AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008541


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008541 MtrunA17_Chr2g0303981 88.194 144 17 0 1 144 1 144 2.81e-92 269
MsaG008541 MtrunA17_Chr4g0059631 41.379 232 109 6 5 213 3 230 4.53e-50 164
MsaG008541 MtrunA17_Chr4g0022641 41.048 229 115 7 1 214 1 224 2.58e-42 147
MsaG008541 MtrunA17_Chr1g0212471 48.252 143 70 2 5 144 3 144 4.75e-41 139
MsaG008541 MtrunA17_Chr6g0449851 33.333 171 106 3 5 171 3 169 9.36e-25 99.8
MsaG008541 MtrunA17_Chr6g0457851 34.810 158 98 2 5 158 13 169 5.22e-24 98.2
MsaG008541 MtrunA17_Chr1g0212151 31.319 182 114 3 5 176 3 183 3.53e-23 95.9
MsaG008541 MtrunA17_Chr6g0449861 34.028 144 90 2 5 144 11 153 3.75e-21 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008541 AT5G55690.1 30.625 160 96 4 1 155 1 150 5.42e-12 64.3
MsaG008541 AT5G55690.2 30.625 160 96 4 1 155 1 150 5.42e-12 64.3

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAATCTCTTTGTGCACTA+TGG 0.300873 2:+36971976 None:intergenic
TGTGGATTTGGCTGATCTAA+TGG 0.360557 2:-36971632 MsaT008541.1:CDS
ATGATCTAGTGGCTGAATAA+TGG 0.364081 2:-36971561 None:intergenic
AATTTGCGAAGTTGTGGATT+TGG 0.394705 2:-36971644 MsaT008541.1:CDS
AAAGGATCATCAGAGCTATA+TGG 0.400445 2:+36971748 None:intergenic
CAATCATAGAAGCAAGAGAT+TGG 0.430450 2:-36972224 MsaT008541.1:CDS
GAATCTTGTGGCGTAGTCAT+TGG 0.433592 2:+36972121 None:intergenic
TGTTGATTAGCCCATTCCTT+AGG 0.442677 2:+36971604 None:intergenic
CCATGTTTCATTAACATGGA+TGG 0.445316 2:-36971929 MsaT008541.1:CDS
AGTTTATGATATAAGTGAAC+TGG 0.450570 2:-36971779 MsaT008541.1:CDS
AAACAAAATTTGCGAAGTTG+TGG 0.466478 2:-36971650 MsaT008541.1:CDS
TGAAGAACAAGTATCCATCT+TGG 0.469012 2:-36971955 MsaT008541.1:CDS
GGATCCATGTTTCATTAACA+TGG 0.484124 2:-36971933 MsaT008541.1:CDS
ACATGGTGAGTTTGTGGAGT+TGG 0.488907 2:-36971584 MsaT008541.1:CDS
GGCATTTACAATAGCAGTGA+AGG 0.489452 2:+36971892 None:intergenic
CATGTTTCATTAACATGGAT+GGG 0.492136 2:-36971928 MsaT008541.1:CDS
CTTGCTTCAAATGATCATCA+AGG 0.510589 2:+36971800 None:intergenic
GAAGAACAAGTATCCATCTT+GGG 0.512153 2:-36971954 MsaT008541.1:CDS
AATGGCTGAACCTAAGGAAT+GGG 0.512233 2:-36971614 MsaT008541.1:CDS
CCATCCATGTTAATGAAACA+TGG 0.517489 2:+36971929 None:intergenic
GTATCATCAAGTGGCTTCAA+AGG 0.522270 2:+36971730 None:intergenic
TAATCAACATGGTGAGTTTG+TGG 0.522669 2:-36971590 MsaT008541.1:CDS
TGATCTAATGGCTGAACCTA+AGG 0.524822 2:-36971620 MsaT008541.1:CDS
ATGAAACATGGATCCCAAGA+TGG 0.530046 2:+36971941 None:intergenic
TATGAGCAACAAATGATTGA+GGG 0.530352 2:-36972070 MsaT008541.1:CDS
ATATGAGCAACAAATGATTG+AGG 0.536989 2:-36972071 MsaT008541.1:CDS
TAATGGCTGAACCTAAGGAA+TGG 0.538546 2:-36971615 MsaT008541.1:CDS
GCTTGCTTGATTGTATATGA+TGG 0.565053 2:-36972160 MsaT008541.1:CDS
GTATATGATGGTGATGGTGA+TGG 0.575879 2:-36972148 MsaT008541.1:CDS
TGTGGAGTTGGATGATCTAG+TGG 0.592546 2:-36971572 MsaT008541.1:CDS
TTGCTTCAAATGATCATCAA+GGG 0.599459 2:+36971801 None:intergenic
ACATTCAAGATGAAAGAGCT+CGG 0.609572 2:-36972258 MsaT008541.1:CDS
TTGATTGTATATGATGGTGA+TGG 0.617734 2:-36972154 MsaT008541.1:CDS
CACAAGATTCGACAATTGTA+CGG 0.618314 2:-36972108 MsaT008541.1:CDS
TTGTTTGTTGATGAAACAGG+AGG 0.622055 2:+36971667 None:intergenic
CGTACAATTGTCGAATCTTG+TGG 0.622061 2:+36972109 None:intergenic
TCATTAATAGTATCATCAAG+TGG 0.648809 2:+36971721 None:intergenic
TGATACTATTAATGAGACTG+TGG 0.669610 2:-36971713 MsaT008541.1:CDS
AAGGAATGGGCTAATCAACA+TGG 0.685475 2:-36971601 MsaT008541.1:CDS
GTAGAAATGGGTCGTCCACG+TGG 0.690243 2:-36972298 None:intergenic
AGATTGAAAACTATGCACCA+AGG 0.736473 2:-36971868 MsaT008541.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 36971564 36972314 36971564 ID=MsaG008541
Chr2 mRNA 36971564 36972314 36971564 ID=MsaT008541.1;Parent=MsaG008541
Chr2 exon 36971564 36971831 36971564 ID=MsaT008541.1.exon2;Parent=MsaT008541.1
Chr2 CDS 36971564 36971831 36971564 ID=cds.MsaT008541.1;Parent=MsaT008541.1
Chr2 exon 36971869 36972314 36971869 ID=MsaT008541.1.exon1;Parent=MsaT008541.1
Chr2 CDS 36971869 36972314 36971869 ID=cds.MsaT008541.1;Parent=MsaT008541.1
Gene Sequence

