AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene50048

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50048.t1 MTR_4g069220 91.346 104 9 0 1 104 1 104 2.59e-68 200
MS.gene50048.t1 MTR_4g069170 74.038 104 27 0 1 104 1 104 1.05e-53 163
MS.gene50048.t1 MTR_4g069200 56.190 105 44 2 1 104 1 104 3.39e-38 124
MS.gene50048.t1 MTR_4g069210 43.810 105 51 2 1 105 1 97 2.45e-22 86.7
MS.gene50048.t1 MTR_7g052640 41.748 103 57 1 2 104 5 104 6.54e-21 80.5
MS.gene50048.t1 MTR_5g094210 33.654 104 60 4 2 104 7 102 1.21e-11 56.6
MS.gene50048.t1 MTR_3g055250 36.667 90 49 3 7 96 4 85 2.08e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50048.t1 AT5G48485 41.558 77 42 1 28 104 29 102 2.27e-14 63.5
MS.gene50048.t1 AT5G48490 36.634 101 60 2 5 104 4 101 3.56e-14 63.2

Find 29 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAGGGTTGCTTTCTTTCTA+TGG 0.215569 4.2:-37420573 MS.gene50048:CDS
CTATGTCGTTATAAGGATTC+AGG 0.249484 4.2:-37420591 MS.gene50048:CDS
TCCTGTTAACTGTAAGCTTA+TGG 0.254280 4.2:-37420523 MS.gene50048:CDS
TCAATGCCTATGTCGTTATA+AGG 0.293667 4.2:-37420598 MS.gene50048:CDS
AATACCATGATGTTGGTTAA+TGG 0.374528 4.2:-37420747 MS.gene50048:CDS
AGTGGTGACAATTCTGTTAA+TGG 0.378651 4.2:-37420669 MS.gene50048:CDS
TCCATAAGCTTACAGTTAAC+AGG 0.382556 4.2:+37420522 None:intergenic
GGAAGTTCCATGGCTTGGTT+AGG 0.427875 4.2:+37420543 None:intergenic
ATTAACCAACATCATGGTAT+TGG 0.470830 4.2:+37420749 None:intergenic
TAGGCATTGAAGATCAGCTT+TGG 0.482864 4.2:+37420611 None:intergenic
TAACAGGAAGTTCCATGGCT+TGG 0.486774 4.2:+37420538 None:intergenic
TATGATTGTGGCGATGTTGT+TGG 0.507427 4.2:-37420778 MS.gene50048:CDS
GCCATCTGATGCTTGCTGCT+CGG 0.514604 4.2:-37420640 MS.gene50048:CDS
TATGTCGTTATAAGGATTCA+GGG 0.530226 4.2:-37420590 MS.gene50048:CDS
CTGAATCCTTATAACGACAT+AGG 0.550946 4.2:+37420592 None:intergenic
AGAGATGGAGGCATACAAGC+AGG 0.551353 4.2:-37420802 None:intergenic
ACAGTTAACAGGAAGTTCCA+TGG 0.568806 4.2:+37420533 None:intergenic
CTGACCATTAACCAACATCA+TGG 0.570185 4.2:+37420743 None:intergenic
GCCGAGCAGCAAGCATCAGA+TGG 0.582470 4.2:+37420639 None:intergenic
CATGACAAAACAAGGACTGA+AGG 0.588836 4.2:-37420709 MS.gene50048:CDS
GAATTGTCACCACTCACATA+CGG 0.589033 4.2:+37420678 None:intergenic
ATACAAGCAGGTTATGATTG+TGG 0.602790 4.2:-37420790 MS.gene50048:CDS
CAACATCATGGTATTGGCAA+TGG 0.605291 4.2:+37420755 None:intergenic
CATTGCCAATACCATGATGT+TGG 0.609484 4.2:-37420754 MS.gene50048:CDS
TTATGTCACATGACAAAACA+AGG 0.627195 4.2:-37420717 MS.gene50048:CDS
TATTGATCCTAACCAAGCCA+TGG 0.632800 4.2:-37420550 MS.gene50048:CDS
AACCACATGACTAGTAGCAG+TGG 0.639755 4.2:+37420493 None:intergenic
ACATGACTAGTAGCAGTGGA+AGG 0.673463 4.2:+37420497 None:intergenic
GCATGCGAGCCGTATGTGAG+TGG 0.699980 4.2:-37420687 MS.gene50048:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTAACCAACATCATGGTAT+TGG + chr4.2:37420555-37420574 None:intergenic 30.0%
