AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031650.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031650.01.T01 MTR_6g027770 83.178 107 2 1 5 95 2 108 1.08e-58 177
MsG0680031650.01.T01 MTR_1g088700 46.087 115 45 3 4 101 1 115 2.64e-28 101
MsG0680031650.01.T01 MTR_7g108860 42.593 108 45 2 4 94 1 108 4.32e-23 89.0
MsG0680031650.01.T01 MTR_6g034550 40.833 120 52 3 4 104 1 120 6.46e-23 88.2
MsG0680031650.01.T01 MTR_7g108860 42.593 108 45 2 4 94 1 108 6.68e-23 88.6
MsG0680031650.01.T01 MTR_7g108860 42.593 108 45 2 4 94 1 108 7.13e-23 89.0
MsG0680031650.01.T01 MTR_8g058597 42.593 108 45 2 4 94 1 108 7.13e-23 89.0
MsG0680031650.01.T01 MTR_7g108860 42.453 106 44 2 6 94 11 116 4.52e-22 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031650.01.T01 AT3G03773 67.826 115 22 1 5 104 2 116 1.20e-50 156
MsG0680031650.01.T01 AT3G03773 67.857 112 21 1 4 100 1 112 2.69e-49 154
MsG0680031650.01.T01 AT3G03773 68.182 110 20 1 6 100 57 166 6.12e-48 152
MsG0680031650.01.T01 AT4G02450 39.474 114 51 4 4 100 1 113 3.43e-20 82.0
MsG0680031650.01.T01 AT4G02450 39.474 114 51 4 4 100 1 113 3.49e-20 82.0

Find 30 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTTACCTTCTCTGCTTCT+AGG 0.161269 6:+23968147 MsG0680031650.01.T01:CDS
CGCTGTGCCCAAAGAACTTC+TGG 0.233437 6:-23968050 None:intergenic
GTCGCCATCCAGAAGTTCTT+TGG 0.294098 6:+23968042 MsG0680031650.01.T01:CDS
TTCCAATCAACCTTCAGATA+TGG 0.330362 6:-23968762 None:intergenic
TGAAGGTTGATTGGAATAAA+TGG 0.332672 6:+23968769 MsG0680031650.01.T01:CDS
GTTCTTTGGGCACAGCGTTC+TGG 0.343604 6:+23968056 MsG0680031650.01.T01:CDS
TGAATCCTACAGCTTTAGTT+TGG 0.353119 6:+23968178 MsG0680031650.01.T01:CDS
AGCTTTAGTTTGGAACTTTA+CGG 0.353743 6:+23968188 MsG0680031650.01.T01:CDS
TTCTGTGAAGTGTGAGCCTC+AGG 0.376022 6:+23968121 MsG0680031650.01.T01:CDS
CACCATATCTGAAGGTTGAT+TGG 0.391987 6:+23968760 MsG0680031650.01.T01:CDS
TCGCCATCCAGAAGTTCTTT+GGG 0.423743 6:+23968043 MsG0680031650.01.T01:CDS
ACAGAAACATCCTTCGCATC+AGG 0.454722 6:-23968104 None:intergenic
GACAAAGAGGTTGGTGGAAA+AGG 0.458246 6:+23968712 MsG0680031650.01.T01:CDS
GTTTACCTTCTCTGCTTCTA+GGG 0.475165 6:+23968148 MsG0680031650.01.T01:CDS
TTGGGCACAGCGTTCTGGTA+AGG 0.480736 6:+23968061 MsG0680031650.01.T01:CDS
CATCAGGTAGAGCAATAGTC+AGG 0.537305 6:-23968088 None:intergenic
AGAGTCGGAATGTAAGCTTT+CGG 0.547773 6:+23968806 MsG0680031650.01.T01:CDS
