AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052133


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052133.t1 MTR_2g096610 98.361 61 1 0 1 61 1 61 1.42e-36 119
MS.gene052133.t1 MTR_2g096570 95.161 62 2 1 1 61 1 62 8.38e-34 112
MS.gene052133.t1 MTR_8g086640 93.651 63 2 2 1 61 1 63 4.78e-32 108
MS.gene052133.t1 MTR_4g071150 93.651 63 2 2 1 61 1 63 8.53e-32 107
MS.gene052133.t1 MTR_4g063280 94.545 55 2 1 8 61 3 57 1.99e-28 98.6
MS.gene052133.t1 MTR_7g113160 81.132 53 10 0 9 61 13 65 8.78e-26 92.0
MS.gene052133.t1 MTR_4g063410 82.540 63 9 1 1 61 1 63 2.36e-21 80.9
MS.gene052133.t1 MTR_4g064005 82.540 63 9 1 1 61 1 63 2.49e-21 80.9
MS.gene052133.t1 MTR_4g064967 95.000 40 2 0 22 61 24 63 8.04e-21 79.3
MS.gene052133.t1 MTR_7g093910 63.333 60 20 1 2 61 4 61 8.00e-19 74.3
MS.gene052133.t1 MTR_2g082510 73.333 45 12 0 17 61 11 55 7.85e-18 71.2
MS.gene052133.t1 MTR_7g114050 58.621 58 24 0 4 61 3 60 1.10e-17 70.9
MS.gene052133.t1 MTR_2g082220 76.190 42 10 0 20 61 14 55 1.73e-17 70.5
MS.gene052133.t1 MTR_7g108320 65.000 60 16 3 3 61 6 61 2.49e-17 70.5
MS.gene052133.t1 MTR_7g114060 61.667 60 19 2 3 61 2 58 5.53e-17 69.3
MS.gene052133.t1 MTR_7g114040 61.667 60 19 2 3 61 2 58 5.53e-17 69.3
MS.gene052133.t1 MTR_6g005150 66.667 39 13 0 22 60 26 64 3.80e-16 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052133.t1 AT5G27670 76.271 59 14 0 3 61 6 64 4.01e-25 90.5
MS.gene052133.t1 AT5G02560 74.603 63 14 1 1 61 1 63 6.57e-22 82.4
MS.gene052133.t1 AT5G59870 65.079 63 20 1 1 61 1 63 7.76e-22 82.0
MS.gene052133.t1 AT5G02560 74.603 63 14 1 1 61 1 63 1.02e-21 82.4
MS.gene052133.t1 AT1G51060 77.778 45 10 0 17 61 11 55 4.72e-19 74.7
MS.gene052133.t1 AT5G54640 76.190 42 10 0 20 61 14 55 2.11e-17 70.5
MS.gene052133.t1 AT4G27230 71.111 45 13 0 17 61 11 55 2.89e-17 70.1
MS.gene052133.t1 AT4G27230 71.111 45 13 0 17 61 11 55 2.89e-17 70.1
MS.gene052133.t1 AT1G08880 62.712 59 18 2 7 61 3 61 3.34e-17 70.1
MS.gene052133.t1 AT1G54690 64.286 56 16 2 10 61 6 61 5.56e-17 69.7
MS.gene052133.t1 AT3G20670 71.111 45 13 0 17 61 11 55 7.61e-17 68.9

