AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene34306


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34306.t1 MTR_4g005440 98.529 136 2 0 1 136 1 136 1.42e-96 274
MS.gene34306.t1 MTR_3g108730 51.095 137 50 2 1 136 1 121 3.89e-37 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34306.t1 AT1G16810 61.111 144 48 2 1 136 1 144 5.58e-47 149
MS.gene34306.t1 AT1G16810 61.111 144 48 2 1 136 1 144 5.58e-47 149
MS.gene34306.t1 AT1G16810 61.111 144 48 2 1 136 1 144 5.58e-47 149

Find 28 sgRNAs with CRISPR-Local

Find 113 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATTTACTTCTTGATCATT+AGG 0.263557 4.3:-89073489 None:intergenic
CGCTCATGTTTGCGAGATAT+TGG 0.302036 4.3:-89073668 None:intergenic
AATCACCCAGGACCAACTTT+AGG 0.323685 4.3:-89073705 None:intergenic
GTGAGATTTATTAGAAATCT+TGG 0.347606 4.3:-89073622 None:intergenic
CGAGATATTGGTTGAAATCC+TGG 0.357664 4.3:-89073656 None:intergenic
GCAACTTGATGTTCATAGAT+TGG 0.407231 4.3:+89073599 MS.gene34306:CDS
GGAAAAGCATTGGATGTTGC+TGG 0.421175 4.3:+89072428 MS.gene34306:CDS
GATATTCCTAAAGTTGGTCC+TGG 0.441241 4.3:+89073699 MS.gene34306:CDS
ATGATGGGAGTGAATTGAGC+AGG 0.471811 4.3:+89073508 MS.gene34306:CDS
CATTATGATATTCCTAAAGT+TGG 0.473152 4.3:+89073693 MS.gene34306:CDS
AATGATCAAGAAGTAAATGA+TGG 0.482714 4.3:+89073492 MS.gene34306:CDS
TCTATGTACCGCCTCTCTGC+TGG 0.489804 4.3:-89073567 None:intergenic
ATCTCACCGCGATAGAATCC+AGG 0.518832 4.3:+89073638 MS.gene34306:CDS
GAAGCTGAAGGGAAAAGCAT+TGG 0.531649 4.3:+89072418 MS.gene34306:CDS
ACTGAAGATGAAATCTCAGC+AGG 0.540124 4.3:+89072509 MS.gene34306:CDS
AGATGATCATCATAATGAGC+AGG 0.545898 4.3:-89073540 None:intergenic
TCGGCATATGAGAATGTTGT+TGG 0.556165 4.3:+89072386 MS.gene34306:CDS
TGATGGGAGTGAATTGAGCA+GGG 0.558875 4.3:+89073509 MS.gene34306:CDS
ATGATCAAGAAGTAAATGAT+GGG 0.571574 4.3:+89073493 MS.gene34306:CDS
ATATTCCTAAAGTTGGTCCT+GGG 0.598854 4.3:+89073700 MS.gene34306:CDS
AACAACTCCTTGAATCACCC+AGG 0.629413 4.3:-89073717 None:intergenic
ATCTTACACCAGCAGAGAGG+CGG 0.643614 4.3:+89073559 MS.gene34306:CDS
GCATATGAGAATGTTGTTGG+TGG 0.647733 4.3:+89072389 MS.gene34306:CDS
TGAAATCCTGGATTCTATCG+CGG 0.661087 4.3:-89073644 None:intergenic
TGGTGGTAAACTGAAGCTGA+AGG 0.678860 4.3:+89072406 MS.gene34306:CDS
AAAGCATTGGATGTTGCTGG+CGG 0.694873 4.3:+89072431 MS.gene34306:CDS
GGTGGTAAACTGAAGCTGAA+GGG 0.696896 4.3:+89072407 MS.gene34306:CDS
ATCATCTTACACCAGCAGAG+AGG 0.709383 4.3:+89073556 MS.gene34306:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAATTATGTTCAAGTA+AGG - chr4.3:89072880-89072899 None:intergenic 15.0%
!! TAAATATATTGCACAATTTA+TGG - chr4.3:89073411-89073430 None:intergenic 15.0%
