AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85761

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85761.t1 MTR_1g049370 96.137 233 9 0 1 233 1 233 1.80e-170 469
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85761.t1 AT2G39020 67.568 222 69 2 12 232 15 234 1.03e-104 302
MS.gene85761.t1 AT2G39030 61.261 222 84 1 7 228 3 222 2.57e-100 291

Find 73 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGACTCACTGGGGAGAATT+TGG 0.144921 1.2:+32878555 MS.gene85761:CDS
TGGCGTGGGAGGGAGGTTTC+TGG 0.225083 1.2:-32877950 None:intergenic
GAGGTTTCTGGCATGGTTGA+TGG 0.307668 1.2:-32877938 None:intergenic
TGTTATAGAAGGAAAGGATT+TGG 0.322014 1.2:+32878388 MS.gene85761:CDS
GTTATAGAAGGAAAGGATTT+GGG 0.325583 1.2:+32878389 MS.gene85761:CDS
GGGGAGAATTTGGAGGCTTA+TGG 0.326367 1.2:+32878565 MS.gene85761:CDS
TGCGAAACAAGCTGTGAAAA+TGG 0.330688 1.2:+32878432 MS.gene85761:CDS
TTGGTGATGGGTTTGTAAAA+TGG 0.335941 1.2:-32878202 None:intergenic
AAACGGATGCGTGTGAAAAC+TGG 0.353255 1.2:-32877974 None:intergenic
TCTTTCTCTGGGTCATCGAT+TGG 0.358639 1.2:-32878244 None:intergenic
TTGAATGGGTTGTTCTTGAT+TGG 0.376314 1.2:+32878467 MS.gene85761:CDS
AAAATGGGTCGTTGTCGAAA+TGG 0.382151 1.2:-32878186 None:intergenic
CTTTCTCTGGGTCATCGATT+GGG 0.385676 1.2:-32878243 None:intergenic
GGAGGTTCTGTCGGTGGTGG+TGG 0.390585 1.2:-32877917 None:intergenic
GGCGGTGCTGCGGCGGCCAT+CGG 0.391150 1.2:-32877896 None:intergenic
CGTCGGAAGGGGTGGCTAAA+CGG 0.413589 1.2:-32877991 None:intergenic
TGGAGGCTTTGCAGACTCAC+TGG 0.419524 1.2:+32878544 MS.gene85761:CDS
GGAGAAGAGAGTGGAGGAGT+AGG 0.423379 1.2:-32878092 None:intergenic
TTGTGAGAGAGTGTTATAGA+AGG 0.433799 1.2:+32878377 MS.gene85761:CDS
GAGGATGGTGGTGGAATGGA+AGG 0.442348 1.2:-32878128 None:intergenic
GGTTCTGTCGGTGGTGGTGG+CGG 0.442536 1.2:-32877914 None:intergenic
CCATTTGATGCATTAGTTTG+TGG 0.444519 1.2:-32878024 None:intergenic
CAAGTTGATAACTTTGGTGA+TGG 0.446222 1.2:-32878215 None:intergenic
AAATGGGTCGTTGTCGAAAT+GGG 0.450614 1.2:-32878185 None:intergenic
TGGTGGTGGCGGTGCTGCGG+CGG 0.464382 1.2:-32877903 None:intergenic
TGGTGATGGGTTTGTAAAAT+GGG 0.465138 1.2:-32878201 None:intergenic
GCGAAACAAGCTGTGAAAAT+GGG 0.467825 1.2:+32878433 MS.gene85761:CDS
TGAAAACTGGGTGGCGTGGG+AGG 0.468784 1.2:-32877961 None:intergenic
GGATGAGGATGGTGGTGGAA+TGG 0.477208 1.2:-32878132 None:intergenic
