AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73273


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73273.t1 MTR_4g019080 98.016 252 5 0 1 252 99 350 0.0 508
MS.gene73273.t1 MTR_7g066210 49.057 265 99 9 6 252 106 352 1.46e-73 228
MS.gene73273.t1 MTR_7g011345 85.000 80 12 0 154 233 1 80 3.38e-42 139
MS.gene73273.t1 MTR_3g069910 34.270 178 106 3 70 243 166 336 2.12e-20 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73273.t1 AT5G01090 38.340 253 133 9 7 246 109 351 7.34e-45 154
MS.gene73273.t1 AT3G09190 34.711 242 141 9 1 229 97 334 5.13e-32 120
MS.gene73273.t1 AT3G09035 38.298 235 124 8 7 229 109 334 1.11e-30 116
MS.gene73273.t1 AT3G54080 28.977 176 116 4 69 239 163 334 3.74e-16 77.0
MS.gene73273.t1 AT3G53810 32.335 167 90 7 6 151 104 268 2.66e-11 63.5

Find 39 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAAGCTACTTTACAAATT+TGG 0.178240 4.1:-79137381 MS.gene73273:CDS
GTTCTTGCTGCAATGATATT+TGG 0.190612 4.1:-79137011 MS.gene73273:CDS
CTTTATTTGTGGACAATCTT+TGG 0.296212 4.1:-79136954 MS.gene73273:CDS
AATGGTGTTAAAAGTGTTAA+AGG 0.299364 4.1:-79137536 MS.gene73273:CDS
TGTTGAGTTTGGTGGTTATA+AGG 0.316166 4.1:-79137444 MS.gene73273:CDS
GTGGTGAAAAGTTGCATACT+TGG 0.363123 4.1:-79137349 MS.gene73273:CDS
CATTCACTGTGCTTTATTTG+TGG 0.378610 4.1:-79136965 MS.gene73273:CDS
GAAGGTATTAGTGTTGAGTT+TGG 0.387797 4.1:-79137455 MS.gene73273:CDS
GGTTGCATAGAACATCCTTC+TGG 0.388793 4.1:+79136909 None:intergenic
TTCAATATCAATGGAAAATG+AGG 0.394385 4.1:-79137585 None:intergenic
ATTCATGGAGCTTTGTTATG+AGG 0.423293 4.1:-79137157 MS.gene73273:CDS
TTCCTATACTCAACATCTAA+AGG 0.425116 4.1:+79136888 None:intergenic
AAGGAGGAAGAAATGTTTGT+TGG 0.425503 4.1:-79137215 MS.gene73273:CDS
TGACATATCTAATGTCTTGA+AGG 0.441160 4.1:-79137234 MS.gene73273:CDS
GCTGCAATGATATTTGGTAC+TGG 0.447642 4.1:-79137005 MS.gene73273:CDS
ATGATATTTGGTACTGGTTG+TGG 0.463600 4.1:-79136999 MS.gene73273:CDS
GTTGTAGATAATAAAACCAT+TGG 0.483802 4.1:-79136855 MS.gene73273:CDS
ACATGGAAATTCAAAGCCAT+TGG 0.487541 4.1:-79137279 MS.gene73273:CDS
TTGATTATGAAGCAAGTTCA+AGG 0.491101 4.1:-79137325 MS.gene73273:CDS
AACCTTTAGATGTTGAGTAT+AGG 0.496316 4.1:-79136890 MS.gene73273:CDS
GGTTGTTAAACCAAAGGAAA+AGG 0.497433 4.1:-79137060 MS.gene73273:CDS
TGCCATAGCAATGGATCCAA+TGG 0.525534 4.1:+79137263 None:intergenic
GATAATAAAACCATTGGAGA+TGG 0.530127 4.1:-79136849 MS.gene73273:CDS
TTCAATGGTTGTTAAACCAA+AGG 0.530255 4.1:-79137066 MS.gene73273:CDS
CTACTTATTACCATCTCCAA+TGG 0.535555 4.1:+79136839 None:intergenic
GAGTTTGGTGGTTATAAGGA+TGG 0.543126 4.1:-79137440 MS.gene73273:CDS
GAAGTGAGGTTGAGTAAACA+TGG 0.554505 4.1:-79137296 MS.gene73273:CDS
GGTATTAGTGTTGAGTTTGG+TGG 0.561452 4.1:-79137452 MS.gene73273:CDS
TCAATATCAATGGAAAATGA+GGG 0.570391 4.1:-79137584 None:intergenic
ACAGAAACATTAGGATCAAG+TGG 0.578057 4.1:+79137104 None:intergenic
AGCCATTGGATCCATTGCTA+TGG 0.592130 4.1:-79137265 MS.gene73273:CDS
GTTCAAGGAGGTTAGAAGTG+AGG 0.608852 4.1:-79137310 MS.gene73273:CDS
CGTGGTGCAGTTGTTCCAGA+AGG 0.612769 4.1:-79136924 MS.gene73273:CDS
CATATCTAATGTCTTGAAGG+AGG 0.626720 4.1:-79137231 MS.gene73273:CDS
ATATCAATGGAAAATGAGGG+TGG 0.655031 4.1:-79137581 None:intergenic
GGCTCTGAATGCATTGAATG+TGG 0.679936 4.1:+79137125 None:intergenic
TCTGAATGCATTGAATGTGG+TGG 0.691560 4.1:+79137128 None:intergenic
ACAATCTTTGGCAATAAACG+TGG 0.699558 4.1:-79136942 MS.gene73273:CDS
ATTATGAAGCAAGTTCAAGG+AGG 0.716891 4.1:-79137322 MS.gene73273:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTGAAAAATAATGATTTTGA+AGG - chr4.1:79136941-79136960 MS.gene73273:CDS 15.0%
!!! TTTTTAATAAAAGTTCATCT+GGG - chr4.1:79136906-79136925 MS.gene73273:CDS 15.0%
!!! AATGAGATTTTGATTAGAAA+TGG - chr4.1:79137001-79137020 MS.gene73273:CDS 20.0%
!!! ATAATGTTTTTCTGTATTCA+TGG - chr4.1:79137242-79137261 MS.gene73273:CDS 20.0%
!!! GTTTTTAATAAAAGTTCATC+TGG - chr4.1:79136905-79136924 MS.gene73273:CDS 20.0%
