AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene98099

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98099.t1 MTR_7g028890 88.636 220 25 0 1 220 1 220 4.66e-142 395
MS.gene98099.t1 MTR_7g022250 74.059 239 43 2 1 220 1 239 2.51e-124 352
MS.gene98099.t1 MTR_7g028915 71.368 234 31 2 1 220 1 212 1.33e-111 318
MS.gene98099.t1 MTR_7g022270 58.791 182 53 4 20 200 1 161 4.84e-69 209
MS.gene98099.t1 MTR_4g128340 30.714 140 78 4 83 220 47 169 1.12e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 38 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAAATGGAGAAATTTCTT+TGG 0.293893 7.2:-71062579 None:intergenic
CTTAAGGGTCAAATCAATAT+TGG 0.328703 7.2:-71063035 None:intergenic
CTCCTTCCTCTTGTTGCACA+TGG 0.338528 7.2:-71062399 None:intergenic
TATATATAAATCAAAGCTTA+AGG 0.356106 7.2:-71063051 None:intergenic
GGGTGTGGATATCAATATAA+TGG 0.359691 7.2:+71062785 MS.gene98099:CDS
TGGTGCATTGCAACATATTC+CGG 0.362580 7.2:+71062865 MS.gene98099:CDS
CACCATCACTCCATTTCATA+TGG 0.364608 7.2:+71062763 MS.gene98099:CDS
AACAATATGATTCAACATGC+AGG 0.449556 7.2:+71062812 MS.gene98099:CDS
TATCCACACCCCATATGAAA+TGG 0.452870 7.2:-71062773 None:intergenic
AGTAGACAATTTGAAGATGA+TGG 0.466141 7.2:+71062439 MS.gene98099:CDS
TTCACTAGTCCACAGGCATT+AGG 0.474635 7.2:+71062674 MS.gene98099:CDS
TTGGATTCATTGTTGATCAC+AGG 0.479894 7.2:+71062606 MS.gene98099:CDS
TGAAGTTGGTAAAGTTTCAG+AGG 0.484639 7.2:+71062952 MS.gene98099:CDS
ACTATGTCAAAGATTGAAGT+TGG 0.488225 7.2:+71062938 MS.gene98099:CDS
ACCATCACTCCATTTCATAT+GGG 0.489513 7.2:+71062764 MS.gene98099:CDS
TGGTGTTTAGACTTATCCCT+TGG 0.491881 7.2:-71062745 None:intergenic
TGTTAGTGATGAAGTTGATC+AGG 0.506770 7.2:+71062982 MS.gene98099:CDS
CAAGCGAAAGGCAATTGTGC+TGG 0.510108 7.2:+71062481 MS.gene98099:CDS
GAAGTTGGTAAAGTTTCAGA+GGG 0.513957 7.2:+71062953 MS.gene98099:CDS
ATATATAAATCAAAGCTTAA+GGG 0.520066 7.2:-71063050 None:intergenic
ACTCCATTTCATATGGGGTG+TGG 0.533278 7.2:+71062770 MS.gene98099:CDS
TCATTCGTTTCATCTATCTC+CGG 0.537068 7.2:-71062884 None:intergenic
CAGAAAGTTCACTAGTCCAC+AGG 0.575345 7.2:+71062667 MS.gene98099:CDS
ACAATATGATTCAACATGCA+GGG 0.581032 7.2:+71062813 MS.gene98099:CDS
CTGATGCCATGTGCAACAAG+AGG 0.598560 7.2:+71062393 None:intergenic
TAGAATTCTGAGTTTCAACA+TGG 0.602831 7.2:-71062511 None:intergenic
TGCCATGTGCAACAAGAGGA+AGG 0.602996 7.2:+71062397 None:intergenic
GGAGATAGATGAAACGAATG+AGG 0.622863 7.2:+71062886 MS.gene98099:CDS
GTTGGTAAAGTTTCAGAGGG+AGG 0.624522 7.2:+71062956 MS.gene98099:CDS
CCATCACTCCATTTCATATG+GGG 0.630153 7.2:+71062765 MS.gene98099:CDS
GGAAGACAAAGAGACTCAAG+AGG 0.634668 7.2:+71063003 MS.gene98099:CDS
GTGCAACAAGAGGAAGGAGA+AGG 0.635140 7.2:+71062403 MS.gene98099:CDS
CCCCATATGAAATGGAGTGA+TGG 0.640487 7.2:-71062765 None:intergenic
GAACAATGAGAACAAGCGAA+AGG 0.645636 7.2:+71062469 MS.gene98099:CDS
ACTAGTCCACAGGCATTAGG+TGG 0.661075 7.2:+71062677 MS.gene98099:CDS
TGATGACCACCTAATGCCTG+TGG 0.664402 7.2:-71062683 None:intergenic
AGAATTCTGAGTTTCAACAT+GGG 0.673130 7.2:-71062510 None:intergenic
AGACAAAGAGACTCAAGAGG+AGG 0.673262 7.2:+71063006 MS.gene98099:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGAAATGGAGAAATTTCTT+TGG - chr7.2:71062582-71062601 None:intergenic 25.0%
! ATGAATCCAAAAAGAAGAAA+TGG - chr7.2:71062596-71062615 None:intergenic 25.0%