!!! CATAGTATTATGTTTTAAAA+TGG + chr4.3:89072628-89072647 MS.gene34306:intron 15.0%
!!! TCAACAATAAATATCATTTT+CGG + chr4.3:89072944-89072963 MS.gene34306:intron 15.0%
!!! TTTTTTACTGAAAATCATAA+GGG + chr4.3:89072894-89072913 MS.gene34306:intron 15.0%
!!! TTTTTTTACTGAAAATCATA+AGG + chr4.3:89072893-89072912 MS.gene34306:intron 15.0%
!! AACTAAAACCAAAAAGATTA+AGG - chr4.3:89073386-89073405 None:intergenic 20.0%
!! ATTATAGTAAATGAGTATCT+GGG + chr4.3:89072811-89072830 MS.gene34306:intron 20.0%
!! GAGTATTATAACAATATGAA+TGG + chr4.3:89073178-89073197 MS.gene34306:intron 20.0%
!!! ATTCTCATCATAATTTTCTT+TGG - chr4.3:89072745-89072764 None:intergenic 20.0%
!!! GATTTTGAAAGAGAAAAAAA+AGG - chr4.3:89073333-89073352 None:intergenic 20.0%
!!! TTATGTTTTAAAATGGTCAA+TGG + chr4.3:89072635-89072654 MS.gene34306:intron 20.0%
!!! TTCTCATCATAATTTTCTTT+GGG - chr4.3:89072744-89072763 None:intergenic 20.0%
! AAAAGATTAAGGATCTGTTT+CGG - chr4.3:89073375-89073394 None:intergenic 25.0%
! AATGATCAAGAAGTAAATGA+TGG + chr4.3:89073492-89073511 MS.gene34306:CDS 25.0%
! ATGATCAAGAAGTAAATGAT+GGG + chr4.3:89073493-89073512 MS.gene34306:CDS 25.0%
! CATTATGATATTCCTAAAGT+TGG + chr4.3:89073693-89073712 MS.gene34306:CDS 25.0%
! GATTATAGTAAATGAGTATC+TGG + chr4.3:89072810-89072829 MS.gene34306:intron 25.0%
! GTGAGATTTATTAGAAATCT+TGG - chr4.3:89073625-89073644 None:intergenic 25.0%
! TAATACAAAATCCCCTAATT+TGG - chr4.3:89073244-89073263 None:intergenic 25.0%
! TCATTTACTTCTTGATCATT+AGG - chr4.3:89073492-89073511 None:intergenic 25.0%
! TTGAAAGAGAAAAAAAAGGA+AGG - chr4.3:89073329-89073348 None:intergenic 25.0%
!! AAACAGATCCTTAATCTTTT+TGG + chr4.3:89073375-89073394 MS.gene34306:intron 25.0%
!! ATAAATATCATTTTCGGCAA+TGG + chr4.3:89072950-89072969 MS.gene34306:intron 25.0%
!! TAAATATCATTTTCGGCAAT+GGG + chr4.3:89072951-89072970 MS.gene34306:intron 25.0%
!!! TTTTTGGTTTACATTTCCTA+AGG + chr4.3:89073028-89073047 MS.gene34306:intron 25.0%
AAAGAGAAAAAAAAGGAAGG+AGG - chr4.3:89073326-89073345 None:intergenic 30.0%
AGTAAAACATCTTATGGTGT+TGG + chr4.3:89072554-89072573 MS.gene34306:intron 30.0%
CCACCTACATTAAATACAAA+TGG - chr4.3:89073447-89073466 None:intergenic 30.0%
CCATTTGTATTTAATGTAGG+TGG + chr4.3:89073444-89073463 MS.gene34306:intron 30.0%
GAAGGACTCAAAAAATGTAT+TGG - chr4.3:89073222-89073241 None:intergenic 30.0%
GTATGATGTAACAAGAATCA+AGG - chr4.3:89072605-89072624 None:intergenic 30.0%
TAGCCAAGTAAAACATCTTA+TGG + chr4.3:89072548-89072567 MS.gene34306:intron 30.0%
! ACACCATAAGATGTTTTACT+TGG - chr4.3:89072554-89072573 None:intergenic 30.0%
! ATAAGATGTTTTACTTGGCT+AGG - chr4.3:89072549-89072568 None:intergenic 30.0%
! ATAATTTTCTTTGGGTCAGA+AGG - chr4.3:89072736-89072755 None:intergenic 30.0%
