AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31294

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31294.t1 MTR_2g094210 92.086 139 9 2 1 138 1 138 2.80e-89 255
MS.gene31294.t1 MTR_4g059310 55.752 113 43 3 17 127 19 126 1.22e-36 122
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31294.t1 AT2G28410 42.202 109 56 3 7 110 9 115 7.01e-22 84.3
MS.gene31294.t1 AT5G60650 31.884 138 81 4 7 133 10 145 1.06e-12 61.6

Find 26 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGAAAATGCTTCAGGATTT+TGG 0.150554 2.4:-8095805 None:intergenic
GGCATTGTTGGAATTATCTT+TGG 0.299173 2.4:+8096001 MS.gene31294:CDS
AGACAAAGGTAGGAAACATT+TGG 0.333054 2.4:+8095970 MS.gene31294:CDS
TTGGGAGCTGGTGGCATTGT+TGG 0.397431 2.4:+8095989 MS.gene31294:CDS
TTGAACACTATTATTAGCTT+TGG 0.406861 2.4:-8096098 None:intergenic
TGAGTAGCTTCTACAGCTAA+AGG 0.425538 2.4:-8095920 None:intergenic
GCTGATGGTGAAAATGCTTC+AGG 0.426528 2.4:-8095812 None:intergenic
GACAAAGGTAGGAAACATTT+GGG 0.431572 2.4:+8095971 MS.gene31294:CDS
AGCTTTGGCTCTAATCATGT+TGG 0.475963 2.4:-8096083 None:intergenic
AGCTTCTACAGCTAAAGGTA+AGG 0.481895 2.4:-8095915 None:intergenic
AAAGGCAAGGTACATCAAAC+AGG 0.497433 2.4:-8096124 None:intergenic
GTGGAAAATTAGACAAAGGT+AGG 0.516928 2.4:+8095960 MS.gene31294:CDS
CTTTGGTGTTGCATTTGTTG+TGG 0.527586 2.4:+8096018 MS.gene31294:CDS
GGTAGGAAACATTTGGGAGC+TGG 0.541255 2.4:+8095977 MS.gene31294:CDS
CAAATTCATGAAAGCAAAGG+TGG 0.545860 2.4:+8095941 MS.gene31294:CDS
CATCCCAATTCTCAAAAGCA+TGG 0.558982 2.4:+8095848 MS.gene31294:CDS
GCTTCTACAGCTAAAGGTAA+GGG 0.562499 2.4:-8095914 None:intergenic
TCTCAAGAAAGAGCACCTCA+TGG 0.585347 2.4:+8095773 MS.gene31294:CDS
ACTCAAATTCATGAAAGCAA+AGG 0.598332 2.4:+8095938 MS.gene31294:CDS
TCTAACATGATACACACTCA+TGG 0.618148 2.4:-8096047 None:intergenic
TAGTGACAAATGATAGAGAG+AGG 0.624658 2.4:-8095742 None:intergenic
TGAAAGAATTCATATGCTGA+TGG 0.627715 2.4:-8095827 None:intergenic
AGGAAACATTTGGGAGCTGG+TGG 0.627993 2.4:+8095980 MS.gene31294:CDS
TGACAAATGATAGAGAGAGG+AGG 0.630940 2.4:-8095739 None:intergenic
AAAGGTGGAAAATTAGACAA+AGG 0.635337 2.4:+8095956 MS.gene31294:CDS
GGCAAGGTACATCAAACAGG+TGG 0.689975 2.4:-8096121 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGAACACTATTATTAGCTT+TGG - chr2.4:8096101-8096120 None:intergenic 25.0%
AAAGGTGGAAAATTAGACAA+AGG + chr2.4:8095956-8095975 MS.gene31294:CDS 30.0%
ACTCAAATTCATGAAAGCAA+AGG + chr2.4:8095938-8095957 MS.gene31294:CDS 30.0%
TGAAAGAATTCATATGCTGA+TGG - chr2.4:8095830-8095849 None:intergenic 30.0%
!! ATTACCATGCTTTTGAGAAT+TGG - chr2.4:8095855-8095874 None:intergenic 30.0%
!! TTACCATGCTTTTGAGAATT+GGG - chr2.4:8095854-8095873 None:intergenic 30.0%
AGACAAAGGTAGGAAACATT+TGG + chr2.4:8095970-8095989 MS.gene31294:CDS 35.0%
CAAATTCATGAAAGCAAAGG+TGG + chr2.4:8095941-8095960 MS.gene31294:CDS 35.0%
GACAAAGGTAGGAAACATTT+GGG + chr2.4:8095971-8095990 MS.gene31294:CDS 35.0%
GGCATTGTTGGAATTATCTT+TGG + chr2.4:8096001-8096020 MS.gene31294:CDS 35.0%
GTGGAAAATTAGACAAAGGT+AGG + chr2.4:8095960-8095979 MS.gene31294:CDS 35.0%
TAGTGACAAATGATAGAGAG+AGG - chr2.4:8095745-8095764 None:intergenic 35.0%
TCTAACATGATACACACTCA+TGG - chr2.4:8096050-8096069 None:intergenic 35.0%
! GTGAAAATGCTTCAGGATTT+TGG - chr2.4:8095808-8095827 None:intergenic 35.0%
!! GAACATTTTGATGTAGTGCA+TGG - chr2.4:8095893-8095912 None:intergenic 35.0%
!! TTTTGGTTAACAAGTCCATG+AGG - chr2.4:8095791-8095810 None:intergenic 35.0%
AGCTTCTACAGCTAAAGGTA+AGG - chr2.4:8095918-8095937 None:intergenic 40.0%
CATCCCAATTCTCAAAAGCA+TGG + chr2.4:8095848-8095867 MS.gene31294:CDS 40.0%
GCTTCTACAGCTAAAGGTAA+GGG - chr2.4:8095917-8095936 None:intergenic 40.0%
TGACAAATGATAGAGAGAGG+AGG - chr2.4:8095742-8095761 None:intergenic 40.0%
TGAGTAGCTTCTACAGCTAA+AGG - chr2.4:8095923-8095942 None:intergenic 40.0%
!! AGCTTTGGCTCTAATCATGT+TGG - chr2.4:8096086-8096105 None:intergenic 40.0%
!! CTTTGGTGTTGCATTTGTTG+TGG + chr2.4:8096018-8096037 MS.gene31294:CDS 40.0%
! GCTGATGGTGAAAATGCTTC+AGG - chr2.4:8095815-8095834 None:intergenic 45.0%
!! TCTCAAGAAAGAGCACCTCA+TGG + chr2.4:8095773-8095792 MS.gene31294:CDS 45.0%
AGGAAACATTTGGGAGCTGG+TGG + chr2.4:8095980-8095999 MS.gene31294:CDS 50.0%
GGTAGGAAACATTTGGGAGC+TGG + chr2.4:8095977-8095996 MS.gene31294:CDS 50.0%
TTGGGAGCTGGTGGCATTGT+TGG + chr2.4:8095989-8096008 MS.gene31294:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 8095716 8096132 8095716 ID=MS.gene31294
chr2.4 mRNA 8095716 8096132 8095716 ID=MS.gene31294.t1;Parent=MS.gene31294
chr2.4 exon 8095716 8096132 8095716 ID=MS.gene31294.t1.exon1;Parent=MS.gene31294.t1
chr2.4 CDS 8095716 8096132 8095716 ID=cds.MS.gene31294.t1;Parent=MS.gene31294.t1
Gene Sequence