!! ATTTCTCCATTTCTTCTTTT+TGG + chr7.2:71062587-71062606 MS.gene98099:CDS 25.0%
!! TTTTATGCAGGAAATTTGTA+TGG + chr7.2:71062845-71062864 MS.gene98099:CDS 25.0%
AACAATATGATTCAACATGC+AGG + chr7.2:71062812-71062831 MS.gene98099:CDS 30.0%
ACAATATGATTCAACATGCA+GGG + chr7.2:71062813-71062832 MS.gene98099:CDS 30.0%
ACTATGTCAAAGATTGAAGT+TGG + chr7.2:71062938-71062957 MS.gene98099:CDS 30.0%
AGAATTCTGAGTTTCAACAT+GGG - chr7.2:71062513-71062532 None:intergenic 30.0%
AGTAGACAATTTGAAGATGA+TGG + chr7.2:71062439-71062458 MS.gene98099:CDS 30.0%
AGTCTCAATAAAAAGATCCA+AGG + chr7.2:71062728-71062747 MS.gene98099:CDS 30.0%
CTTAAGGGTCAAATCAATAT+TGG - chr7.2:71063038-71063057 None:intergenic 30.0%
GTCTCAATAAAAAGATCCAA+GGG + chr7.2:71062729-71062748 MS.gene98099:CDS 30.0%
TAGAATTCTGAGTTTCAACA+TGG - chr7.2:71062514-71062533 None:intergenic 30.0%
ACCATCACTCCATTTCATAT+GGG + chr7.2:71062764-71062783 MS.gene98099:CDS 35.0%
GGGTGTGGATATCAATATAA+TGG + chr7.2:71062785-71062804 MS.gene98099:CDS 35.0%
TCATTCGTTTCATCTATCTC+CGG - chr7.2:71062887-71062906 None:intergenic 35.0%
TTGGATTCATTGTTGATCAC+AGG + chr7.2:71062606-71062625 MS.gene98099:CDS 35.0%
! CTTCTTCAGCAACATCTTTT+TGG - chr7.2:71062544-71062563 None:intergenic 35.0%
! TGTTAGTGATGAAGTTGATC+AGG + chr7.2:71062982-71063001 MS.gene98099:CDS 35.0%
!! GAAGTTGGTAAAGTTTCAGA+GGG + chr7.2:71062953-71062972 MS.gene98099:CDS 35.0%
!! TGAAGTTGGTAAAGTTTCAG+AGG + chr7.2:71062952-71062971 MS.gene98099:CDS 35.0%
CACCATCACTCCATTTCATA+TGG + chr7.2:71062763-71062782 MS.gene98099:CDS 40.0%
CCATCACTCCATTTCATATG+GGG + chr7.2:71062765-71062784 MS.gene98099:CDS 40.0%
GAACAATGAGAACAAGCGAA+AGG + chr7.2:71062469-71062488 MS.gene98099:CDS 40.0%
GGAGATAGATGAAACGAATG+AGG + chr7.2:71062886-71062905 MS.gene98099:CDS 40.0%
TATCCACACCCCATATGAAA+TGG - chr7.2:71062776-71062795 None:intergenic 40.0%
TGGTGCATTGCAACATATTC+CGG + chr7.2:71062865-71062884 MS.gene98099:CDS 40.0%
TGGTGTTTAGACTTATCCCT+TGG - chr7.2:71062748-71062767 None:intergenic 40.0%
! GGGTCATCAAACTTTTATGC+AGG + chr7.2:71062833-71062852 MS.gene98099:CDS 40.0%
ACTCCATTTCATATGGGGTG+TGG + chr7.2:71062770-71062789 MS.gene98099:CDS 45.0%
AGACAAAGAGACTCAAGAGG+AGG + chr7.2:71063006-71063025 MS.gene98099:CDS 45.0%
CAGAAAGTTCACTAGTCCAC+AGG + chr7.2:71062667-71062686 MS.gene98099:CDS 45.0%
CCCCATATGAAATGGAGTGA+TGG - chr7.2:71062768-71062787 None:intergenic 45.0%
GGAAGACAAAGAGACTCAAG+AGG + chr7.2:71063003-71063022 MS.gene98099:CDS 45.0%
TTCACTAGTCCACAGGCATT+AGG + chr7.2:71062674-71062693 MS.gene98099:CDS 45.0%
! GTTGGTAAAGTTTCAGAGGG+AGG + chr7.2:71062956-71062975 MS.gene98099:CDS 45.0%
ACTAGTCCACAGGCATTAGG+TGG + chr7.2:71062677-71062696 MS.gene98099:CDS 50.0%
CAAGCGAAAGGCAATTGTGC+TGG + chr7.2:71062481-71062500 MS.gene98099:CDS 50.0%
GTGCAACAAGAGGAAGGAGA+AGG + chr7.2:71062403-71062422 MS.gene98099:CDS 50.0%
TGATGACCACCTAATGCCTG+TGG - chr7.2:71062686-71062705 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 71062401 71063063 71062401 ID=MS.gene98099
chr7.2 mRNA 71062401 71063063 71062401 ID=MS.gene98099.t1;Parent=MS.gene98099
chr7.2 exon 71062401 71063063 71062401 ID=MS.gene98099.t1.exon1;Parent=MS.gene98099.t1
chr7.2 CDS 71062401 71063063 71062401 ID=cds.MS.gene98099.t1;Parent=MS.gene98099.t1
Gene Sequence

>MS.gene98099

ATGTGCAACAAGAGGAAGGAGAAGGTGAATGAAGAATCAGTAGACAATTTGAAGATGATGGAGAATCAGAACAATGAGAACAAGCGAAAGGCAATTGTGCTGGAAGAGTCCCATGTTGAAACTCAGAATTCTAAGACTCACCAAAAAGATGTTGCTGAAGAAGAATCAACTGATTCATCCAAAGAAATTTCTCCATTTCTTCTTTTTGGATTCATTGTTGATCACAGGAAAGCAATTAAAAATGCTTACTCATGCAAATTTTGTAGCAGAAAGTTCACTAGTCCACAGGCATTAGGTGGTCATCAAAGTTCTCACAAATTAGAGAGAAGTCTCAATAAAAAGATCCAAGGGATAAGTCTAAACACCATCACTCCATTTCATATGGGGTGTGGATATCAATATAATGGATTTAACAATATGATTCAACATGCAGGGTCATCAAACTTTTATGCAGGAAATTTGTATGGTGCATTGCAACATATTCCGGAGATAGATGAAACGAATGAGGCTGATCAAAGCATTATGAGTCAAAAAGTTACTATGTCAAAGATTGAAGTTGGTAAAGTTTCAGAGGGAGGTGCTGTTAGTGATGAAGTTGATCAGGAAGACAAAGAGACTCAAGAGGAGGAAGCATCCAATATTGATTTGACCCTTAAGCTTTGA
Protein sequence

>MS.gene98099.t1

MCNKRKEKVNEESVDNLKMMENQNNENKRKAIVLEESHVETQNSKTHQKDVAEEESTDSSKEISPFLLFGFIVDHRKAIKNAYSCKFCSRKFTSPQALGGHQSSHKLERSLNKKIQGISLNTITPFHMGCGYQYNGFNNMIQHAGSSNFYAGNLYGALQHIPEIDETNEADQSIMSQKVTMSKIEVGKVSEGGAVSDEVDQEDKETQEEEASNIDLTLKL