TATGTCGTTATAAGGATTCA+GGG - chr4.2:37420711-37420730 MS.gene50048:CDS 30.0%
TTATGTCACATGACAAAACA+AGG - chr4.2:37420584-37420603 MS.gene50048:CDS 30.0%
! AATACCATGATGTTGGTTAA+TGG - chr4.2:37420554-37420573 MS.gene50048:CDS 30.0%
AGTGGTGACAATTCTGTTAA+TGG - chr4.2:37420632-37420651 MS.gene50048:CDS 35.0%
ATACAAGCAGGTTATGATTG+TGG - chr4.2:37420511-37420530 MS.gene50048:CDS 35.0%
CTATGTCGTTATAAGGATTC+AGG - chr4.2:37420710-37420729 MS.gene50048:CDS 35.0%
CTGAATCCTTATAACGACAT+AGG + chr4.2:37420712-37420731 None:intergenic 35.0%
TCAATGCCTATGTCGTTATA+AGG - chr4.2:37420703-37420722 MS.gene50048:CDS 35.0%
TCCATAAGCTTACAGTTAAC+AGG + chr4.2:37420782-37420801 None:intergenic 35.0%
TCCTGTTAACTGTAAGCTTA+TGG - chr4.2:37420778-37420797 MS.gene50048:CDS 35.0%
ACAGTTAACAGGAAGTTCCA+TGG + chr4.2:37420771-37420790 None:intergenic 40.0%
CATGACAAAACAAGGACTGA+AGG - chr4.2:37420592-37420611 MS.gene50048:CDS 40.0%
CATTGCCAATACCATGATGT+TGG - chr4.2:37420547-37420566 MS.gene50048:CDS 40.0%
CTGACCATTAACCAACATCA+TGG + chr4.2:37420561-37420580 None:intergenic 40.0%
GAATTGTCACCACTCACATA+CGG + chr4.2:37420626-37420645 None:intergenic 40.0%
TATGATTGTGGCGATGTTGT+TGG - chr4.2:37420523-37420542 MS.gene50048:CDS 40.0%
TATTGATCCTAACCAAGCCA+TGG - chr4.2:37420751-37420770 MS.gene50048:CDS 40.0%
! TCAGGGTTGCTTTCTTTCTA+TGG - chr4.2:37420728-37420747 MS.gene50048:CDS 40.0%
!! CAACATCATGGTATTGGCAA+TGG + chr4.2:37420549-37420568 None:intergenic 40.0%
!! TAGGCATTGAAGATCAGCTT+TGG + chr4.2:37420693-37420712 None:intergenic 40.0%
TAACAGGAAGTTCCATGGCT+TGG + chr4.2:37420766-37420785 None:intergenic 45.0%
!! GGAAGTTCCATGGCTTGGTT+AGG + chr4.2:37420761-37420780 None:intergenic 50.0%
! GCCATCTGATGCTTGCTGCT+CGG - chr4.2:37420661-37420680 MS.gene50048:CDS 55.0%
GCATGCGAGCCGTATGTGAG+TGG - chr4.2:37420614-37420633 MS.gene50048:CDS 60.0%
GCCGAGCAGCAAGCATCAGA+TGG + chr4.2:37420665-37420684 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 37420503 37420820 37420503 ID=MS.gene50048
chr4.2 mRNA 37420503 37420820 37420503 ID=MS.gene50048.t1;Parent=MS.gene50048
chr4.2 exon 37420503 37420820 37420503 ID=MS.gene50048.t1.exon1;Parent=MS.gene50048.t1
chr4.2 CDS 37420503 37420820 37420503 ID=cds.MS.gene50048.t1;Parent=MS.gene50048.t1
Gene Sequence

>MS.gene50048

ATGGAGGCATACAAGCAGGTTATGATTGTGGCGATGTTGTTGGCCATTGCCAATACCATGATGTTGGTTAATGGTCAGTCGTTATGTCACATGACAAAACAAGGACTGAAGGCATGCGAGCCGTATGTGAGTGGTGACAATTCTGTTAATGGTCAAAAGCCATCTGATGCTTGCTGCTCGGCTATTGCCAAAGCTGATCTTCAATGCCTATGTCGTTATAAGGATTCAGGGTTGCTTTCTTTCTATGGTATTGATCCTAACCAAGCCATGGAACTTCCTGTTAACTGTAAGCTTATGGACTCCTTCCACTGCTACTAG
Protein sequence

>MS.gene50048.t1

MEAYKQVMIVAMLLAIANTMMLVNGQSLCHMTKQGLKACEPYVSGDNSVNGQKPSDACCSAIAKADLQCLCRYKDSGLLSFYGIDPNQAMELPVNCKLMDSFHCY