CCACAAACTAATGCATCAAA+TGG 0.477989 1.2:+32878024 MS.gene85761:CDS
AGAGAGTGTTATAGAAGGAA+AGG 0.484459 1.2:+32878382 MS.gene85761:CDS
TGGATGTAGGGAACGTCGGA+AGG 0.497082 1.2:-32878004 None:intergenic
GAGATCCAAGTTGATAACTT+TGG 0.497094 1.2:-32878221 None:intergenic
TGGGGTATGGAAGAGTTGAA+TGG 0.498138 1.2:+32878452 MS.gene85761:CDS
GATGGAGGTTCTGTCGGTGG+TGG 0.500496 1.2:-32877920 None:intergenic
CGAAATGGGTATCGGTGAAA+GGG 0.509100 1.2:-32878171 None:intergenic
TGGGAGGGAGGTTTCTGGCA+TGG 0.510483 1.2:-32877945 None:intergenic
GGAGGCTTTGCAGACTCACT+GGG 0.510969 1.2:+32878545 MS.gene85761:CDS
TTTGAGAGACTTCAAGGATG+AGG 0.512897 1.2:-32878147 None:intergenic
GAAAACTGGGTGGCGTGGGA+GGG 0.513063 1.2:-32877960 None:intergenic
GGGGTATGGAAGAGTTGAAT+GGG 0.513899 1.2:+32878453 MS.gene85761:CDS
TCGAAATGGGTATCGGTGAA+AGG 0.517532 1.2:-32878172 None:intergenic
ACTCACTGGGGAGAATTTGG+AGG 0.518312 1.2:+32878558 MS.gene85761:CDS
TGCATTAGTTTGTGGATGTA+GGG 0.523176 1.2:-32878016 None:intergenic
CATCACCAAAGTTATCAACT+TGG 0.525135 1.2:+32878216 MS.gene85761:CDS
CGGTGGTGGTGGCGGTGCTG+CGG 0.526205 1.2:-32877906 None:intergenic
AAGTTGATAACTTTGGTGAT+GGG 0.527173 1.2:-32878214 None:intergenic
GATGTAGGGAACGTCGGAAG+GGG 0.527743 1.2:-32878002 None:intergenic
ATGCATTAGTTTGTGGATGT+AGG 0.527995 1.2:-32878017 None:intergenic
AACTGGGTGGCGTGGGAGGG+AGG 0.528341 1.2:-32877957 None:intergenic
GTAGGGAACGTCGGAAGGGG+TGG 0.529853 1.2:-32877999 None:intergenic
ATGGTTGATGGAGGTTCTGT+CGG 0.539956 1.2:-32877926 None:intergenic
CAAGCTGTGAAAATGGGGTA+TGG 0.543716 1.2:+32878439 MS.gene85761:CDS
GTTTCTGGCATGGTTGATGG+AGG 0.545304 1.2:-32877935 None:intergenic
ATGTGTGAGTTGTTCGAAAA+CGG 0.552949 1.2:-32878047 None:intergenic
GTGTGAAAACTGGGTGGCGT+GGG 0.564107 1.2:-32877964 None:intergenic
TTCAAGGATGAGGATGGTGG+TGG 0.566001 1.2:-32878137 None:intergenic
TTCAGGGGAGAAGAGAGTGG+AGG 0.567933 1.2:-32878098 None:intergenic
GTCGTTGTCGAAATGGGTAT+CGG 0.570206 1.2:-32878179 None:intergenic
GGATGTAGGGAACGTCGGAA+GGG 0.582464 1.2:-32878003 None:intergenic
AGAGACTTCAAGGATGAGGA+TGG 0.590756 1.2:-32878143 None:intergenic
AACGGATGCGTGTGAAAACT+GGG 0.591051 1.2:-32877973 None:intergenic
CGTGTGAAAACTGGGTGGCG+TGG 0.593886 1.2:-32877965 None:intergenic
CGAAACAAGCTGTGAAAATG+GGG 0.605125 1.2:+32878434 MS.gene85761:CDS