Find 22 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGTCACCGCCTTCTTCCT+TGG 0.286829 2.3:+6070578 None:intergenic
ACCAGCTCCTTTCTTCGTCT+TGG 0.348361 2.3:+6070616 None:intergenic
CAATTTCCAGTTGGAAGAAT+CGG 0.397925 2.3:-6070536 MS.gene052133:CDS
AGAACAGCTGCAAGATAAAC+AGG 0.409350 2.3:+6070464 None:intergenic
TACCGACCGATTCTTCCAAC+TGG 0.449917 2.3:+6070530 None:intergenic
TACGCTCAGCGTGTTGGTAC+TGG 0.452334 2.3:-6070491 MS.gene052133:CDS
TGGAAATTGAAGACCAGCTC+TGG 0.468882 2.3:+6070550 None:intergenic
AAAGGAGCTGGTGGAAGGAA+AGG 0.477487 2.3:-6070605 MS.gene052133:CDS
GCAAGCACCAAGACGAAGAA+AGG 0.482883 2.3:-6070623 MS.gene052133:CDS
ATCGGTCGGTACTTGAAGAA+AGG 0.536042 2.3:-6070518 MS.gene052133:CDS
GAAAGGTGGTCCAAGGAAGA+AGG 0.553269 2.3:-6070588 MS.gene052133:CDS
CGAAGAAAGGAGCTGGTGGA+AGG 0.557443 2.3:-6070610 MS.gene052133:CDS
AAATTGAAGACCAGCTCTGG+TGG 0.562253 2.3:+6070553 None:intergenic
GTGACAAGATCCACCAGAGC+TGG 0.571539 2.3:-6070563 MS.gene052133:CDS
ACCAAGACGAAGAAAGGAGC+TGG 0.579581 2.3:-6070617 MS.gene052133:CDS
GGAAGATACGCTCAGCGTGT+TGG 0.585684 2.3:-6070497 MS.gene052133:CDS
GCTGGTCTTCAATTTCCAGT+TGG 0.598252 2.3:-6070545 MS.gene052133:CDS
GTGGAAGGAAAGGTGGTCCA+AGG 0.602831 2.3:-6070595 MS.gene052133:CDS
TTCCAGTTGGAAGAATCGGT+CGG 0.638316 2.3:-6070532 MS.gene052133:CDS
GGAGCTGGTGGAAGGAAAGG+TGG 0.644393 2.3:-6070602 MS.gene052133:CDS
AAGACGAAGAAAGGAGCTGG+TGG 0.662071 2.3:-6070614 MS.gene052133:CDS
AGGTGGTCCAAGGAAGAAGG+CGG 0.714301 2.3:-6070585 MS.gene052133:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAATTTCCAGTTGGAAGAAT+CGG - chr2.3:6070562-6070581 MS.gene052133:CDS 35.0%
ATCGGTCGGTACTTGAAGAA+AGG - chr2.3:6070580-6070599 MS.gene052133:CDS 45.0%
TGGAAATTGAAGACCAGCTC+TGG + chr2.3:6070551-6070570 None:intergenic 45.0%
TTCCAGTTGGAAGAATCGGT+CGG - chr2.3:6070566-6070585 MS.gene052133:CDS 45.0%
! AAATTGAAGACCAGCTCTGG+TGG + chr2.3:6070548-6070567 None:intergenic 45.0%
!! GCTGGTCTTCAATTTCCAGT+TGG - chr2.3:6070553-6070572 MS.gene052133:CDS 45.0%
AAAGGAGCTGGTGGAAGGAA+AGG - chr2.3:6070493-6070512 MS.gene052133:CDS 50.0%
AAGACGAAGAAAGGAGCTGG+TGG - chr2.3:6070484-6070503 MS.gene052133:CDS 50.0%
ACCAAGACGAAGAAAGGAGC+TGG - chr2.3:6070481-6070500 MS.gene052133:CDS 50.0%
ACCAGCTCCTTTCTTCGTCT+TGG + chr2.3:6070485-6070504 None:intergenic 50.0%
GAAAGGTGGTCCAAGGAAGA+AGG - chr2.3:6070510-6070529 MS.gene052133:CDS 50.0%
GCAAGCACCAAGACGAAGAA+AGG - chr2.3:6070475-6070494 MS.gene052133:CDS 50.0%
! TACCGACCGATTCTTCCAAC+TGG + chr2.3:6070571-6070590 None:intergenic 50.0%
AGGTGGTCCAAGGAAGAAGG+CGG - chr2.3:6070513-6070532 MS.gene052133:CDS 55.0%
CGAAGAAAGGAGCTGGTGGA+AGG - chr2.3:6070488-6070507 MS.gene052133:CDS 55.0%
CTTGTCACCGCCTTCTTCCT+TGG + chr2.3:6070523-6070542 None:intergenic 55.0%
GGAAGATACGCTCAGCGTGT+TGG - chr2.3:6070601-6070620 MS.gene052133:CDS 55.0%
GTGACAAGATCCACCAGAGC+TGG - chr2.3:6070535-6070554 MS.gene052133:CDS 55.0%
GTGGAAGGAAAGGTGGTCCA+AGG - chr2.3:6070503-6070522 MS.gene052133:CDS 55.0%
! TACGCTCAGCGTGTTGGTAC+TGG - chr2.3:6070607-6070626 MS.gene052133:CDS 55.0%
GGAGCTGGTGGAAGGAAAGG+TGG - chr2.3:6070496-6070515 MS.gene052133:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 6070469 6070651 6070469 ID=MS.gene052133
chr2.3 mRNA 6070469 6070651 6070469 ID=MS.gene052133.t1;Parent=MS.gene052133
chr2.3 exon 6070469 6070651 6070469 ID=MS.gene052133.t1.exon1;Parent=MS.gene052133.t1
chr2.3 CDS 6070469 6070651 6070469 ID=cds.MS.gene052133.t1;Parent=MS.gene052133.t1
Gene Sequence

>MS.gene052133

ATGGACGCAAGCACCAAGACGAAGAAAGGAGCTGGTGGAAGGAAAGGTGGTCCAAGGAAGAAGGCGGTGACAAGATCCACCAGAGCTGGTCTTCAATTTCCAGTTGGAAGAATCGGTCGGTACTTGAAGAAAGGAAGATACGCTCAGCGTGTTGGTACTGGTGCTCCTGTTTATCTTGCAGCT

Protein sequence

>MS.gene052133.t1

MDASTKTKKGAGGRKGGPRKKAVTRSTRAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAA