AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056043


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056043.t1 MTR_1g082950 97.758 223 5 0 1 223 40 262 9.37e-162 447
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056043.t1 AT1G55000 63.761 218 76 2 7 221 2 219 1.19e-97 283
MS.gene056043.t1 AT1G55000 63.761 218 76 2 7 221 2 219 1.19e-97 283
MS.gene056043.t1 AT1G55000 63.761 218 76 2 7 221 2 219 1.19e-97 283

Find 52 sgRNAs with CRISPR-Local

Find 98 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCGATTTCTAGAAGCTTC+TGG 0.301921 1.1:+61385626 MS.gene056043:CDS
CTCCAGAAGCTTCTAGAAAT+CGG 0.322000 1.1:-61385628 None:intergenic
AACTTGCATGCTTCTCTTCA+AGG 0.333288 1.1:-61386713 None:intergenic
CGAGTTGCGTCTGCCGAGTC+TGG 0.340636 1.1:+61385527 MS.gene056043:CDS
GAAGGTTCTGGAAGATGATT+TGG 0.344754 1.1:-61385483 None:intergenic
AGAATATCGGGATTACTAAT+AGG 0.352325 1.1:-61386544 None:intergenic
GATCGGGGATGGGAAGGTTC+TGG 0.355186 1.1:-61385495 None:intergenic
CTCAGAAGAAACCAACAAAA+AGG 0.366398 1.1:+61386681 MS.gene056043:CDS
CGCCGTTAAGTACTCCGTTC+AGG 0.393861 1.1:+61385717 MS.gene056043:CDS
AAGAACTTGCTTTATTGAGC+TGG 0.414503 1.1:+61386573 MS.gene056043:CDS
CTTAGCACCGTGGAAATTGA+AGG 0.424552 1.1:+61385591 MS.gene056043:CDS
CAACTCGCACGTGCGAGATC+GGG 0.428494 1.1:-61385511 None:intergenic
TCCAGAAGCTTCTAGAAATC+GGG 0.438818 1.1:-61385627 None:intergenic
CCGCGGACCTTCAGTGGGGC+AGG 0.445516 1.1:+61386806 MS.gene056043:CDS
GCAACTCGCACGTGCGAGAT+CGG 0.461154 1.1:-61385512 None:intergenic
AGAAGTTGCAGTGTTGTATC+CGG 0.473663 1.1:+61386612 MS.gene056043:CDS
GACCTGAACGGAGTACTTAA+CGG 0.475918 1.1:-61385719 None:intergenic
GATTTGGAGGGTGTCGGTGG+AGG 0.478995 1.1:-61385467 None:intergenic
AACAACATGATGAGCGATCA+TGG 0.498173 1.1:+61386493 MS.gene056043:CDS
CCACGGTGCTAAGAAAGCTC+TGG 0.499969 1.1:-61385581 None:intergenic
CGCACGTGCGAGATCGGGGA+TGG 0.503094 1.1:-61385506 None:intergenic
CTACTTGCCTGCCCCACTGA+AGG 0.503713 1.1:-61386813 None:intergenic
TACTACTGGTCTGTTTCAAA+CGG 0.508801 1.1:+61386754 MS.gene056043:CDS
TGGAAATTGAAGGACGTAGT+TGG 0.509813 1.1:+61385601 MS.gene056043:CDS
TTTATGTCAGGTACATCATC+CGG 0.516672 1.1:-61386631 None:intergenic
CTTCAGTGGGGCAGGCAAGT+AGG 0.518848 1.1:+61386814 MS.gene056043:CDS
GATGATTTGGAGGGTGTCGG+TGG 0.523454 1.1:-61385470 None:intergenic
GTGCGAGATCGGGGATGGGA+AGG 0.529104 1.1:-61385501 None:intergenic
GCGGAGAAATGAGAATTCAT+TGG 0.531909 1.1:-61385439 None:intergenic
GTGAAACTGCTCAATACTAC+TGG 0.532559 1.1:+61386740 MS.gene056043:CDS
GGTTCTGGAAGATGATTTGG+AGG 0.546672 1.1:-61385480 None:intergenic