TTTGTGGATGTAGGGAACGT+CGG 0.617809 1.2:-32878008 None:intergenic
GTTGATGGAGGTTCTGTCGG+TGG 0.625153 1.2:-32877923 None:intergenic
GACTTCAAGGATGAGGATGG+TGG 0.644873 1.2:-32878140 None:intergenic
AGGATGGTGGTGGAATGGAA+GGG 0.647470 1.2:-32878127 None:intergenic
GGAGGAGTAGGAAGCTTCTG+TGG 0.649662 1.2:-32878080 None:intergenic
GAAAACTTCAAAACTCCACA+TGG 0.697988 1.2:+32878265 MS.gene85761:CDS
GGAGTAGGAAGCTTCTGTGG+CGG 0.698830 1.2:-32878077 None:intergenic
GAGGCTTTGCAGACTCACTG+GGG 0.729456 1.2:+32878546 MS.gene85761:CDS
GGATGCGTGTGAAAACTGGG+TGG 0.852270 1.2:-32877970 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAAATTTTATGAGGATAT+GGG + chr1.2:32878502-32878521 MS.gene85761:CDS 15.0%
!!! TATAAAATTTTATGAGGATA+TGG + chr1.2:32878501-32878520 MS.gene85761:CDS 15.0%
!!! GAATGCTATAAAATTTTATG+AGG + chr1.2:32878495-32878514 MS.gene85761:CDS 20.0%
!!! TTTTGAAGTTTTCTTTCTCT+GGG - chr1.2:32878258-32878277 None:intergenic 25.0%
ACAAAAACTTCATTACCATG+TGG - chr1.2:32878283-32878302 None:intergenic 30.0%
GTTATAGAAGGAAAGGATTT+GGG + chr1.2:32878389-32878408 MS.gene85761:CDS 30.0%
TGTTATAGAAGGAAAGGATT+TGG + chr1.2:32878388-32878407 MS.gene85761:CDS 30.0%
! GTAATGAAGTTTTTGTTGCT+GGG + chr1.2:32878287-32878306 MS.gene85761:CDS 30.0%
!! AAGTTGATAACTTTGGTGAT+GGG - chr1.2:32878217-32878236 None:intergenic 30.0%
!!! CCTAACTACTCAACTTTTTT+GGG + chr1.2:32878325-32878344 MS.gene85761:CDS 30.0%
!!! CTAACTACTCAACTTTTTTG+GGG + chr1.2:32878326-32878345 MS.gene85761:CDS 30.0%
!!! GTTTTGAAGTTTTCTTTCTC+TGG - chr1.2:32878259-32878278 None:intergenic 30.0%
!!! TCCTAACTACTCAACTTTTT+TGG + chr1.2:32878324-32878343 MS.gene85761:CDS 30.0%
ATGTGTGAGTTGTTCGAAAA+CGG - chr1.2:32878050-32878069 None:intergenic 35.0%
CATCACCAAAGTTATCAACT+TGG + chr1.2:32878216-32878235 MS.gene85761:CDS 35.0%
CCACAAACTAATGCATCAAA+TGG + chr1.2:32878024-32878043 MS.gene85761:CDS 35.0%
CCCAAAAAAGTTGAGTAGTT+AGG - chr1.2:32878328-32878347 None:intergenic 35.0%
GAAAACTTCAAAACTCCACA+TGG + chr1.2:32878265-32878284 MS.gene85761:CDS 35.0%
! CCATTTGATGCATTAGTTTG+TGG - chr1.2:32878027-32878046 None:intergenic 35.0%
! GGTAATGAAGTTTTTGTTGC+TGG + chr1.2:32878286-32878305 MS.gene85761:CDS 35.0%
!! AATGGAAGGGTTTGTTTTCA+GGG - chr1.2:32878117-32878136 None:intergenic 35.0%
!! AGAGAGTGTTATAGAAGGAA+AGG + chr1.2:32878382-32878401 MS.gene85761:CDS 35.0%