TTCAGAAAGGACAAAGAGGT+TGG 0.555066 6:+23968703 MsG0680031650.01.T01:intron
TCAACCTTCAGATATGGTGC+AGG 0.564692 6:-23968756 None:intergenic
AGAAAGGACAAAGAGGTTGG+TGG 0.573743 6:+23968706 MsG0680031650.01.T01:intron
AAGTTCCAAACTAAAGCTGT+AGG 0.584831 6:-23968183 None:intergenic
TTGAACCCTAGAAGCAGAGA+AGG 0.586114 6:-23968153 None:intergenic
GTGCGATGAAGATGAAGAGT+CGG 0.593113 6:+23968791 MsG0680031650.01.T01:CDS
GAAACCTGCACCATATCTGA+AGG 0.624988 6:+23968752 MsG0680031650.01.T01:CDS
TCTGTGAAGTGTGAGCCTCA+GGG 0.627276 6:+23968122 MsG0680031650.01.T01:CDS
GTGCCCAAAGAACTTCTGGA+TGG 0.634058 6:-23968046 None:intergenic
TATTGCTCTACCTGATGCGA+AGG 0.648988 6:+23968094 MsG0680031650.01.T01:CDS
TTACGGAACAATTCAACCTG+AGG 0.658885 6:+23968205 MsG0680031650.01.T01:CDS
TCAATTCAGAAAGGACAAAG+AGG 0.665759 6:+23968699 MsG0680031650.01.T01:intron
GAGAAGGTAAACAAACCCTG+AGG 0.771648 6:-23968137 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAAAACAATTTGTGAAG+TGG - Chr6:23968570-23968589 None:intergenic 20.0%
!!! ACGTAATATAAAGGTTTTAA+AGG + Chr6:23968322-23968341 MsG0680031650.01.T01:intron 20.0%
! AATTGTGGTACGTAATATAA+AGG + Chr6:23968313-23968332 MsG0680031650.01.T01:intron 25.0%
! TATATCCTACTTTCAAATTG+TGG + Chr6:23968298-23968317 MsG0680031650.01.T01:intron 25.0%
! TGTCTGAAAAATTGTCATTA+TGG + Chr6:23968630-23968649 MsG0680031650.01.T01:intron 25.0%
! TTGATTATGTACATACTTTG+TGG + Chr6:23968274-23968293 MsG0680031650.01.T01:intron 25.0%
!! AACCTTTTCAAAACATGATA+AGG - Chr6:23968601-23968620 None:intergenic 25.0%
!!! ATAATGACAATTTTTCAGAC+AGG - Chr6:23968631-23968650 None:intergenic 25.0%
!!! TGCATTTTTTCACATTATCA+AGG + Chr6:23968388-23968407 MsG0680031650.01.T01:intron 25.0%
!!! TTATCATGTTTTGAAAAGGT+TGG + Chr6:23968600-23968619 MsG0680031650.01.T01:intron 25.0%
!!! TTCCTTATCATGTTTTGAAA+AGG + Chr6:23968596-23968615 MsG0680031650.01.T01:intron 25.0%
AAATTGTCATTATGGTGTGT+AGG + Chr6:23968638-23968657 MsG0680031650.01.T01:intron 30.0%
AATTGTCATTATGGTGTGTA+GGG + Chr6:23968639-23968658 MsG0680031650.01.T01:intron 30.0%
ATATGCAATCCTTGATATTG+TGG - Chr6:23968531-23968550 None:intergenic 30.0%
CAATCAAGATGTAGTTAAAG+AGG - Chr6:23968348-23968367 None:intergenic 30.0%
TGAAAAAATGCAGACAAATG+TGG - Chr6:23968380-23968399 None:intergenic 30.0%
TGGAAAACTACAAACAAATG+CGG - Chr6:23968511-23968530 None:intergenic 30.0%
! TGAAGGTTGATTGGAATAAA+TGG + Chr6:23968769-23968788 MsG0680031650.01.T01:CDS 30.0%
! TGTAGTTTTCCACAATATCA+AGG + Chr6:23968519-23968538 MsG0680031650.01.T01:intron 30.0%
!! AGCTTTAGTTTGGAACTTTA+CGG + Chr6:23968188-23968207 MsG0680031650.01.T01:CDS 30.0%
AAATCGCAATGTGGTTATGA+AGG - Chr6:23968479-23968498 None:intergenic 35.0%
AAGTTCCAAACTAAAGCTGT+AGG - Chr6:23968186-23968205 None:intergenic 35.0%
ACGGACAACAATTGGTAAAA+TGG - Chr6:23968439-23968458 None:intergenic 35.0%
ACGTACCACAATTTGAAAGT+AGG - Chr6:23968306-23968325 None:intergenic 35.0%
ATACTGTGCTCAATTCAGAA+AGG + Chr6:23968690-23968709 MsG0680031650.01.T01:intron 35.0%
TAGGGCTGTAAAACTAAAAC+TGG + Chr6:23968657-23968676 MsG0680031650.01.T01:intron 35.0%
TCAATTCAGAAAGGACAAAG+AGG + Chr6:23968699-23968718 MsG0680031650.01.T01:intron 35.0%
TTCCAATCAACCTTCAGATA+TGG - Chr6:23968765-23968784 None:intergenic 35.0%
! GTGAGTGATCTTTTCTTTAG+TGG + Chr6:23968227-23968246 MsG0680031650.01.T01:intron 35.0%
! TGAATCCTACAGCTTTAGTT+TGG + Chr6:23968178-23968197 MsG0680031650.01.T01:CDS 35.0%
!!! CATGTTTTGAAAAGGTTGGA+TGG + Chr6:23968604-23968623 MsG0680031650.01.T01:intron 35.0%
AAGAAAAGATCACTCACCTC+AGG - Chr6:23968224-23968243 None:intergenic 40.0%
AGAGTCGGAATGTAAGCTTT+CGG + Chr6:23968806-23968825 MsG0680031650.01.T01:CDS 40.0%
CCACAATTGAAATCGCAATG+TGG - Chr6:23968488-23968507 None:intergenic 40.0%
CCACATTGCGATTTCAATTG+TGG + Chr6:23968485-23968504 MsG0680031650.01.T01:intron 40.0%
CTACATCTTGATTGCAACTG+CGG + Chr6:23968354-23968373 MsG0680031650.01.T01:intron 40.0%
GGCTCAAAACTTTCAAAGCA+CGG - Chr6:23968458-23968477 None:intergenic 40.0%
GTTTACCTTCTCTGCTTCTA+GGG + Chr6:23968148-23968167 MsG0680031650.01.T01:CDS 40.0%
TGTTTACCTTCTCTGCTTCT+AGG + Chr6:23968147-23968166 MsG0680031650.01.T01:CDS 40.0%
TTACGGAACAATTCAACCTG+AGG + Chr6:23968205-23968224 MsG0680031650.01.T01:CDS 40.0%
TTCAAAGCACGGACAACAAT+TGG - Chr6:23968447-23968466 None:intergenic 40.0%
TTCAGAAAGGACAAAGAGGT+TGG + Chr6:23968703-23968722 MsG0680031650.01.T01:intron 40.0%
! CACCATATCTGAAGGTTGAT+TGG + Chr6:23968760-23968779 MsG0680031650.01.T01:CDS 40.0%
ACAGAAACATCCTTCGCATC+AGG - Chr6:23968107-23968126 None:intergenic 45.0%
AGAAAGGACAAAGAGGTTGG+TGG + Chr6:23968706-23968725 MsG0680031650.01.T01:intron 45.0%
CATCAGGTAGAGCAATAGTC+AGG - Chr6:23968091-23968110 None:intergenic 45.0%