ACATAGCTACTCTTTATGTC+AGG 0.547238 1.1:-61386643 None:intergenic
GCACGTGCGAGATCGGGGAT+GGG 0.550351 1.1:-61385505 None:intergenic
GCGATCATGGTATATACTCA+AGG 0.575308 1.1:+61386506 MS.gene056043:CDS
AACTCGCACGTGCGAGATCG+GGG 0.575733 1.1:-61385510 None:intergenic
GAAGATGATTTGGAGGGTGT+CGG 0.579288 1.1:-61385473 None:intergenic
ATGGTATATACTCAAGGGAA+AGG 0.586472 1.1:+61386512 MS.gene056043:CDS
ACTACGTCCTTCAATTTCCA+CGG 0.587526 1.1:-61385598 None:intergenic
GGTGTCGGTGGAGGAAAGTG+CGG 0.588317 1.1:-61385458 None:intergenic
GGTTACCATCTCCCTTTGTG+AGG 0.590197 1.1:-61385560 None:intergenic
GGTAGCCTCACAAAGGGAGA+TGG 0.593006 1.1:+61385555 MS.gene056043:CDS
CGTCTGCCGAGTCTGGAACT+CGG 0.602052 1.1:+61385534 MS.gene056043:CDS
CGATCATGGTATATACTCAA+GGG 0.604160 1.1:+61386507 MS.gene056043:CDS
GAACTCGGTAGCCTCACAAA+GGG 0.613154 1.1:+61385549 MS.gene056043:CDS
ATCTCGCATCGTATTGTGCG+TGG 0.618881 1.1:+61385676 MS.gene056043:CDS
CCTGCCCCACTGAAGGTCCG+CGG 0.625706 1.1:-61386806 None:intergenic
GGAACTCGGTAGCCTCACAA+AGG 0.631909 1.1:+61385548 MS.gene056043:CDS
TAAACCCAAACGGACCTGAA+CGG 0.641440 1.1:-61385731 None:intergenic
AGGCTACCGAGTTCCAGACT+CGG 0.651299 1.1:-61385540 None:intergenic
GTTCTGGAAGATGATTTGGA+GGG 0.706445 1.1:-61385479 None:intergenic
AATTCAGCAAGAGCAGCACG+AGG 0.707212 1.1:-61386781 None:intergenic
CCAGAGCTTTCTTAGCACCG+TGG 0.711370 1.1:+61385581 MS.gene056043:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAAAATGTTTTTAATTTCA+TGG + chr1.1:61386200-61386219 MS.gene056043:intron 10.0%
!! CTAGTTTATAAATTCTTAAT+AGG - chr1.1:61386329-61386348 None:intergenic 15.0%
!! AAATCACATAATATATGTGT+TGG + chr1.1:61385906-61385925 MS.gene056043:intron 20.0%
!! AAATGATGACAATGAAATTA+TGG + chr1.1:61385816-61385835 MS.gene056043:intron 20.0%
!!! AGTTCTTTTAACAAGAATAT+CGG - chr1.1:61386560-61386579 None:intergenic 20.0%
! AACAAAGTAATAAACCCAAA+CGG - chr1.1:61385744-61385763 None:intergenic 25.0%
! AGTATTAAACAGAAAAAACC+AGG - chr1.1:61386411-61386430 None:intergenic 25.0%
! TACTGTGATCAAATATGTTA+GGG + chr1.1:61386169-61386188 MS.gene056043:intron 25.0%
! TGAATATAGTTCATATGAGA+TGG + chr1.1:61385871-61385890 MS.gene056043:intron 25.0%
!! GTTCTTTTAACAAGAATATC+GGG - chr1.1:61386559-61386578 None:intergenic 25.0%
!!! AAATTTTTTGATGTTTCGAC+AGG + chr1.1:61386450-61386469 MS.gene056043:intron 25.0%
AGAATATCGGGATTACTAAT+AGG - chr1.1:61386547-61386566 None:intergenic 30.0%
GTACTGTGATCAAATATGTT+AGG + chr1.1:61386168-61386187 MS.gene056043:intron 30.0%
AATGTTATCTCCATTACGGA+TGG - chr1.1:61386004-61386023 None:intergenic 35.0%
ACATAGCTACTCTTTATGTC+AGG - chr1.1:61386646-61386665 None:intergenic 35.0%