!! ATGCATTAGTTTGTGGATGT+AGG - chr1.2:32878020-32878039 None:intergenic 35.0%
!! CAAGTTGATAACTTTGGTGA+TGG - chr1.2:32878218-32878237 None:intergenic 35.0%
!! GAGATCCAAGTTGATAACTT+TGG - chr1.2:32878224-32878243 None:intergenic 35.0%
!! TGCATTAGTTTGTGGATGTA+GGG - chr1.2:32878019-32878038 None:intergenic 35.0%
!! TGGTGATGGGTTTGTAAAAT+GGG - chr1.2:32878204-32878223 None:intergenic 35.0%
!! TTGAATGGGTTGTTCTTGAT+TGG + chr1.2:32878467-32878486 MS.gene85761:CDS 35.0%
!! TTGGTGATGGGTTTGTAAAA+TGG - chr1.2:32878205-32878224 None:intergenic 35.0%
!! TTGTGAGAGAGTGTTATAGA+AGG + chr1.2:32878377-32878396 MS.gene85761:CDS 35.0%
!!! CAACTTTTTTGGGGAAACAT+GGG + chr1.2:32878335-32878354 MS.gene85761:CDS 35.0%
!!! TCAACTTTTTTGGGGAAACA+TGG + chr1.2:32878334-32878353 MS.gene85761:CDS 35.0%
AAAATGGGTCGTTGTCGAAA+TGG - chr1.2:32878189-32878208 None:intergenic 40.0%
AAATGGGTCGTTGTCGAAAT+GGG - chr1.2:32878188-32878207 None:intergenic 40.0%
CGAAACAAGCTGTGAAAATG+GGG + chr1.2:32878434-32878453 MS.gene85761:CDS 40.0%
GCGAAACAAGCTGTGAAAAT+GGG + chr1.2:32878433-32878452 MS.gene85761:CDS 40.0%
TGCGAAACAAGCTGTGAAAA+TGG + chr1.2:32878432-32878451 MS.gene85761:CDS 40.0%
TTTGAGAGACTTCAAGGATG+AGG - chr1.2:32878150-32878169 None:intergenic 40.0%
! CTAAGATTTTGCAGGAATGG+AGG + chr1.2:32878527-32878546 MS.gene85761:CDS 40.0%
! GTGCTAAGATTTTGCAGGAA+TGG + chr1.2:32878524-32878543 MS.gene85761:CDS 40.0%
! TATGGGTGCTAAGATTTTGC+AGG + chr1.2:32878519-32878538 MS.gene85761:CDS 40.0%
!! ATGGAAGGGTTTGTTTTCAG+GGG - chr1.2:32878116-32878135 None:intergenic 40.0%
!! GAATGGAAGGGTTTGTTTTC+AGG - chr1.2:32878118-32878137 None:intergenic 40.0%
!!! AAGGGTTTTGAGAGACTTCA+AGG - chr1.2:32878156-32878175 None:intergenic 40.0%
AAACGGATGCGTGTGAAAAC+TGG - chr1.2:32877977-32877996 None:intergenic 45.0%
AACGGATGCGTGTGAAAACT+GGG - chr1.2:32877976-32877995 None:intergenic 45.0%
AGAGACTTCAAGGATGAGGA+TGG - chr1.2:32878146-32878165 None:intergenic 45.0%
CAAGCTGTGAAAATGGGGTA+TGG + chr1.2:32878439-32878458 MS.gene85761:CDS 45.0%
GGGGTATGGAAGAGTTGAAT+GGG + chr1.2:32878453-32878472 MS.gene85761:CDS 45.0%
GTCGTTGTCGAAATGGGTAT+CGG - chr1.2:32878182-32878201 None:intergenic 45.0%
TCTTTCTCTGGGTCATCGAT+TGG - chr1.2:32878247-32878266 None:intergenic 45.0%
TGGGGTATGGAAGAGTTGAA+TGG + chr1.2:32878452-32878471 MS.gene85761:CDS 45.0%
TTTGTGGATGTAGGGAACGT+CGG - chr1.2:32878011-32878030 None:intergenic 45.0%
! CTTTCTCTGGGTCATCGATT+GGG - chr1.2:32878246-32878265 None:intergenic 45.0%
!! ATGGTTGATGGAGGTTCTGT+CGG - chr1.2:32877929-32877948 None:intergenic 45.0%
!! CGAAATGGGTATCGGTGAAA+GGG - chr1.2:32878174-32878193 None:intergenic 45.0%
!! TCGAAATGGGTATCGGTGAA+AGG - chr1.2:32878175-32878194 None:intergenic 45.0%
ACTCACTGGGGAGAATTTGG+AGG + chr1.2:32878558-32878577 MS.gene85761:CDS 50.0%
CAGACTCACTGGGGAGAATT+TGG + chr1.2:32878555-32878574 MS.gene85761:CDS 50.0%
GACTTCAAGGATGAGGATGG+TGG - chr1.2:32878143-32878162 None:intergenic 50.0%
GGGGAGAATTTGGAGGCTTA+TGG + chr1.2:32878565-32878584 MS.gene85761:CDS 50.0%
! TTCAAGGATGAGGATGGTGG+TGG - chr1.2:32878140-32878159 None:intergenic 50.0%
!! AGGATGGTGGTGGAATGGAA+GGG - chr1.2:32878130-32878149 None:intergenic 50.0%
!! GAGGTTTCTGGCATGGTTGA+TGG - chr1.2:32877941-32877960 None:intergenic 50.0%
!! GTTTCTGGCATGGTTGATGG+AGG - chr1.2:32877938-32877957 None:intergenic 50.0%
!! GTTTTCAGGGGAGAAGAGAG+TGG - chr1.2:32878104-32878123 None:intergenic 50.0%
GAGGCTTTGCAGACTCACTG+GGG + chr1.2:32878546-32878565 MS.gene85761:CDS 55.0%
GATGTAGGGAACGTCGGAAG+GGG - chr1.2:32878005-32878024 None:intergenic 55.0%
GGAGAAGAGAGTGGAGGAGT+AGG - chr1.2:32878095-32878114 None:intergenic 55.0%
GGAGGAGTAGGAAGCTTCTG+TGG - chr1.2:32878083-32878102 None:intergenic 55.0%
GGAGGCTTTGCAGACTCACT+GGG + chr1.2:32878545-32878564 MS.gene85761:CDS 55.0%
GGAGTAGGAAGCTTCTGTGG+CGG - chr1.2:32878080-32878099 None:intergenic 55.0%
GGATGCGTGTGAAAACTGGG+TGG - chr1.2:32877973-32877992 None:intergenic 55.0%
GGATGTAGGGAACGTCGGAA+GGG - chr1.2:32878006-32878025 None:intergenic 55.0%
GTGTGAAAACTGGGTGGCGT+GGG - chr1.2:32877967-32877986 None:intergenic 55.0%
TGGAGGCTTTGCAGACTCAC+TGG + chr1.2:32878544-32878563 MS.gene85761:CDS 55.0%
TGGATGTAGGGAACGTCGGA+AGG - chr1.2:32878007-32878026 None:intergenic 55.0%
TTCAGGGGAGAAGAGAGTGG+AGG - chr1.2:32878101-32878120 None:intergenic 55.0%
! GTTGATGGAGGTTCTGTCGG+TGG - chr1.2:32877926-32877945 None:intergenic 55.0%
!! GAGGATGGTGGTGGAATGGA+AGG - chr1.2:32878131-32878150 None:intergenic 55.0%
!! GGATGAGGATGGTGGTGGAA+TGG - chr1.2:32878135-32878154 None:intergenic 55.0%
