AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018848.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018848.01.T01 MTR_4g019150 81.188 202 2 1 1 166 1 202 1.27e-111 316
MsG0480018848.01.T01 MTR_4g019130 63.184 201 39 3 1 166 1 201 1.09e-80 237
MsG0480018848.01.T01 MTR_2g054130 32.022 178 90 6 10 166 210 377 7.44e-16 73.9
MsG0480018848.01.T01 MTR_7g104650 32.500 200 84 9 10 166 101 292 1.24e-15 72.8
MsG0480018848.01.T01 MTR_2g055010 30.857 175 92 5 10 163 210 376 7.87e-15 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018848.01.T01 AT2G37970 57.870 216 40 2 1 166 32 246 4.69e-77 230
MsG0480018848.01.T01 AT5G20140 32.961 179 88 7 10 166 205 373 1.84e-16 75.9
MsG0480018848.01.T01 AT5G20140 32.143 168 84 6 10 155 205 364 4.67e-15 72.0
MsG0480018848.01.T01 AT3G10130 33.503 197 86 9 10 166 114 305 1.38e-12 64.7

Find 35 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACAAAGATGGTGGCTTTA+TGG 0.188087 4:+10569605 MsG0480018848.01.T01:CDS
TCCATAATGGGTATGGTATT+TGG 0.221891 4:+10569462 None:intergenic
GGAGAAGTTGAGGCTGAGTT+TGG 0.256967 4:+10569937 MsG0480018848.01.T01:CDS
GCAAACTATATTGGAGCATT+AGG 0.276290 4:+10569633 MsG0480018848.01.T01:CDS
ACACATCATGTTCATTCAAT+AGG 0.342036 4:-10570055 None:intergenic
TGTGAAGGTGAGAGGAAATA+TGG 0.344254 4:+10569863 MsG0480018848.01.T01:intron
CTTGGACACTTCCAATGTTT+AGG 0.347372 4:+10570014 MsG0480018848.01.T01:CDS
GCAGAACCCTTTGTGATAAC+TGG 0.387111 4:-10569699 None:intergenic
CACATCATGTTCATTCAATA+GGG 0.408624 4:-10570054 None:intergenic
TTGTTTCCTTTGAACTGTGA+TGG 0.417876 4:-10569588 None:intergenic
TCACTAGCCTTAGTCACAAC+TGG 0.437262 4:-10569744 None:intergenic
GACAGCACCAGTTGTGACTA+AGG 0.455361 4:+10569737 MsG0480018848.01.T01:CDS
TATGGAGTGGTGAAGTTTAG+TGG 0.463832 4:+10569881 MsG0480018848.01.T01:CDS
TTCTCGATCCATAATGGGTA+TGG 0.497976 4:+10569455 None:intergenic
AGGAGAAGGTGGAGAAGTTG+AGG 0.502041 4:+10569927 MsG0480018848.01.T01:CDS
GTGACTAAGGCTAGTGAAGA+AGG 0.510099 4:+10569750 MsG0480018848.01.T01:CDS
AGGCTGAGTTTGGAGAAAGA+TGG 0.512182 4:+10569947 MsG0480018848.01.T01:CDS
TCCAATGTTTAGGACTAATG+AGG 0.518493 4:+10570024 MsG0480018848.01.T01:CDS
AGCTAGTGATGAAGTGGTGA+AGG 0.543102 4:+10569907 MsG0480018848.01.T01:CDS
TGAAGTGGTGAAGGAGAAGG+TGG 0.549018 4:+10569916 MsG0480018848.01.T01:CDS
CTAAACATTGGAAGTGTCCA+AGG 0.551702 4:-10570013 None:intergenic
TGATGAAGTGGTGAAGGAGA+AGG 0.557865 4:+10569913 MsG0480018848.01.T01:CDS
TCTGATTTCATAGTCTTGTG+TGG 0.560504 4:-10569526 None:intergenic
ACCTCATTAGTCCTAAACAT+TGG 0.572004 4:-10570025 None:intergenic
ACTGCACCAGTTATCACAAA+GGG 0.579442 4:+10569693 MsG0480018848.01.T01:CDS
GAGAGGGTTGTGAAGGTGAG+AGG 0.580545 4:+10569855 MsG0480018848.01.T01:intron
TATGATCCATCACAGTTCAA+AGG 0.581780 4:+10569582 MsG0480018848.01.T01:CDS
CAGTTCAAAGGAAACAAAGA+TGG 0.590535 4:+10569594 MsG0480018848.01.T01:CDS
GTGACTTCAGCTGCTACAGA+AGG 0.612236 4:-10569558 None:intergenic
TGGGTAGGTACAATCCACCT+TGG 0.629812 4:+10569996 MsG0480018848.01.T01:CDS
TTCAAAGGAAACAAAGATGG+TGG 0.644336 4:+10569597 MsG0480018848.01.T01:CDS
GACTGCACCAGTTATCACAA+AGG 0.644397 4:+10569692 MsG0480018848.01.T01:CDS
TGGTGTAGCTAGTGATGAAG+TGG 0.645460 4:+10569901 MsG0480018848.01.T01:CDS
AACATTGGAAGTGTCCAAGG+TGG 0.685808 4:-10570010 None:intergenic
AGGTGAGAGGAAATATGGAG+TGG 0.725990 4:+10569868 MsG0480018848.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAGATGGTTTTAAGGTTAT+TGG + Chr4:10569962-10569981 MsG0480018848.01.T01:CDS 25.0%
!!! AAGATGGTTTTAAGGTTATT+GGG + Chr4:10569963-10569982 MsG0480018848.01.T01:CDS 25.0%
!!! ATGGTTTTAGCAAACTATAT+TGG + Chr4:10569624-10569643 MsG0480018848.01.T01:CDS 25.0%
!!! GTTTTTGTCACTTCATATTT+TGG - Chr4:10569507-10569526 None:intergenic 25.0%
GGTATGGTATTTGGAAAAAT+TGG + Chr4:10569471-10569490 MsG0480018848.01.T01:CDS 30.0%
!! TTTGGAGAAAGATGGTTTTA+AGG + Chr4:10569955-10569974 MsG0480018848.01.T01:CDS 30.0%
!!! AGATGGTTTTAAGGTTATTG+GGG + Chr4:10569964-10569983 MsG0480018848.01.T01:CDS 30.0%
!!! GTTATTGGGGATTTTTTGTT+GGG + Chr4:10569977-10569996 MsG0480018848.01.T01:CDS 30.0%
!!! TTCTTCTGCTTTTTCATACA+TGG - Chr4:10569817-10569836 None:intergenic 30.0%
ACCTCATTAGTCCTAAACAT+TGG - Chr4:10570028-10570047 None:intergenic 35.0%