! GTTGTAGATAATAAAACCAT+TGG - chr4.1:79137559-79137578 MS.gene73273:CDS 25.0%
! TAAAAAGAGTGAAACTTCAA+TGG - chr4.1:79137333-79137352 MS.gene73273:CDS 25.0%
!! CTCTTTTTAACAGAAACATT+AGG + chr4.1:79137322-79137341 None:intergenic 25.0%
!! TGAAAGCTACTTTACAAATT+TGG - chr4.1:79137033-79137052 MS.gene73273:CDS 25.0%
!! TTAACACTTTTAACACCATT+TGG + chr4.1:79136878-79136897 None:intergenic 25.0%
!!! AATGGTGTTAAAAGTGTTAA+AGG - chr4.1:79136878-79136897 MS.gene73273:CDS 25.0%
AACCTTTAGATGTTGAGTAT+AGG - chr4.1:79137524-79137543 MS.gene73273:CDS 30.0%
ACAAATTTGGCACTAAAAAG+TGG - chr4.1:79137046-79137065 MS.gene73273:CDS 30.0%
GATAATAAAACCATTGGAGA+TGG - chr4.1:79137565-79137584 MS.gene73273:CDS 30.0%
TGACATATCTAATGTCTTGA+AGG - chr4.1:79137180-79137199 MS.gene73273:CDS 30.0%
TTCAATGGTTGTTAAACCAA+AGG - chr4.1:79137348-79137367 MS.gene73273:CDS 30.0%
TTCCTATACTCAACATCTAA+AGG + chr4.1:79137529-79137548 None:intergenic 30.0%
TTGATTATGAAGCAAGTTCA+AGG - chr4.1:79137089-79137108 MS.gene73273:CDS 30.0%
! CTTTATTTGTGGACAATCTT+TGG - chr4.1:79137460-79137479 MS.gene73273:CDS 30.0%
!! GCTTTTGTTATGATTCCAAA+TGG - chr4.1:79136860-79136879 MS.gene73273:CDS 30.0%
!!! GTTGGTTTTAGTCATGTAAA+GGG - chr4.1:79137217-79137236 MS.gene73273:CDS 30.0%
!!! TGTTGGTTTTAGTCATGTAA+AGG - chr4.1:79137216-79137235 MS.gene73273:CDS 30.0%
AAGGAGGAAGAAATGTTTGT+TGG - chr4.1:79137199-79137218 MS.gene73273:CDS 35.0%
ACAATCTTTGGCAATAAACG+TGG - chr4.1:79137472-79137491 MS.gene73273:CDS 35.0%
ACAGAAACATTAGGATCAAG+TGG + chr4.1:79137313-79137332 None:intergenic 35.0%
ACATGGAAATTCAAAGCCAT+TGG - chr4.1:79137135-79137154 MS.gene73273:CDS 35.0%
ATTATGAAGCAAGTTCAAGG+AGG - chr4.1:79137092-79137111 MS.gene73273:CDS 35.0%
CATATCTAATGTCTTGAAGG+AGG - chr4.1:79137183-79137202 MS.gene73273:CDS 35.0%
CTACTTATTACCATCTCCAA+TGG + chr4.1:79137578-79137597 None:intergenic 35.0%
GGTTGTTAAACCAAAGGAAA+AGG - chr4.1:79137354-79137373 MS.gene73273:CDS 35.0%
GTTCTTGCTGCAATGATATT+TGG - chr4.1:79137403-79137422 MS.gene73273:CDS 35.0%
! TCAATTTTGTGCCATAGCAA+TGG + chr4.1:79137163-79137182 None:intergenic 35.0%
! TGTTGAGTTTGGTGGTTATA+AGG - chr4.1:79136970-79136989 MS.gene73273:CDS 35.0%
! TTCTTCTTTGCCTTTTCCTT+TGG + chr4.1:79137367-79137386 None:intergenic 35.0%
!! ATGATATTTGGTACTGGTTG+TGG - chr4.1:79137415-79137434 MS.gene73273:CDS 35.0%
!! ATTCATGGAGCTTTGTTATG+AGG - chr4.1:79137257-79137276 MS.gene73273:CDS 35.0%
!! CATTCACTGTGCTTTATTTG+TGG - chr4.1:79137449-79137468 MS.gene73273:CDS 35.0%
!! GAAGGTATTAGTGTTGAGTT+TGG - chr4.1:79136959-79136978 MS.gene73273:CDS 35.0%
GAAGTGAGGTTGAGTAAACA+TGG - chr4.1:79137118-79137137 MS.gene73273:CDS 40.0%
GCTGCAATGATATTTGGTAC+TGG - chr4.1:79137409-79137428 MS.gene73273:CDS 40.0%
GTGGTGAAAAGTTGCATACT+TGG - chr4.1:79137065-79137084 MS.gene73273:CDS 40.0%
TCTGAATGCATTGAATGTGG+TGG + chr4.1:79137289-79137308 None:intergenic 40.0%
! AGTTCATCTGGGTTTTCTCT+TGG - chr4.1:79136917-79136936 MS.gene73273:CDS 40.0%
! GAGTTTGGTGGTTATAAGGA+TGG - chr4.1:79136974-79136993 MS.gene73273:CDS 40.0%
! GGTATTAGTGTTGAGTTTGG+TGG - chr4.1:79136962-79136981 MS.gene73273:CDS 40.0%
AGCCATTGGATCCATTGCTA+TGG - chr4.1:79137149-79137168 MS.gene73273:CDS 45.0%
GGTTGCATAGAACATCCTTC+TGG + chr4.1:79137508-79137527 None:intergenic 45.0%
GTTCAAGGAGGTTAGAAGTG+AGG - chr4.1:79137104-79137123 MS.gene73273:CDS 45.0%
TGCCATAGCAATGGATCCAA+TGG + chr4.1:79137154-79137173 None:intergenic 45.0%
!! GGCTCTGAATGCATTGAATG+TGG + chr4.1:79137292-79137311 None:intergenic 45.0%
CGTGGTGCAGTTGTTCCAGA+AGG - chr4.1:79137490-79137509 MS.gene73273:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 79136839 79137597 79136839 ID=MS.gene73273
chr4.1 mRNA 79136839 79137597 79136839 ID=MS.gene73273.t1;Parent=MS.gene73273
chr4.1 exon 79136839 79137597 79136839 ID=MS.gene73273.t1.exon1;Parent=MS.gene73273.t1
chr4.1 CDS 79136839 79137597 79136839 ID=cds.MS.gene73273.t1;Parent=MS.gene73273.t1
Gene Sequence