>MsaT008541.1

ATGGGTCGTCCACGTGGAAAATTAACTTTGAAACACATTCAAGATGAAAGAGCTCGGAAATTAGCTTTCAATCATAGAAGCAAGAGATTGGCAAAAAGAGTTTCTGAATTTTCTAACAAGTTTGGAGTTGAAGCTTGCTTGATTGTATATGATGGTGATGGTGATGGTAGACCAATGACTACGCCACAAGATTCGACAATTGTACGGTCCATGCTTGAAAAATATGAGCAACAAATGATTGAGGGTACAACTACAAAGATCTTTGATGTGAAAGACTATTTTGCAAATAAGAAGAATAAGATTGAAGCTGAGATTTCCATAGTGCACAAAGAGATTGTGAAGAACAAGTATCCATCTTGGGATCCATGTTTCATTAACATGGATGGGAAGCAACTCAAAGCCTTCACTGCTATTGTAAATGCCAAGATTGAAAACTATGCACCAAGGCAGTATACCCTTGATGATCATTTGAAGCAAGTTTATGATATAAGTGAACTGGTTCAAATGCCATATAGCTCTGATGATCCTTTGAAGCCACTTGATGATACTATTAATGAGACTGTGGATTTCACTAATCATGTTAGTTTGCCTCCTGTTTCATCAACAAACAAAATTTGCGAAGTTGTGGATTTGGCTGATCTAATGGCTGAACCTAAGGAATGGGCTAATCAACATGGTGAGTTTGTGGAGTTGGATGATCTAGTGGCTGAATAA

Protein sequence

>MsaT008541.1

MGRPRGKLTLKHIQDERARKLAFNHRSKRLAKRVSEFSNKFGVEACLIVYDGDGDGRPMTTPQDSTIVRSMLEKYEQQMIEGTTTKIFDVKDYFANKKNKIEAEISIVHKEIVKNKYPSWDPCFINMDGKQLKAFTAIVNAKIENYAPRQYTLDDHLKQVYDISELVQMPYSSDDPLKPLDDTINETVDFTNHVSLPPVSSTNKICEVVDLADLMAEPKEWANQHGEFVELDDLVAE*