! TGTATGAATTTTGCAAGAAC+AGG + chr4.3:89072766-89072785 MS.gene34306:intron 30.0%
! TTTGTAGTCACTGTTCTTTT+TGG + chr4.3:89073012-89073031 MS.gene34306:intron 30.0%
!! GTGCCATTTGTATTTAATGT+AGG + chr4.3:89073441-89073460 MS.gene34306:intron 30.0%
!! TTTTGAGTCCTTCCAAATTA+GGG + chr4.3:89073229-89073248 MS.gene34306:intron 30.0%
!!! TTTTTGAGTCCTTCCAAATT+AGG + chr4.3:89073228-89073247 MS.gene34306:intron 30.0%
AAAAAAAAGGAAGGAGGAAG+TGG - chr4.3:89073320-89073339 None:intergenic 35.0%
AATCAACTAGGTTGCATAAC+AGG - chr4.3:89072993-89073012 None:intergenic 35.0%
ACAAAATCCCCTAATTTGGA+AGG - chr4.3:89073240-89073259 None:intergenic 35.0%
AGATGATCATCATAATGAGC+AGG - chr4.3:89073543-89073562 None:intergenic 35.0%
CAGTGACTACAAAATCAACT+AGG - chr4.3:89073005-89073024 None:intergenic 35.0%
GCAACTTGATGTTCATAGAT+TGG + chr4.3:89073599-89073618 MS.gene34306:CDS 35.0%
GGACTCAAAAAATGTATTGG+AGG - chr4.3:89073219-89073238 None:intergenic 35.0%
TCAAATCACCTAGATTGCAA+TGG - chr4.3:89072792-89072811 None:intergenic 35.0%
TTTGAGTCCTTCCAAATTAG+GGG + chr4.3:89073230-89073249 MS.gene34306:intron 35.0%
! ATATTCCTAAAGTTGGTCCT+GGG + chr4.3:89073700-89073719 MS.gene34306:CDS 35.0%
ACTGAAGATGAAATCTCAGC+AGG + chr4.3:89072509-89072528 MS.gene34306:CDS 40.0%
CTGAAAATCATAAGGGACAG+TGG + chr4.3:89072901-89072920 MS.gene34306:intron 40.0%
GCATATGAGAATGTTGTTGG+TGG + chr4.3:89072389-89072408 MS.gene34306:CDS 40.0%
TAAGGATCTGTTTCGGAGTT+TGG - chr4.3:89073368-89073387 None:intergenic 40.0%
TCGGCATATGAGAATGTTGT+TGG + chr4.3:89072386-89072405 MS.gene34306:CDS 40.0%
TGAAATCCTGGATTCTATCG+CGG - chr4.3:89073647-89073666 None:intergenic 40.0%
TTCTGTTTGATGTGCTGCAA+TGG + chr4.3:89072658-89072677 MS.gene34306:intron 40.0%
! CGAGATATTGGTTGAAATCC+TGG - chr4.3:89073659-89073678 None:intergenic 40.0%
! GATATTCCTAAAGTTGGTCC+TGG + chr4.3:89073699-89073718 MS.gene34306:CDS 40.0%
! GCAATGGGTTTCAGTAAACA+GGG + chr4.3:89072966-89072985 MS.gene34306:intron 40.0%
AAAAAGGAAGGAGGAAGTGG+AGG - chr4.3:89073317-89073336 None:intergenic 45.0%
AAAAGGAAGGAGGAAGTGGA+GGG - chr4.3:89073316-89073335 None:intergenic 45.0%
ACATTTCCTAAGGCTCCGTT+CGG + chr4.3:89073038-89073057 MS.gene34306:intron 45.0%
AGAACAGGCCATTGCAATCT+AGG + chr4.3:89072781-89072800 MS.gene34306:intron 45.0%
ATCATCTTACACCAGCAGAG+AGG + chr4.3:89073556-89073575 MS.gene34306:CDS 45.0%
ATCTGTTTCGGAGTTTGGAG+GGG - chr4.3:89073363-89073382 None:intergenic 45.0%
CGCTCATGTTTGCGAGATAT+TGG - chr4.3:89073671-89073690 None:intergenic 45.0%
GATCTGTTTCGGAGTTTGGA+GGG - chr4.3:89073364-89073383 None:intergenic 45.0%
GGTGGTAAACTGAAGCTGAA+GGG + chr4.3:89072407-89072426 MS.gene34306:CDS 45.0%
TGATGGGAGTGAATTGAGCA+GGG + chr4.3:89073509-89073528 MS.gene34306:CDS 45.0%
