AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026534.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026534.01.T01 MTR_5g046230 74.269 171 0 1 1 127 1 171 1.02e-82 241
MsG0580026534.01.T01 MTR_4g114730 37.908 153 46 5 8 111 5 157 7.80e-24 91.3
MsG0580026534.01.T01 MTR_4g050300 35.669 157 45 5 7 111 1 153 1.36e-23 90.1
MsG0580026534.01.T01 MTR_2g087740 70.909 55 14 1 57 111 111 163 4.61e-22 86.7
MsG0580026534.01.T01 MTR_4g025900 75.000 44 11 0 68 111 135 178 4.20e-18 77.0
MsG0580026534.01.T01 MTR_5g034030 70.213 47 14 0 63 109 113 159 6.71e-18 76.3
MsG0580026534.01.T01 MTR_4g101660 75.000 44 11 0 68 111 130 173 1.26e-17 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026534.01.T01 AT1G69180 47.093 172 46 4 1 127 1 172 1.74e-36 123
MsG0580026534.01.T01 AT1G08465 37.255 153 41 4 12 111 3 153 1.10e-23 90.5
MsG0580026534.01.T01 AT2G26580 38.571 140 43 3 15 111 7 146 9.12e-22 85.1
MsG0580026534.01.T01 AT2G26580 38.571 140 43 3 15 111 7 146 9.12e-22 85.1
MsG0580026534.01.T01 AT2G45190 72.727 55 14 1 57 111 65 118 2.43e-21 84.0
MsG0580026534.01.T01 AT2G45190 72.727 55 14 1 57 111 129 182 4.44e-21 85.1
MsG0580026534.01.T01 AT4G00180 77.273 44 10 0 68 111 120 163 7.50e-19 78.6
MsG0580026534.01.T01 AT4G00180 77.273 44 10 0 68 111 151 194 1.27e-18 78.6
MsG0580026534.01.T01 AT1G23420 46.250 80 43 0 34 113 99 178 1.95e-17 75.5
MsG0580026534.01.T01 AT1G23420 46.250 80 43 0 34 113 130 209 3.49e-17 75.1

Find 29 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGAACTGGTTGGTGAATT+TGG 0.207087 5:-39011860 None:intergenic
CCATGGTAACTTTCTCTTCA+TGG 0.253602 5:-39010144 None:intergenic
ACAACAAATGGCGGTGGTCT+AGG 0.360978 5:-39011144 None:intergenic
TGCTTACGTTTGACAACAAA+TGG 0.370125 5:-39011156 None:intergenic
CAACAAATGGCGGTGGTCTA+GGG 0.442200 5:-39011143 None:intergenic
TTTAGTTGCAGAAATTGAAC+TGG 0.447192 5:-39011873 None:intergenic
GGAAGACGGTGCTTCTTCTC+AGG 0.456267 5:-39011351 None:intergenic
ATTGCACTTACTTCATGAAA+CGG 0.472131 5:-39011386 None:intergenic
CAACTTTATCACAGTGGGCT+AGG 0.506444 5:+39011831 MsG0580026534.01.T01:intron
AGAGAAAGTTACCATGGACT+TGG 0.516644 5:+39010150 MsG0580026534.01.T01:CDS
CACTGAAAGCTTCTCGATGT+GGG 0.523718 5:-39011660 None:intergenic
GCTTCTCGATGTGGGATCTG+AGG 0.524810 5:-39011652 None:intergenic
CTTCTCGATGTGGGATCTGA+GGG 0.529903 5:-39011651 None:intergenic
ATGAAACGGTTGTATGCAGA+TGG 0.547267 5:-39011372 None:intergenic
GCACTGAAAGCTTCTCGATG+TGG 0.561704 5:-39011661 None:intergenic
TCGATGTGGGATCTGAGGGT+TGG 0.564009 5:-39011647 None:intergenic
TAACAAAGGTGTTGATCAGA+TGG 0.588546 5:-39010178 None:intergenic
AGTGACTCAGTTGATGTAGT+TGG 0.590905 5:-39011117 None:intergenic
GTTGCAGAAATTGAACTGGT+TGG 0.594902 5:-39011869 None:intergenic