AGAAGGTGAGAAGAATAAGA+TGG + Chr4:10569767-10569786 MsG0480018848.01.T01:intron 35.0%
CAGTTCAAAGGAAACAAAGA+TGG + Chr4:10569594-10569613 MsG0480018848.01.T01:CDS 35.0%
TATGATCCATCACAGTTCAA+AGG + Chr4:10569582-10569601 MsG0480018848.01.T01:CDS 35.0%
TTCAAAGGAAACAAAGATGG+TGG + Chr4:10569597-10569616 MsG0480018848.01.T01:CDS 35.0%
TTGTTTCCTTTGAACTGTGA+TGG - Chr4:10569591-10569610 None:intergenic 35.0%
! AAACAAAGATGGTGGCTTTA+TGG + Chr4:10569605-10569624 MsG0480018848.01.T01:CDS 35.0%
! GCAAACTATATTGGAGCATT+AGG + Chr4:10569633-10569652 MsG0480018848.01.T01:CDS 35.0%
! TCCAATGTTTAGGACTAATG+AGG + Chr4:10570024-10570043 MsG0480018848.01.T01:CDS 35.0%
!! TCTGATTTCATAGTCTTGTG+TGG - Chr4:10569529-10569548 None:intergenic 35.0%
!!! GGTTATTGGGGATTTTTTGT+TGG + Chr4:10569976-10569995 MsG0480018848.01.T01:CDS 35.0%
!!! TCTGCTTTTTCATACATGGA+GGG - Chr4:10569813-10569832 None:intergenic 35.0%
!!! TTCTGCTTTTTCATACATGG+AGG - Chr4:10569814-10569833 None:intergenic 35.0%
!!! TTTCAGGTTTTGTGTTCTGA+GGG - Chr4:10569662-10569681 None:intergenic 35.0%
!!! TTTTCAGGTTTTGTGTTCTG+AGG - Chr4:10569663-10569682 None:intergenic 35.0%
ACTGCACCAGTTATCACAAA+GGG + Chr4:10569693-10569712 MsG0480018848.01.T01:CDS 40.0%
CTTGGACACTTCCAATGTTT+AGG + Chr4:10570014-10570033 MsG0480018848.01.T01:CDS 40.0%
TATGGAGTGGTGAAGTTTAG+TGG + Chr4:10569881-10569900 MsG0480018848.01.T01:CDS 40.0%
TGTGAAGGTGAGAGGAAATA+TGG + Chr4:10569863-10569882 MsG0480018848.01.T01:intron 40.0%
! GCAGTCATAGCAATCTTTTC+AGG - Chr4:10569678-10569697 None:intergenic 40.0%
!! CTAAACATTGGAAGTGTCCA+AGG - Chr4:10570016-10570035 None:intergenic 40.0%
!!! TTGGGGATTTTTTGTTGGGT+AGG + Chr4:10569981-10570000 MsG0480018848.01.T01:CDS 40.0%
ACCTAAGCCTACTGATGAGA+GGG + Chr4:10569839-10569858 MsG0480018848.01.T01:intron 45.0%
AGCTAGTGATGAAGTGGTGA+AGG + Chr4:10569907-10569926 MsG0480018848.01.T01:CDS 45.0%
AGGCTGAGTTTGGAGAAAGA+TGG + Chr4:10569947-10569966 MsG0480018848.01.T01:CDS 45.0%
AGGTGAGAGGAAATATGGAG+TGG + Chr4:10569868-10569887 MsG0480018848.01.T01:intron 45.0%
GACTGCACCAGTTATCACAA+AGG + Chr4:10569692-10569711 MsG0480018848.01.T01:CDS 45.0%
GCAGAACCCTTTGTGATAAC+TGG - Chr4:10569702-10569721 None:intergenic 45.0%
GTGACTAAGGCTAGTGAAGA+AGG + Chr4:10569750-10569769 MsG0480018848.01.T01:CDS 45.0%
TACTGATGAGAGGGTTGTGA+AGG + Chr4:10569848-10569867 MsG0480018848.01.T01:intron 45.0%
TGATGAAGTGGTGAAGGAGA+AGG + Chr4:10569913-10569932 MsG0480018848.01.T01:CDS 45.0%
TGGTGTAGCTAGTGATGAAG+TGG + Chr4:10569901-10569920 MsG0480018848.01.T01:CDS 45.0%
TTCACAACCCTCTCATCAGT+AGG - Chr4:10569849-10569868 None:intergenic 45.0%
!! AACATTGGAAGTGTCCAAGG+TGG - Chr4:10570013-10570032 None:intergenic 45.0%
!! TCACTAGCCTTAGTCACAAC+TGG - Chr4:10569747-10569766 None:intergenic 45.0%
ACCCTCTCATCAGTAGGCTT+AGG - Chr4:10569843-10569862 None:intergenic 50.0%
AGGAGAAGGTGGAGAAGTTG+AGG + Chr4:10569927-10569946 MsG0480018848.01.T01:CDS 50.0%
CACCTAAGCCTACTGATGAG+AGG + Chr4:10569838-10569857 MsG0480018848.01.T01:intron 50.0%
GACAGCACCAGTTGTGACTA+AGG + Chr4:10569737-10569756 MsG0480018848.01.T01:CDS 50.0%
GGAGAAGTTGAGGCTGAGTT+TGG + Chr4:10569937-10569956 MsG0480018848.01.T01:CDS 50.0%
GTGACTTCAGCTGCTACAGA+AGG - Chr4:10569561-10569580 None:intergenic 50.0%
TGAAGTGGTGAAGGAGAAGG+TGG + Chr4:10569916-10569935 MsG0480018848.01.T01:CDS 50.0%
TGGGTAGGTACAATCCACCT+TGG + Chr4:10569996-10570015 MsG0480018848.01.T01:CDS 50.0%
GAGAGGGTTGTGAAGGTGAG+AGG + Chr4:10569855-10569874 MsG0480018848.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 10569468 10570066 10569468 ID=MsG0480018848.01;Name=MsG0480018848.01
Chr4 mRNA 10569468 10570066 10569468 ID=MsG0480018848.01.T01;Parent=MsG0480018848.01;Name=MsG0480018848.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|166
Chr4 exon 10569468 10569771 10569468 ID=MsG0480018848.01.T01:exon:3042;Parent=MsG0480018848.01.T01
Chr4 exon 10569870 10570066 10569870 ID=MsG0480018848.01.T01:exon:3043;Parent=MsG0480018848.01.T01
Chr4 CDS 10569468 10569771 10569468 ID=MsG0480018848.01.T01:cds;Parent=MsG0480018848.01.T01
Chr4 CDS 10569870 10570066 10569870 ID=MsG0480018848.01.T01:cds;Parent=MsG0480018848.01.T01
Gene Sequence