TGGTGGTAAACTGAAGCTGA+AGG + chr4.3:89072406-89072425 MS.gene34306:CDS 45.0%
! ATGATGGGAGTGAATTGAGC+AGG + chr4.3:89073508-89073527 MS.gene34306:CDS 45.0%
! GAAGCTGAAGGGAAAAGCAT+TGG + chr4.3:89072418-89072437 MS.gene34306:CDS 45.0%
! GGCAATGGGTTTCAGTAAAC+AGG + chr4.3:89072965-89072984 MS.gene34306:intron 45.0%
!! AAAGCATTGGATGTTGCTGG+CGG + chr4.3:89072431-89072450 MS.gene34306:CDS 45.0%
!! GGAAAAGCATTGGATGTTGC+TGG + chr4.3:89072428-89072447 MS.gene34306:CDS 45.0%
ATCTCACCGCGATAGAATCC+AGG + chr4.3:89073638-89073657 MS.gene34306:CDS 50.0%
ATCTTACACCAGCAGAGAGG+CGG + chr4.3:89073559-89073578 MS.gene34306:CDS 50.0%
CATTTCCTAAGGCTCCGTTC+GGG + chr4.3:89073039-89073058 MS.gene34306:intron 50.0%
GGATCTGTTTCGGAGTTTGG+AGG - chr4.3:89073365-89073384 None:intergenic 50.0%
GTGGAGGGAATAGAGGACTT+CGG - chr4.3:89073301-89073320 None:intergenic 50.0%
TGGAGGGAATAGAGGACTTC+GGG - chr4.3:89073300-89073319 None:intergenic 50.0%
TTTCGGAGTTTGGAGGGGAA+GGG - chr4.3:89073358-89073377 None:intergenic 50.0%
!! AGGGAATGGATGGCTTTGTG+GGG + chr4.3:89073074-89073093 MS.gene34306:intron 50.0%
!! GAGGGAATGGATGGCTTTGT+GGG + chr4.3:89073073-89073092 MS.gene34306:intron 50.0%
AAACTCCCGAACGGAGCCTT+AGG - chr4.3:89073047-89073066 None:intergenic 55.0%
AGGGAATAGAGGACTTCGGG+AGG - chr4.3:89073297-89073316 None:intergenic 55.0%
GGAATAGAGGACTTCGGGAG+GGG - chr4.3:89073295-89073314 None:intergenic 55.0%
GGAGGAAGTGGAGGGAATAG+AGG - chr4.3:89073308-89073327 None:intergenic 55.0%
GGGAATAGAGGACTTCGGGA+GGG - chr4.3:89073296-89073315 None:intergenic 55.0%
GTTTCGGAGTTTGGAGGGGA+AGG - chr4.3:89073359-89073378 None:intergenic 55.0%
TAAGGCTCCGTTCGGGAGTT+TGG + chr4.3:89073046-89073065 MS.gene34306:intron 55.0%
TCTATGTACCGCCTCTCTGC+TGG - chr4.3:89073570-89073589 None:intergenic 55.0%
TTTGGAGGGGAGGGAATGGA+TGG + chr4.3:89073064-89073083 MS.gene34306:intron 55.0%
! GGAGGGAATGGATGGCTTTG+TGG + chr4.3:89073072-89073091 MS.gene34306:intron 55.0%
!! AATGGATGGCTTTGTGGGGG+AGG + chr4.3:89073078-89073097 MS.gene34306:intron 55.0%
!! ATGGATGGCTTTGTGGGGGA+GGG + chr4.3:89073079-89073098 MS.gene34306:intron 55.0%
!! GGGAATGGATGGCTTTGTGG+GGG + chr4.3:89073075-89073094 MS.gene34306:intron 55.0%
ATAGAGGACTTCGGGAGGGG+AGG - chr4.3:89073292-89073311 None:intergenic 60.0%
CTCCCCTCCAAACTCCCGAA+CGG - chr4.3:89073056-89073075 None:intergenic 60.0%
CTCCGTTCGGGAGTTTGGAG+GGG + chr4.3:89073051-89073070 MS.gene34306:intron 60.0%
GCTCCGTTCGGGAGTTTGGA+GGG + chr4.3:89073050-89073069 MS.gene34306:intron 60.0%
GGAGTTTGGAGGGGAGGGAA+TGG + chr4.3:89073060-89073079 MS.gene34306:intron 60.0%
GTTCGGGAGTTTGGAGGGGA+GGG + chr4.3:89073055-89073074 MS.gene34306:intron 60.0%
TAGAGGACTTCGGGAGGGGA+GGG - chr4.3:89073291-89073310 None:intergenic 60.0%
! GGCTTTGTGGGGGAGGGAAA+TGG + chr4.3:89073085-89073104 MS.gene34306:intron 60.0%
ACTTCGGGAGGGGAGGGCTT+TGG - chr4.3:89073285-89073304 None:intergenic 65.0%
CGGAGTTTGGAGGGGAAGGG+AGG - chr4.3:89073355-89073374 None:intergenic 65.0%
CGTTCGGGAGTTTGGAGGGG+AGG + chr4.3:89073054-89073073 MS.gene34306:intron 65.0%
CTTCGGGAGGGGAGGGCTTT+GGG - chr4.3:89073284-89073303 None:intergenic 65.0%
GGCTCCGTTCGGGAGTTTGG+AGG + chr4.3:89073049-89073068 MS.gene34306:intron 65.0%
TTCGGGAGGGGAGGGCTTTG+GGG - chr4.3:89073283-89073302 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 89072383 89073725 89072383 ID=MS.gene34306
chr4.3 mRNA 89072383 89073725 89072383 ID=MS.gene34306.t1;Parent=MS.gene34306
chr4.3 exon 89072383 89072530 89072383 ID=MS.gene34306.t1.exon1;Parent=MS.gene34306.t1
chr4.3 CDS 89072383 89072530 89072383 ID=cds.MS.gene34306.t1;Parent=MS.gene34306.t1
chr4.3 exon 89073463 89073725 89073463 ID=MS.gene34306.t1.exon2;Parent=MS.gene34306.t1
chr4.3 CDS 89073463 89073725 89073463 ID=cds.MS.gene34306.t1;Parent=MS.gene34306.t1
Gene Sequence

>MS.gene34306

ATGTCGGCATATGAGAATGTTGTTGGTGGTAAACTGAAGCTGAAGGGAAAAGCATTGGATGTTGCTGGCGGAATCAAGAAGAAGAAAAAGAAGAACAAAAGAAATCAACAACAGTTTTTGCAAGCAACTGAAGATGAAATCTCAGCAGGTTAGTATCTATTAACCTAGCCAAGTAAAACATCTTATGGTGTTGGATTTTTCAGCATGCTAAAACTTTTTCCTTGATTCTTGTTACATCATACAATCATAGTATTATGTTTTAAAATGGTCAATGGTTCTGTTTGATGTGCTGCAATGGTTTGATGAACATGTTACTGCTACTCTAGTTATTTGTTATGTAAGATGTTTTGCCTTCTGACCCAAAGAAAATTATGATGAGAATATGTATGAATTTTGCAAGAACAGGCCATTGCAATCTAGGTGATTTGATTATAGTAAATGAGTATCTGGGTGAACTCAATAATATTATGAATTTTGAATTAGTGCACTTCTCACCTTACTTGAACATAATTTTTTTACTGAAAATCATAAGGGACAGTGGACATTGTTTTATGACAATAGTCAACAATAAATATCATTTTCGGCAATGGGTTTCAGTAAACAGGGACCTGTTATGCAACCTAGTTGATTTTGTAGTCACTGTTCTTTTTGGTTTACATTTCCTAAGGCTCCGTTCGGGAGTTTGGAGGGGAGGGAATGGATGGCTTTGTGGGGGAGGGAAATGGATAGAAATTTGAGACAACTATTTTGTAGAGTGATAAGAGAATGCTCGTGTTTAATATATTTTAAATTTTAGAGTATTATAACAATATGAATGGCTTTGAAGAATTTATCCTCCAATACATTTTTTGAGTCCTTCCAAATTAGGGGATTTTGTATTATGATGAAAAATAAACTCCCCAAAGCCCTCCCCTCCCGAAGTCCTCTATTCCCTCCACTTCCTCCTTCCTTTTTTTTCTCTTTCAAAATCCTCCCTTCCCCTCCAAACTCCGAAACAGATCCTTAATCTTTTTGGTTTTAGTTCACCATAAATTGTGCAATATATTTACTTATAGTTTGTGCCATTTGTATTTAATGTAGGTGGAAGTACAGAACAAGCTAAAGATCCTAATGATCAAGAAGTAAATGATGGGAGTGAATTGAGCAGGGAAGAGAAGCCTGCTCATTATGATGATCATCTTACACCAGCAGAGAGGCGGTACATAGAACAGAGAGAGCAACTTGATGTTCATAGATTGGCCAAGATTTCTAATAAATCTCACCGCGATAGAATCCAGGATTTCAACCAATATCTCGCAAACATGAGCGAGCATTATGATATTCCTAAAGTTGGTCCTGGGTGA

Protein sequence

>MS.gene34306.t1

MSAYENVVGGKLKLKGKALDVAGGIKKKKKKNKRNQQQFLQATEDEISAGGSTEQAKDPNDQEVNDGSELSREEKPAHYDDHLTPAERRYIEQREQLDVHRLAKISNKSHRDRIQDFNQYLANMSEHYDIPKVGPG