AACAAATGGCGGTGGTCTAG+GGG 0.595027 5:-39011142 None:intergenic
GTTGGTGAAGAAGAAGATGA+TGG 0.609575 5:-39011099 None:intergenic
CGTTTGACAACAAATGGCGG+TGG 0.615312 5:-39011150 None:intergenic
AGATGGTGGAACCAAGTCCA+TGG 0.626957 5:-39010161 None:intergenic
CCATGAAGAGAAAGTTACCA+TGG 0.629385 5:+39010144 MsG0580026534.01.T01:CDS
CAAAGGTGTTGATCAGATGG+TGG 0.641754 5:-39010175 None:intergenic
GGTTGTATGCAGATGGAAGA+CGG 0.643999 5:-39011365 None:intergenic
GTGAAGAAGAAGATGATGGT+TGG 0.655028 5:-39011095 None:intergenic
AGTTGCAACGAACGTAACAA+AGG 0.660534 5:-39010192 None:intergenic
TTACGTTTGACAACAAATGG+CGG 0.678472 5:-39011153 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTAATTAATTAATAAAA+AGG - Chr5:39011015-39011034 None:intergenic 0.0%
!!! AAATTTTCCTAAAATATTTA+GGG + Chr5:39010433-39010452 MsG0580026534.01.T01:intron 10.0%
!!! TAAATTTTCCTAAAATATTT+AGG + Chr5:39010432-39010451 MsG0580026534.01.T01:intron 10.0%
!!! TATAGTATATATTTTAAACA+GGG - Chr5:39011526-39011545 None:intergenic 10.0%
!!! TTCATAATAATCAATTTTTT+TGG - Chr5:39010887-39010906 None:intergenic 10.0%
!! ACAAACTATTAGAAATATTA+TGG + Chr5:39010386-39010405 MsG0580026534.01.T01:intron 15.0%
!!! ATAATAATCAATTTTTTTGG+TGG - Chr5:39010884-39010903 None:intergenic 15.0%
!!! GTATAGTATATATTTTAAAC+AGG - Chr5:39011527-39011546 None:intergenic 15.0%
!!! TAATAATCAATTTTTTTGGT+GGG - Chr5:39010883-39010902 None:intergenic 15.0%
!! AATTATGAAAATAATGAACC+TGG - Chr5:39010852-39010871 None:intergenic 20.0%
!! TATTATTATGAACATAACCA+GGG + Chr5:39010631-39010650 MsG0580026534.01.T01:intron 20.0%
!! TTAAAAAAAAAGAATGAACC+TGG - Chr5:39010610-39010629 None:intergenic 20.0%
!! TTATTATTATGAACATAACC+AGG + Chr5:39010630-39010649 MsG0580026534.01.T01:intron 20.0%
!!! AATAATCAATTTTTTTGGTG+GGG - Chr5:39010882-39010901 None:intergenic 20.0%
!!! ATATATTTTAAACAGGGTAA+GGG - Chr5:39011520-39011539 None:intergenic 20.0%
!!! ATGAAAAATGCAAACATTTT+TGG - Chr5:39011692-39011711 None:intergenic 20.0%
!!! ATGATGAGTTTTATATGTAT+TGG + Chr5:39010988-39011007 MsG0580026534.01.T01:intron 20.0%
!!! CCTCTTTTATTTTCTTATTA+GGG + Chr5:39011712-39011731 MsG0580026534.01.T01:intron 20.0%
!!! GGAAATAAGACTAAATTTTT+TGG + Chr5:39010699-39010718 MsG0580026534.01.T01:intron 20.0%
!!! TATATATTTTAAACAGGGTA+AGG - Chr5:39011521-39011540 None:intergenic 20.0%
!!! TCCTCTTTTATTTTCTTATT+AGG + Chr5:39011711-39011730 MsG0580026534.01.T01:intron 20.0%
! AAGACTATAGTATAGTATTC+TGG + Chr5:39011948-39011967 MsG0580026534.01.T01:intron 25.0%
! AGAATACTATACTATAGTCT+TGG - Chr5:39011949-39011968 None:intergenic 25.0%
! ATTATTATGAACATAACCAG+GGG + Chr5:39010632-39010651 MsG0580026534.01.T01:intron 25.0%
! CCCTAATAAGAAAATAAAAG+AGG - Chr5:39011715-39011734 None:intergenic 25.0%
! GAATCAATAAGAAGTTAACA+AGG - Chr5:39010289-39010308 None:intergenic 25.0%
! TAATATATATAGCACTGCTT+TGG + Chr5:39011744-39011763 MsG0580026534.01.T01:intron 25.0%
!! ATCTGAGATTGAATTATTAG+TGG + Chr5:39010658-39010677 MsG0580026534.01.T01:intron 25.0%
!! TCTGAGATTGAATTATTAGT+GGG + Chr5:39010659-39010678 MsG0580026534.01.T01:intron 25.0%
!!! TAGAGTGCTAAATTTTGTAT+AGG - Chr5:39010344-39010363 None:intergenic 25.0%
!!! TGGGGGTAATTTTTTTTTTA+AGG + Chr5:39010678-39010697 MsG0580026534.01.T01:intron 25.0%
AACAAGGTGAAAATGATGAA+TGG - Chr5:39010273-39010292 None:intergenic 30.0%
ATTGCACTTACTTCATGAAA+CGG - Chr5:39011389-39011408 None:intergenic 30.0%
CTGAGATTGAATTATTAGTG+GGG + Chr5:39010660-39010679 MsG0580026534.01.T01:intron 30.0%
GATATTTCCTTAGAGAGTAA+TGG - Chr5:39011192-39011211 None:intergenic 30.0%
TGAGATTGAATTATTAGTGG+GGG + Chr5:39010661-39010680 MsG0580026534.01.T01:intron 30.0%
TTACACAACTTTATCACAGT+GGG + Chr5:39011826-39011845 MsG0580026534.01.T01:intron 30.0%
TTAGAGAGTAATGGTGAAAA+GGG - Chr5:39011183-39011202 None:intergenic 30.0%
TTTAGTTGCAGAAATTGAAC+TGG - Chr5:39011876-39011895 None:intergenic 30.0%
! ACGACAACCCTAAATATTTT+AGG - Chr5:39010443-39010462 None:intergenic 30.0%
! TGTGTAACACAAGTTAGTTT+AGG - Chr5:39011813-39011832 None:intergenic 30.0%
!! AATACTTTTGTTTGTAGCAG+GGG + Chr5:39011052-39011071 MsG0580026534.01.T01:intron 30.0%
!! AGAATACTTTTGTTTGTAGC+AGG + Chr5:39011050-39011069 MsG0580026534.01.T01:intron 30.0%
!! ATACTTTTTATCTGTCAGAG+AGG + Chr5:39011603-39011622 MsG0580026534.01.T01:intron 30.0%
!! GAATACTTTTGTTTGTAGCA+GGG + Chr5:39011051-39011070 MsG0580026534.01.T01:intron 30.0%
!! GTGATCAACAGTTTGATTTT+TGG - Chr5:39010576-39010595 None:intergenic 30.0%
!!! ACAGTTTGATTTTTGGAACT+TGG - Chr5:39010569-39010588 None:intergenic 30.0%
!!! GTTTGTTATGTTTTGTAGGT+TGG + Chr5:39010461-39010480 MsG0580026534.01.T01:intron 30.0%
!!! TGTCGTTTGTTATGTTTTGT+AGG + Chr5:39010457-39010476 MsG0580026534.01.T01:intron 30.0%
AACCAACCATAACTACAAGA+TGG + Chr5:39011479-39011498 MsG0580026534.01.T01:intron 35.0%
AGCACTCTATCACTTAGATA+TGG + Chr5:39010355-39010374 MsG0580026534.01.T01:intron 35.0%
AGTGAAGTATACATACAGCT+AGG - Chr5:39010231-39010250 None:intergenic 35.0%
CTTAGAGAGTAATGGTGAAA+AGG - Chr5:39011184-39011203 None:intergenic 35.0%
GGGATTTACAGTAGCAAAAA+AGG + Chr5:39011072-39011091 MsG0580026534.01.T01:CDS 35.0%
GTGTTACCATCTTGTAGTTA+TGG - Chr5:39011488-39011507 None:intergenic 35.0%
GTTACACAACTTTATCACAG+TGG + Chr5:39011825-39011844 MsG0580026534.01.T01:intron 35.0%
TACCATCTTGTAGTTATGGT+TGG - Chr5:39011484-39011503 None:intergenic 35.0%
TGCTTACGTTTGACAACAAA+TGG - Chr5:39011159-39011178 None:intergenic 35.0%