ATGGTATATACTCAAGGGAA+AGG + chr1.1:61386512-61386531 MS.gene056043:CDS 35.0%
CACCAATGTTATCTCCATTA+CGG - chr1.1:61386008-61386027 None:intergenic 35.0%
CGATCATGGTATATACTCAA+GGG + chr1.1:61386507-61386526 MS.gene056043:CDS 35.0%
CTCAGAAGAAACCAACAAAA+AGG + chr1.1:61386681-61386700 MS.gene056043:CDS 35.0%
GATAACATTGGTGGGAATAT+AGG + chr1.1:61386015-61386034 MS.gene056043:intron 35.0%
GTAAAGCACAGAAATCTCTA+AGG - chr1.1:61386112-61386131 None:intergenic 35.0%
TTTATGTCAGGTACATCATC+CGG - chr1.1:61386634-61386653 None:intergenic 35.0%
! AAGAACTTGCTTTATTGAGC+TGG + chr1.1:61386573-61386592 MS.gene056043:CDS 35.0%
! ATCCGTAATGGAGATAACAT+TGG + chr1.1:61386003-61386022 MS.gene056043:intron 35.0%
! GTAATGGAGATAACATTGGT+GGG + chr1.1:61386007-61386026 MS.gene056043:intron 35.0%
! TACTACTGGTCTGTTTCAAA+CGG + chr1.1:61386754-61386773 MS.gene056043:CDS 35.0%
! TATTTTCATTGTTCTGTGCC+TGG + chr1.1:61386390-61386409 MS.gene056043:intron 35.0%
! TCACTGCAATATCAGGTTTT+AGG + chr1.1:61386237-61386256 MS.gene056043:intron 35.0%
!!! CTTTTTGTTGGTTTCTTCTG+AGG - chr1.1:61386683-61386702 None:intergenic 35.0%
AAACCTGATATTGCAGTGAC+AGG - chr1.1:61386236-61386255 None:intergenic 40.0%
AACAACATGATGAGCGATCA+TGG + chr1.1:61386493-61386512 MS.gene056043:CDS 40.0%
AACCTGATATTGCAGTGACA+GGG - chr1.1:61386235-61386254 None:intergenic 40.0%
AACTTGCATGCTTCTCTTCA+AGG - chr1.1:61386716-61386735 None:intergenic 40.0%
ACAGATTTGTCCATCCGTAA+TGG + chr1.1:61385991-61386010 MS.gene056043:intron 40.0%
ACTACGTCCTTCAATTTCCA+CGG - chr1.1:61385601-61385620 None:intergenic 40.0%
AGAAGTTGCAGTGTTGTATC+CGG + chr1.1:61386612-61386631 MS.gene056043:CDS 40.0%
AGTGACCATGCTTCATAGAT+TGG + chr1.1:61386061-61386080 MS.gene056043:intron 40.0%
ATTGCAGTGACAGGGAAATT+TGG - chr1.1:61386227-61386246 None:intergenic 40.0%
GATTTCTGTGCTTTACAGTC+AGG + chr1.1:61386116-61386135 MS.gene056043:intron 40.0%
GCGATCATGGTATATACTCA+AGG + chr1.1:61386506-61386525 MS.gene056043:CDS 40.0%
GTGAAACTGCTCAATACTAC+TGG + chr1.1:61386740-61386759 MS.gene056043:CDS 40.0%
TACGGATGGACAAATCTGTT+TGG - chr1.1:61385990-61386009 None:intergenic 40.0%
TCACAGTACAGTAGTCAACA+AGG - chr1.1:61386157-61386176 None:intergenic 40.0%
TGGAAATTGAAGGACGTAGT+TGG + chr1.1:61385601-61385620 MS.gene056043:CDS 40.0%
TTTGATGTTTCGACAGGTGA+TGG + chr1.1:61386456-61386475 MS.gene056043:intron 40.0%
! CGTAATGGAGATAACATTGG+TGG + chr1.1:61386006-61386025 MS.gene056043:intron 40.0%
! CTCCAGAAGCTTCTAGAAAT+CGG - chr1.1:61385631-61385650 None:intergenic 40.0%
! GAAACAGAGCTCTTTTATCG+CGG - chr1.1:61385968-61385987 None:intergenic 40.0%