GAAACCTGCACCATATCTGA+AGG + Chr6:23968752-23968771 MsG0680031650.01.T01:CDS 45.0%
GAGAAGGTAAACAAACCCTG+AGG - Chr6:23968140-23968159 None:intergenic 45.0%
GTGCGATGAAGATGAAGAGT+CGG + Chr6:23968791-23968810 MsG0680031650.01.T01:CDS 45.0%
TATTGCTCTACCTGATGCGA+AGG + Chr6:23968094-23968113 MsG0680031650.01.T01:CDS 45.0%
TCAACCTTCAGATATGGTGC+AGG - Chr6:23968759-23968778 None:intergenic 45.0%
TCGCCATCCAGAAGTTCTTT+GGG + Chr6:23968043-23968062 MsG0680031650.01.T01:CDS 45.0%
TTGAACCCTAGAAGCAGAGA+AGG - Chr6:23968156-23968175 None:intergenic 45.0%
!! GACAAAGAGGTTGGTGGAAA+AGG + Chr6:23968712-23968731 MsG0680031650.01.T01:CDS 45.0%
GTCGCCATCCAGAAGTTCTT+TGG + Chr6:23968042-23968061 MsG0680031650.01.T01:CDS 50.0%
GTGCCCAAAGAACTTCTGGA+TGG - Chr6:23968049-23968068 None:intergenic 50.0%
TCTGTGAAGTGTGAGCCTCA+GGG + Chr6:23968122-23968141 MsG0680031650.01.T01:CDS 50.0%
TTCTGTGAAGTGTGAGCCTC+AGG + Chr6:23968121-23968140 MsG0680031650.01.T01:CDS 50.0%
CGCTGTGCCCAAAGAACTTC+TGG - Chr6:23968053-23968072 None:intergenic 55.0%
GTTCTTTGGGCACAGCGTTC+TGG + Chr6:23968056-23968075 MsG0680031650.01.T01:CDS 55.0%
TTGGGCACAGCGTTCTGGTA+AGG + Chr6:23968061-23968080 MsG0680031650.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 23968029 23968836 23968029 ID=MsG0680031650.01;Name=MsG0680031650.01
Chr6 mRNA 23968029 23968836 23968029 ID=MsG0680031650.01.T01;Parent=MsG0680031650.01;Name=MsG0680031650.01.T01;_AED=0.47;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|108
Chr6 exon 23968029 23968226 23968029 ID=MsG0680031650.01.T01:exon:14874;Parent=MsG0680031650.01.T01
Chr6 exon 23968708 23968836 23968708 ID=MsG0680031650.01.T01:exon:14875;Parent=MsG0680031650.01.T01
Chr6 CDS 23968029 23968226 23968029 ID=MsG0680031650.01.T01:cds;Parent=MsG0680031650.01.T01
Chr6 CDS 23968708 23968836 23968708 ID=MsG0680031650.01.T01:cds;Parent=MsG0680031650.01.T01
Gene Sequence

>MsG0680031650.01.T01

TTGTGTATATGTAGTCGCCATCCAGAAGTTCTTTGGGCACAGCGTTCTGGTAAGGTTTACCTGACTATTGCTCTACCTGATGCGAAGGATGTTTCTGTGAAGTGTGAGCCTCAGGGTTTGTTTACCTTCTCTGCTTCTAGGGTTCAACATGAATCCTACAGCTTTAGTTTGGAACTTTACGGAACAATTCAACCTGAGAAAGGACAAAGAGGTTGGTGGAAAAGGTTACTGAAGTCTGAAGAGAAACCTGCACCATATCTGAAGGTTGATTGGAATAAATGGTGCGATGAAGATGAAGAGTCGGAATGTAAGCTTTCGGAACCATAA

Protein sequence

>MsG0680031650.01.T01

LCICSRHPEVLWAQRSGKVYLTIALPDAKDVSVKCEPQGLFTFSASRVQHESYSFSLELYGTIQPEKGQRGWWKRLLKSEEKPAPYLKVDWNKWCDEDEESECKLSEP*