TTACGTTTGACAACAAATGG+CGG - Chr5:39011156-39011175 None:intergenic 35.0%
TTCTGTATGCTTATTTGTGC+AGG + Chr5:39011979-39011998 MsG0580026534.01.T01:intron 35.0%
! CTATAGTCTTGGAATATGCA+TGG - Chr5:39011938-39011957 None:intergenic 35.0%
! CTTTTCACCATTACTCTCTA+AGG + Chr5:39011182-39011201 MsG0580026534.01.T01:intron 35.0%
!! ATTGAACTGGTTGGTGAATT+TGG - Chr5:39011863-39011882 None:intergenic 35.0%
!! TAACAAAGGTGTTGATCAGA+TGG - Chr5:39010181-39010200 None:intergenic 35.0%
!!! GTTTGATTTTTGGAACTTGG+TGG - Chr5:39010566-39010585 None:intergenic 35.0%
AATAATGAACCTGGAGACTG+AGG - Chr5:39010843-39010862 None:intergenic 40.0%
AGAGAAAGTTACCATGGACT+TGG + Chr5:39010150-39010169 MsG0580026534.01.T01:CDS 40.0%
AGTTGCAACGAACGTAACAA+AGG - Chr5:39010195-39010214 None:intergenic 40.0%
ATAATGAACCTGGAGACTGA+GGG - Chr5:39010842-39010861 None:intergenic 40.0%
ATGAAACGGTTGTATGCAGA+TGG - Chr5:39011375-39011394 None:intergenic 40.0%
ATTATGAACATAACCAGGGG+CGG + Chr5:39010635-39010654 MsG0580026534.01.T01:intron 40.0%
CCATGAAGAGAAAGTTACCA+TGG + Chr5:39010144-39010163 MsG0580026534.01.T01:CDS 40.0%
CCATGGTAACTTTCTCTTCA+TGG - Chr5:39010147-39010166 None:intergenic 40.0%
GTTGCAGAAATTGAACTGGT+TGG - Chr5:39011872-39011891 None:intergenic 40.0%
! AGTGACTCAGTTGATGTAGT+TGG - Chr5:39011120-39011139 None:intergenic 40.0%
! GTGAAGAAGAAGATGATGGT+TGG - Chr5:39011098-39011117 None:intergenic 40.0%
! GTTGGTGAAGAAGAAGATGA+TGG - Chr5:39011102-39011121 None:intergenic 40.0%
AAGAATGAACCTGGAGACTG+AGG - Chr5:39010601-39010620 None:intergenic 45.0%
AGAATGAACCTGGAGACTGA+GGG - Chr5:39010600-39010619 None:intergenic 45.0%
CACTGAAAGCTTCTCGATGT+GGG - Chr5:39011663-39011682 None:intergenic 45.0%
GATACTGTGACAGTGAAGTG+TGG + Chr5:39010506-39010525 MsG0580026534.01.T01:intron 45.0%
GGTTGTATGCAGATGGAAGA+CGG - Chr5:39011368-39011387 None:intergenic 45.0%
GTCTTGTGGTGAGAAAAGAG+AGG - Chr5:39010544-39010563 None:intergenic 45.0%
! CAACTTTATCACAGTGGGCT+AGG + Chr5:39011831-39011850 MsG0580026534.01.T01:intron 45.0%
! TTTGGAACTTGGTGGTCTTG+TGG - Chr5:39010558-39010577 None:intergenic 45.0%
!! CAAAGGTGTTGATCAGATGG+TGG - Chr5:39010178-39010197 None:intergenic 45.0%
AACAAATGGCGGTGGTCTAG+GGG - Chr5:39011145-39011164 None:intergenic 50.0%
ACAACAAATGGCGGTGGTCT+AGG - Chr5:39011147-39011166 None:intergenic 50.0%
AGGTTGGCATACCATGCAAG+AGG + Chr5:39010477-39010496 MsG0580026534.01.T01:intron 50.0%
CAACAAATGGCGGTGGTCTA+GGG - Chr5:39011146-39011165 None:intergenic 50.0%
CGTTTGACAACAAATGGCGG+TGG - Chr5:39011153-39011172 None:intergenic 50.0%
CTTCTCGATGTGGGATCTGA+GGG - Chr5:39011654-39011673 None:intergenic 50.0%
GCACTGAAAGCTTCTCGATG+TGG - Chr5:39011664-39011683 None:intergenic 50.0%
GTATCTAGCAGCCTCTTGCA+TGG - Chr5:39010491-39010510 None:intergenic 50.0%
!! AGATGGTGGAACCAAGTCCA+TGG - Chr5:39010164-39010183 None:intergenic 50.0%
GCTTCTCGATGTGGGATCTG+AGG - Chr5:39011655-39011674 None:intergenic 55.0%
GGAAGACGGTGCTTCTTCTC+AGG - Chr5:39011354-39011373 None:intergenic 55.0%
TCGATGTGGGATCTGAGGGT+TGG - Chr5:39011650-39011669 None:intergenic 55.0%
TGATCACACCCTCAGTCTCC+AGG + Chr5:39010589-39010608 MsG0580026534.01.T01:intron 55.0%
TTCAATCTCAGATCCGCCCC+TGG - Chr5:39010651-39010670 None:intergenic 55.0%
! ACTGAGGGTGTGCGTGTGTG+TGG - Chr5:39010827-39010846 None:intergenic 60.0%
CACGCACACCCTCAGTCTCC+AGG + Chr5:39010831-39010850 MsG0580026534.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 39010139 39012006 39010139 ID=MsG0580026534.01;Name=MsG0580026534.01
Chr5 mRNA 39010139 39012006 39010139 ID=MsG0580026534.01.T01;Parent=MsG0580026534.01;Name=MsG0580026534.01.T01;_AED=0.42;_eAED=0.43;_QI=0|0|0|1|0|0|6|0|128
Chr5 exon 39010139 39010234 39010139 ID=MsG0580026534.01.T01:exon:36928;Parent=MsG0580026534.01.T01
Chr5 exon 39011072 39011171 39011072 ID=MsG0580026534.01.T01:exon:36929;Parent=MsG0580026534.01.T01
Chr5 exon 39011349 39011397 39011349 ID=MsG0580026534.01.T01:exon:36930;Parent=MsG0580026534.01.T01
Chr5 exon 39011621 39011696 39011621 ID=MsG0580026534.01.T01:exon:36931;Parent=MsG0580026534.01.T01
Chr5 exon 39011845 39011904 39011845 ID=MsG0580026534.01.T01:exon:36932;Parent=MsG0580026534.01.T01
Chr5 exon 39012001 39012006 39012001 ID=MsG0580026534.01.T01:exon:36933;Parent=MsG0580026534.01.T01
Chr5 CDS 39010139 39010234 39010139 ID=MsG0580026534.01.T01:cds;Parent=MsG0580026534.01.T01
Chr5 CDS 39011072 39011171 39011072 ID=MsG0580026534.01.T01:cds;Parent=MsG0580026534.01.T01
Chr5 CDS 39011349 39011397 39011349 ID=MsG0580026534.01.T01:cds;Parent=MsG0580026534.01.T01
Chr5 CDS 39011621 39011696 39011621 ID=MsG0580026534.01.T01:cds;Parent=MsG0580026534.01.T01
Chr5 CDS 39011845 39011904 39011845 ID=MsG0580026534.01.T01:cds;Parent=MsG0580026534.01.T01
Chr5 CDS 39012001 39012006 39012001 ID=MsG0580026534.01.T01:cds;Parent=MsG0580026534.01.T01
Gene Sequence

>MsG0580026534.01.T01

ATGAACCATGAAGAGAAAGTTACCATGGACTTGGTTCCACCATCTGATCAACACCTTTGTTACGTTCGTTGCAACTTCTGTAACACTGTCCTAGCTGGGATTTACAGTAGCAAAAAAGGCCAACCATCATCTTCTTCTTCACCAACTACATCAACTGAGTCACTGTCCCCTAGACCACCGCCATTTGTTGTCAAACCACCTGAGAAGAAGCACCGTCTTCCATCTGCATACAACCGTTTCATGAAAGAGGAGATACAGCGCATCAAAGTAGCCAACCCTCAGATCCCACATCGAGAAGCTTTCAGTGCTGCTGCCAAAAATTGGGCTAGGTACATACCAAATTCACCAACCAGTTCAATTTCTGCAACTAAAAGAAACATTGAATGA
Protein sequence

>MsG0580026534.01.T01

MNHEEKVTMDLVPPSDQHLCYVRCNFCNTVLAGIYSSKKGQPSSSSSPTTSTESLSPRPPPFVVKPPEKKHRLPSAYNRFMKEEIQRIKVANPQIPHREAFSAAAKNWARYIPNSPTSSISATKRNIE*