-4618342 None:intergenic 55.0%
TTCATGGGGGAGCAAAGGCT+TGG - chr7.2:4618430-4618449 MS.gene050750:intron 55.0%
!! CTGTGATGCGGTTGGCCTTA+CGG + chr7.2:4618297-4618316 None:intergenic 55.0%
!! TGTGATGCGGTTGGCCTTAC+GGG + chr7.2:4618296-4618315 None:intergenic 55.0%
CGTAAGGCCAACCGCATCAC+AGG - chr7.2:4618295-4618314 MS.gene050750:intron 60.0%
GATGGGACCTGTGATGCGGT+TGG + chr7.2:4618305-4618324 None:intergenic 60.0%
GGCTCAGGAACGCTAGCATG+TGG - chr7.2:4618097-4618116 MS.gene050750:intron 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 4617276 4618582 4617276 ID=MS.gene050750
chr7.2 mRNA 4617276 4618582 4617276 ID=MS.gene050750.t1;Parent=MS.gene050750
chr7.2 exon 4618513 4618582 4618513 ID=MS.gene050750.t1.exon1;Parent=MS.gene050750.t1
chr7.2 CDS 4618513 4618582 4618513 ID=cds.MS.gene050750.t1;Parent=MS.gene050750.t1
chr7.2 exon 4617276 4617841 4617276 ID=MS.gene050750.t1.exon2;Parent=MS.gene050750.t1
chr7.2 CDS 4617276 4617841 4617276 ID=cds.MS.gene050750.t1;Parent=MS.gene050750.t1
Gene Sequence

>MS.gene050750

ATGGATTTTCAGAAGAGGAGAGTTCGGTTTCTCCTATCTGTATCTGCCATCATTGTTCTTAGCATCACAGGTATCTATAGCACTTCCCATTAATACTATTTTTGAACCTTCACATCAGACTCAATTCAACACTCAATAATTGTCTTTATAACGTTTTGGGTTCAATTAATGGCAGTAATTTAGGGGAGTTTTCCTGATCAGGTTTATCTTATTCAATGCAAATCTCCAAATTATTGACCCCAAAAATTGGCATAGGAGACGAATCTTTCTTTTCTATTCTAGCATGGGTTTTATGGATTGCTTTGAGTTTGTTGTGTGTAAATGTTTTAGACTATATTTTGATAAACAACTTTAGTGTTTATCATATGCTATAACAACTTTAGTGTATAAGCTATTTCTATAACAAATGATGAAAACAAATCAAATTGTTTTCTTATATACTATAAGTTGTTTTCATATAAGCTATCTTGAAGAGTTTGTGGAAATAAGCTGAAACAACGTATGAAAATGTCATAACATGTTTTCATAAGCTCTCTTAAATAGTCTCACAAATGTATAGTTTATACCATTAGATAGATAAATTCAAATAAGTCAATCCAAACAGACCTGTGTCGTGATGTGGTAATAAATTATTAACTATTGTTCCTTACATCAAAGTGGTTTCCCTAGCTCTGGGTTCTCATATTTAACTATGGAAGCCATTTTCATTAATTATAATTTCTGCTTGTTTGCTCCGTTCAGCTGAAAAATGCAGGGAGCTTGTTGGCGAGAACGCGTCATCCAAAAGTGGGAAGTTTACATTATTAAATTGCTTTGATATGGGCTCAGGAACGCTAGCATGTGGGGTTAAAGAAAGTGTGAAGCTCTATGTTAATAATATTAGATCTGCTCATGTTGAAAAAGCAAGACATGATGCAATCCAATCTGCTCTTGTTGATGCTGCTTCACAGGGTATGTCGCCAATTGCTTCAGAAAAACATGCCCTGAAACAAGGTAAAAAAGCGGCGAAATTGGCTACCCGTAAGGCCAACCGCATCACAGGTCCCATCATCTCTTCCGGATGGGACTTTTTTGAAGCTGTTTACTATGGTGGTACCTTTACAGAGGGATTCCTCAGAGGAACTGGTACGTTGTTTGGAACTTACGGTGTAGGTTTCATGGGGGAGCAAAGGCTTGGAAGATTTGGTTATCTTGTTGGAAGTCAATTGGGAAGTTGGATTGGAAGTAGAATAGGGCTCATGGTATATGATGTGGCTAATGGAGTGCATTTCGTGTTGCAGTATGGAAGTAAAATTCAAGAAACATAA

Protein sequence

>MS.gene050750.t1

MDFQKRRVRFLLSVSAIIVLSITAEKCRELVGENASSKSGKFTLLNCFDMGSGTLACGVKESVKLYVNNIRSAHVEKARHDAIQSALVDAASQGMSPIASEKHALKQGKKAAKLATRKANRITGPIISSGWDFFEAVYYGGTFTEGFLRGTGTLFGTYGVGFMGEQRLGRFGYLVGSQLGSWIGSRIGLMVYDVANGVHFVLQYGSKIQET