CGTCGGAAGGGGTGGCTAAA+CGG - chr1.2:32877994-32878013 None:intergenic 60.0%
CGTGTGAAAACTGGGTGGCG+TGG - chr1.2:32877968-32877987 None:intergenic 60.0%
GAAAACTGGGTGGCGTGGGA+GGG - chr1.2:32877963-32877982 None:intergenic 60.0%
GATGGAGGTTCTGTCGGTGG+TGG - chr1.2:32877923-32877942 None:intergenic 60.0%
TGAAAACTGGGTGGCGTGGG+AGG - chr1.2:32877964-32877983 None:intergenic 60.0%
!! TGGGAGGGAGGTTTCTGGCA+TGG - chr1.2:32877948-32877967 None:intergenic 60.0%
GTAGGGAACGTCGGAAGGGG+TGG - chr1.2:32878002-32878021 None:intergenic 65.0%
TGGCGTGGGAGGGAGGTTTC+TGG - chr1.2:32877953-32877972 None:intergenic 65.0%
! GGAGGTTCTGTCGGTGGTGG+TGG - chr1.2:32877920-32877939 None:intergenic 65.0%
!! GGTTCTGTCGGTGGTGGTGG+CGG - chr1.2:32877917-32877936 None:intergenic 65.0%
AACTGGGTGGCGTGGGAGGG+AGG - chr1.2:32877960-32877979 None:intergenic 70.0%
!! CGGTGGTGGTGGCGGTGCTG+CGG - chr1.2:32877909-32877928 None:intergenic 75.0%
!! TGGTGGTGGCGGTGCTGCGG+CGG - chr1.2:32877906-32877925 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 32877899 32878600 32877899 ID=MS.gene85761
chr1.2 mRNA 32877899 32878600 32877899 ID=MS.gene85761.t1;Parent=MS.gene85761
chr1.2 exon 32877899 32878600 32877899 ID=MS.gene85761.t1.exon1;Parent=MS.gene85761.t1
chr1.2 CDS 32877899 32878600 32877899 ID=cds.MS.gene85761.t1;Parent=MS.gene85761.t1
Gene Sequence

>MS.gene85761

ATGGCCGCCGCAGCACCGCCACCACCACCGACAGAACCTCCATCAACCATGCCAGAAACCTCCCTCCCACGCCACCCAGTTTTCACACGCATCCGTTTAGCCACCCCTTCCGACGTTCCCTACATCCACAAACTAATGCATCAAATGGCCGTTTTCGAACAACTCACACATCTCATGACCGCCACAGAAGCTTCCTACTCCTCCACTCTCTTCTCCCCTGAAAACAAACCCTTCCATTCCACCACCATCCTCATCCTTGAAGTCTCTCAAAACCCTTTCACCGATACCCATTTCGACAACGACCCATTTTACAAACCCATCACCAAAGTTATCAACTTGGATCTCCCAATCGATGACCCAGAGAAAGAAAACTTCAAAACTCCACATGGTAATGAAGTTTTTGTTGCTGGGTTTGTTTTGTTTTTTCCTAACTACTCAACTTTTTTGGGGAAACATGGGTTTTATGTTGAAGATCTGTTTGTGAGAGAGTGTTATAGAAGGAAAGGATTTGGGAAGATGTTGCTTACTGCTGTTGCGAAACAAGCTGTGAAAATGGGGTATGGAAGAGTTGAATGGGTTGTTCTTGATTGGAATGTGAATGCTATAAAATTTTATGAGGATATGGGTGCTAAGATTTTGCAGGAATGGAGGCTTTGCAGACTCACTGGGGAGAATTTGGAGGCTTATGGAGCTATTGAGTAA
Protein sequence

>MS.gene85761.t1

MAAAAPPPPPTEPPSTMPETSLPRHPVFTRIRLATPSDVPYIHKLMHQMAVFEQLTHLMTATEASYSSTLFSPENKPFHSTTILILEVSQNPFTDTHFDNDPFYKPITKVINLDLPIDDPEKENFKTPHGNEVFVAGFVLFFPNYSTFLGKHGFYVEDLFVRECYRRKGFGKMLLTAVAKQAVKMGYGRVEWVVLDWNVNAIKFYEDMGAKILQEWRLCRLTGENLEAYGAIE