>MS.gene31294

ATGATCAATCACATTGGTTTCTTCCTCCTCTCTCTATCATTTGTCACTATTGTTACATCTCAAGAAAGAGCACCTCATGGACTTGTTAACCAAAATCCTGAAGCATTTTCACCATCAGCATATGAATTCTTTCATCCCAATTCTCAAAAGCATGGTAATGACAAAAAAGATGATCCATGCACTACATCAAAATGTTCACCCTTACCTTTAGCTGTAGAAGCTACTCAAATTCATGAAAGCAAAGGTGGAAAATTAGACAAAGGTAGGAAACATTTGGGAGCTGGTGGCATTGTTGGAATTATCTTTGGTGTTGCATTTGTTGTGGTTTTAGCCATGAGTGTGTATCATGTTAGAGTCACACGTAAAGCCAACATGATTAGAGCCAAAGCTAATAATAGTGTTCAACCACCTGTTTGA
Protein sequence

>MS.gene31294.t1

MINHIGFFLLSLSFVTIVTSQERAPHGLVNQNPEAFSPSAYEFFHPNSQKHGNDKKDDPCTTSKCSPLPLAVEATQIHESKGGKLDKGRKHLGAGGIVGIIFGVAFVVVLAMSVYHVRVTRKANMIRAKANNSVQPPV