>MsG0480018848.01.T01

ATGGGTATGGTATTTGGAAAAATTGGTGTTGAGACACCAAAATATGAAGTGACAAAAACCACACAAGACTATGAAATCAGAATATATGCACCTTCTGTAGCAGCTGAAGTCACATATGATCCATCACAGTTCAAAGGAAACAAAGATGGTGGCTTTATGGTTTTAGCAAACTATATTGGAGCATTAGGTAACCCTCAGAACACAAAACCTGAAAAGATTGCTATGACTGCACCAGTTATCACAAAGGGTTCTGCAGAGAAGATTGCTATGACAGCACCAGTTGTGACTAAGGCTAGTGAAGAAGGTGAGAGGAAATATGGAGTGGTGAAGTTTAGTGGTGTAGCTAGTGATGAAGTGGTGAAGGAGAAGGTGGAGAAGTTGAGGCTGAGTTTGGAGAAAGATGGTTTTAAGGTTATTGGGGATTTTTTGTTGGGTAGGTACAATCCACCTTGGACACTTCCAATGTTTAGGACTAATGAGGTTATGATCCCTATTGAATGA

Protein sequence

>MsG0480018848.01.T01

MGMVFGKIGVETPKYEVTKTTQDYEIRIYAPSVAAEVTYDPSQFKGNKDGGFMVLANYIGALGNPQNTKPEKIAMTAPVITKGSAEKIAMTAPVVTKASEEGERKYGVVKFSGVASDEVVKEKVEKLRLSLEKDGFKVIGDFLLGRYNPPWTLPMFRTNEVMIPIE*