>MS.gene73273

ATGGAAAATGAGGGTGGTTTAGCTTTTGTTATGATTCCAAATGGTGTTAAAAGTGTTAAAGGTGATGTTTTTAATAAAAGTTCATCTGGGTTTTCTCTTGGATTGAAAAATAATGATTTTGAAGGTATTAGTGTTGAGTTTGGTGGTTATAAGGATGGTAAAAATGAGATTTTGATTAGAAATGGTGTTTCAAGTGAAAGCTACTTTACAAATTTGGCACTAAAAAGTGGTGAAAAGTTGCATACTTGGATTGATTATGAAGCAAGTTCAAGGAGGTTAGAAGTGAGGTTGAGTAAACATGGAAATTCAAAGCCATTGGATCCATTGCTATGGCACAAAATTGACATATCTAATGTCTTGAAGGAGGAAGAAATGTTTGTTGGTTTTAGTCATGTAAAGGGTAATAATGTTTTTCTGTATTCATGGAGCTTTGTTATGAGGAATTTTCCACCACATTCAATGCATTCAGAGCCACTTGATCCTAATGTTTCTGTTAAAAAGAGTGAAACTTCAATGGTTGTTAAACCAAAGGAAAAGGCAAAGAAGAATGATTGTGTTTTAAGAGTTCTTGCTGCAATGATATTTGGTACTGGTTGTGGAGCATTGACAGCATTCACTGTGCTTTATTTGTGGACAATCTTTGGCAATAAACGTGGTGCAGTTGTTCCAGAAGGATGTTCTATGCAACCTTTAGATGTTGAGTATAGGAAAGTTAAAATTGTTGTAGATAATAAAACCATTGGAGATGGTAATAAGTAG

Protein sequence

>MS.gene73273.t1

MENEGGLAFVMIPNGVKSVKGDVFNKSSSGFSLGLKNNDFEGISVEFGGYKDGKNEILIRNGVSSESYFTNLALKSGEKLHTWIDYEASSRRLEVRLSKHGNSKPLDPLLWHKIDISNVLKEEEMFVGFSHVKGNNVFLYSWSFVMRNFPPHSMHSEPLDPNVSVKKSETSMVVKPKEKAKKNDCVLRVLAAMIFGTGCGALTAFTVLYLWTIFGNKRGAVVPEGCSMQPLDVEYRKVKIVVDNKTIGDGNK