AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880042207.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880042207.01.T01 MTR_8g012320 92.553 94 7 0 6 99 597 690 8.98e-51 172
MsG0880042207.01.T01 MTR_4g006010 55.789 95 40 2 6 99 594 687 4.42e-19 83.6
MsG0880042207.01.T01 MTR_3g109040 54.639 97 39 4 6 98 579 674 4.37e-18 80.9
MsG0880042207.01.T01 MTR_3g109040 54.639 97 39 4 6 98 568 663 4.89e-18 80.5
MsG0880042207.01.T01 MTR_6g007807 54.737 95 42 1 6 99 560 654 2.15e-15 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880042207.01.T01 AT3G07330 69.149 94 28 1 6 99 578 670 7.69e-33 122
MsG0880042207.01.T01 AT3G07330 69.149 94 28 1 6 99 578 670 7.69e-33 122
MsG0880042207.01.T01 AT4G07960 47.872 94 45 1 6 99 598 687 2.72e-15 72.8
MsG0880042207.01.T01 AT4G07960 47.872 94 45 1 6 99 598 687 2.72e-15 72.8
MsG0880042207.01.T01 AT2G24630 51.546 97 42 3 6 99 584 678 2.50e-14 70.1
MsG0880042207.01.T01 AT2G24630 51.546 97 42 3 6 99 584 678 2.50e-14 70.1
MsG0880042207.01.T01 AT3G28180 44.643 112 38 3 6 99 556 661 1.36e-12 65.1

Find 28 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACACTGATTTGCTGTAAAT+TGG 0.221211 8:-5384630 None:intergenic
CATAGATCTTCCTCAGATTC+AGG 0.261105 8:+5384254 MsG0880042207.01.T01:CDS
TAAGATGTTCTCAGTGGTTT+TGG 0.282366 8:+5384604 MsG0880042207.01.T01:CDS
AAACTTACCCCTTGAAATAT+AGG 0.333358 8:-5384427 None:intergenic
TATGTTCCAAGATAGGTTTA+AGG 0.358919 8:-5384568 None:intergenic
AAATAAGTATGTTCCAAGAT+AGG 0.371858 8:-5384575 None:intergenic
CTTCTACTTCCTATATTTCA+AGG 0.388597 8:+5384418 MsG0880042207.01.T01:CDS
AGACTATTAGATCGCATTAG+AGG 0.393143 8:-5384230 None:intergenic
AAGCAACAGTAGTGCAAATT+CGG 0.394752 8:-5384664 None:intergenic
GCCAAACCTTAAACCTATCT+TGG 0.394889 8:+5384562 MsG0880042207.01.T01:CDS
ATTAGATCGCATTAGAGGTT+CGG 0.426256 8:-5384225 None:intergenic
TCCAAGATAGGTTTAAGGTT+TGG 0.433090 8:-5384563 None:intergenic
CCTCATTGATTCATGATAAA+CGG 0.441399 8:+5384531 MsG0880042207.01.T01:CDS
AAGGTCATCAGAGACAGATT+TGG 0.442220 8:+5384184 MsG0880042207.01.T01:CDS
AAAACCACTGAGAACATCTT+AGG 0.484602 8:-5384602 None:intergenic
AGATTTGGTTGCCTATGAAA+AGG 0.488795 8:+5384199 MsG0880042207.01.T01:CDS
TTCTACTTCCTATATTTCAA+GGG 0.498014 8:+5384419 MsG0880042207.01.T01:CDS
AGCAAATCAGTGTTGCTGCT+TGG 0.500549 8:+5384639 MsG0880042207.01.T01:CDS
AGAAGCTTACTTTCTGCTCA+AGG 0.508396 8:+5384389 MsG0880042207.01.T01:CDS
CTCTTCAATACCTGAATCTG+AGG 0.585854 8:-5384264 None:intergenic
AACTTATAAAGCATATGACT+TGG 0.590845 8:-5384720 None:intergenic
TCTACTTCCTATATTTCAAG+GGG 0.613030 8:+5384420 MsG0880042207.01.T01:CDS
CCGTTTATCATGAATCAATG+AGG 0.640950 8:-5384531 None:intergenic
TTGGAAGTTCTACGAATGGG+TGG 0.653972 8:+5384143 None:intergenic
TGAGCCTAAGATGTTCTCAG+TGG 0.656236 8:+5384598 MsG0880042207.01.T01:CDS
AGAAAGTAAGCTTCTAACCG+AGG 0.657953 8:-5384381 None:intergenic
TTCATGATAAACGGTCACAG+TGG 0.742556 8:+5384540 MsG0880042207.01.T01:CDS
ATGACTTGGCAACAACAACG+AGG 0.769623 8:-5384706 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAATAAGTATGTTCCAAGAT+AGG - Chr8:5384578-5384597 None:intergenic 25.0%
! TTCTACTTCCTATATTTCAA+GGG + Chr8:5384419-5384438 MsG0880042207.01.T01:CDS 25.0%
!!! ATTTATTTTGTTAACTGCCT+CGG + Chr8:5384364-5384383 MsG0880042207.01.T01:CDS 25.0%
AAACTTACCCCTTGAAATAT+AGG - Chr8:5384430-5384449 None:intergenic 30.0%
CTTCTACTTCCTATATTTCA+AGG + Chr8:5384418-5384437 MsG0880042207.01.T01:CDS 30.0%
GTACAAAACAAAAACTAGGA+AGG + Chr8:5384165-5384184 MsG0880042207.01.T01:CDS 30.0%
TATGTTCCAAGATAGGTTTA+AGG - Chr8:5384571-5384590 None:intergenic 30.0%
TCTACTTCCTATATTTCAAG+GGG + Chr8:5384420-5384439 MsG0880042207.01.T01:CDS 30.0%
!! AACACTGATTTGCTGTAAAT+TGG - Chr8:5384633-5384652 None:intergenic 30.0%
!! CCTCATTGATTCATGATAAA+CGG + Chr8:5384531-5384550 MsG0880042207.01.T01:CDS 30.0%
AAAACCACTGAGAACATCTT+AGG - Chr8:5384605-5384624 None:intergenic 35.0%
AAGCAACAGTAGTGCAAATT+CGG - Chr8:5384667-5384686 None:intergenic 35.0%
AGACTATTAGATCGCATTAG+AGG - Chr8:5384233-5384252 None:intergenic 35.0%
ATTAGATCGCATTAGAGGTT+CGG - Chr8:5384228-5384247 None:intergenic 35.0%
CCGTTTATCATGAATCAATG+AGG - Chr8:5384534-5384553 None:intergenic 35.0%
GGTGGTACAAAACAAAAACT+AGG + Chr8:5384161-5384180 MsG0880042207.01.T01:CDS 35.0%
TGAATCAATGAGGATCTGAA+AGG - Chr8:5384524-5384543 None:intergenic 35.0%
! AGATTTGGTTGCCTATGAAA+AGG + Chr8:5384199-5384218 MsG0880042207.01.T01:CDS 35.0%
! GTTTTGCATCCACTAAAAGT+TGG - Chr8:5384499-5384518 None:intergenic 35.0%
! TAAGATGTTCTCAGTGGTTT+TGG + Chr8:5384604-5384623 MsG0880042207.01.T01:CDS 35.0%
! TCCAAGATAGGTTTAAGGTT+TGG - Chr8:5384566-5384585 None:intergenic 35.0%
!! AGACGATTTTTCTTGGTCTT+TGG - Chr8:5384320-5384339 None:intergenic 35.0%
!! GTTGTTGGTCTTGATTTGAT+TGG + Chr8:5384454-5384473 MsG0880042207.01.T01:intron 35.0%
AAGGTCATCAGAGACAGATT+TGG + Chr8:5384184-5384203 MsG0880042207.01.T01:CDS 40.0%
AGAAAGTAAGCTTCTAACCG+AGG - Chr8:5384384-5384403 None:intergenic 40.0%
AGAAGCTTACTTTCTGCTCA+AGG + Chr8:5384389-5384408 MsG0880042207.01.T01:CDS 40.0%
ATCAATGAGGATCTGAAAGG+AGG - Chr8:5384521-5384540 None:intergenic 40.0%
CATAGATCTTCCTCAGATTC+AGG + Chr8:5384254-5384273 MsG0880042207.01.T01:CDS 40.0%
CCAAGAAAAATCGTCTCTAC+AGG + Chr8:5384324-5384343 MsG0880042207.01.T01:CDS 40.0%
CTCTTCAATACCTGAATCTG+AGG - Chr8:5384267-5384286 None:intergenic 40.0%
GCCAAACCTTAAACCTATCT+TGG + Chr8:5384562-5384581 MsG0880042207.01.T01:CDS 40.0%
TTCATGATAAACGGTCACAG+TGG + Chr8:5384540-5384559 MsG0880042207.01.T01:CDS 40.0%
! AGGTTCGGATTCCTTTTCAT+AGG - Chr8:5384213-5384232 None:intergenic 40.0%
! AGTTGAGCTCCAACTTTTAG+TGG + Chr8:5384487-5384506 MsG0880042207.01.T01:intron 40.0%
! CCTGTAGAGACGATTTTTCT+TGG - Chr8:5384327-5384346 None:intergenic 40.0%
! TCTTGATTTGATTGGAGAGC+AGG + Chr8:5384462-5384481 MsG0880042207.01.T01:intron 40.0%
!! GGGGTAAGTTTTCTTGTTGT+TGG + Chr8:5384439-5384458 MsG0880042207.01.T01:intron 40.0%
TGAGCCTAAGATGTTCTCAG+TGG + Chr8:5384598-5384617 MsG0880042207.01.T01:CDS 45.0%
! AGCAAATCAGTGTTGCTGCT+TGG + Chr8:5384639-5384658 MsG0880042207.01.T01:CDS 45.0%
! ATGACTTGGCAACAACAACG+AGG - Chr8:5384709-5384728 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
Chr8 gene 5384158 5384739 5384158 ID=MsG0880042207.01;Name=MsG0880042207.01
Chr8 mRNA 5384158 5384739 5384158 ID=MsG0880042207.01.T01;Parent=MsG0880042207.01;Name=MsG0880042207.01.T01;_AED=0.46;_eAED=0.69;_QI=0|0|0|1|1|1|2|0|164
Chr8 exon 5384158 5384441 5384158 ID=MsG0880042207.01.T01:exon:893;Parent=MsG0880042207.01.T01
Chr8 exon 5384529 5384739 5384529 ID=MsG0880042207.01.T01:exon:894;Parent=MsG0880042207.01.T01
Chr8 CDS 5384158 5384441 5384158 ID=MsG0880042207.01.T01:cds;Parent=MsG0880042207.01.T01
Chr8 CDS 5384529 5384739 5384529 ID=MsG0880042207.01.T01:cds;Parent=MsG0880042207.01.T01
Gene Sequence

>MsG0880042207.01.T01

ATGGGTGGTACAAAACAAAAACTAGGAAGGTCATCAGAGACAGATTTGGTTGCCTATGAAAAGGAATCCGAACCTCTAATGCGATCTAATAGTCTTCATAGATCTTCCTCAGATTCAGGTATTGAAGAGCTAAGCAAACTAGAATTGTCAAAGATAGCTCCAAAGACCAAGAAAAATCGTCTCTACAGGAAAGAACTTGCTCTTGCATTTATTTTGTTAACTGCCTCGGTTAGAAGCTTACTTTCTGCTCAAGGAATTCACTTCTACTTCCTATATTTCAAGGGATCCTCATTGATTCATGATAAACGGTCACAGTGGCCAAACCTTAAACCTATCTTGGAACATACTTATTTTGAGCCTAAGATGTTCTCAGTGGTTTTGGCTACCAATTTACAGCAAATCAGTGTTGCTGCTTGGCACCGAATTTGCACTACTGTTGCTTTTTGTTGTAAAGACTACTGCCTCGTTGTTGTTGCCAAGTCATATGCTTTATAA

Protein sequence

>MsG0880042207.01.T01

MGGTKQKLGRSSETDLVAYEKESEPLMRSNSLHRSSSDSGIEELSKLELSKIAPKTKKNRLYRKELALAFILLTASVRSLLSAQGIHFYFLYFKGSSLIHDKRSQWPNLKPILEHTYFEPKMFSVVLATNLQQISVAAWHRICTTVAFCCKDYCLVVVAKSYAL*