! GGAATCAAGCACCTTTTTGT+TGG - chr1.1:61386695-61386714 None:intergenic 40.0%
! TCCAGAAGCTTCTAGAAATC+GGG - chr1.1:61385630-61385649 None:intergenic 40.0%
!! GAAGGTTCTGGAAGATGATT+TGG - chr1.1:61385486-61385505 None:intergenic 40.0%
!! GTTCTGGAAGATGATTTGGA+GGG - chr1.1:61385482-61385501 None:intergenic 40.0%
CCATGCTTCATAGATTGGTG+CGG + chr1.1:61386066-61386085 MS.gene056043:intron 45.0%
CTTAGCACCGTGGAAATTGA+AGG + chr1.1:61385591-61385610 MS.gene056043:CDS 45.0%
TAAACCCAAACGGACCTGAA+CGG - chr1.1:61385734-61385753 None:intergenic 45.0%
TTCCCTGTCACTGCAATATC+AGG + chr1.1:61386230-61386249 MS.gene056043:intron 45.0%
! ACCCGATTTCTAGAAGCTTC+TGG + chr1.1:61385626-61385645 MS.gene056043:CDS 45.0%
! GAAGATGATTTGGAGGGTGT+CGG - chr1.1:61385476-61385495 None:intergenic 45.0%
! GACCTGAACGGAGTACTTAA+CGG - chr1.1:61385722-61385741 None:intergenic 45.0%
! TGCTCTTGCTGAATTTTCCG+CGG + chr1.1:61386789-61386808 MS.gene056043:CDS 45.0%
!! GGTTCTGGAAGATGATTTGG+AGG - chr1.1:61385483-61385502 None:intergenic 45.0%
AATTCAGCAAGAGCAGCACG+AGG - chr1.1:61386784-61386803 None:intergenic 50.0%
ATCTCGCATCGTATTGTGCG+TGG + chr1.1:61385676-61385695 MS.gene056043:CDS 50.0%
CCGCACCAATCTATGAAGCA+TGG - chr1.1:61386069-61386088 None:intergenic 50.0%
GAACTCGGTAGCCTCACAAA+GGG + chr1.1:61385549-61385568 MS.gene056043:CDS 50.0%
GGTTACCATCTCCCTTTGTG+AGG - chr1.1:61385563-61385582 None:intergenic 50.0%
TACTCCGTTCAGGTCCGTTT+GGG + chr1.1:61385727-61385746 MS.gene056043:intron 50.0%
! AATTTTCCGCGGACCTTCAG+TGG + chr1.1:61386800-61386819 MS.gene056043:CDS 50.0%
! ATTTTCCGCGGACCTTCAGT+GGG + chr1.1:61386801-61386820 MS.gene056043:CDS 50.0%
!! TGTTGGTGTCATGTCCGTGT+CGG + chr1.1:61385923-61385942 MS.gene056043:intron 50.0%
AGGCTACCGAGTTCCAGACT+CGG - chr1.1:61385543-61385562 None:intergenic 55.0%
CCAGAGCTTTCTTAGCACCG+TGG + chr1.1:61385581-61385600 MS.gene056043:CDS 55.0%
CCTCGCATTAGGCGTGTCAT+CGG - chr1.1:61386041-61386060 None:intergenic 55.0%
CGCCGTTAAGTACTCCGTTC+AGG + chr1.1:61385717-61385736 MS.gene056043:CDS 55.0%
GACATGTGTCGTGTCCGACA+CGG - chr1.1:61385940-61385959 None:intergenic 55.0%
GCATGGTCACTCCTCGCATT+AGG - chr1.1:61386052-61386071 None:intergenic 55.0%
GGAACTCGGTAGCCTCACAA+AGG + chr1.1:61385548-61385567 MS.gene056043:CDS 55.0%
GGTAGCCTCACAAAGGGAGA+TGG + chr1.1:61385555-61385574 MS.gene056043:CDS 55.0%
GTACTCCGTTCAGGTCCGTT+TGG + chr1.1:61385726-61385745 MS.gene056043:intron 55.0%
! CCACGGTGCTAAGAAAGCTC+TGG - chr1.1:61385584-61385603 None:intergenic 55.0%
! TTTTCCGCGGACCTTCAGTG+GGG + chr1.1:61386802-61386821 MS.gene056043:CDS 55.0%
!! GATGATTTGGAGGGTGTCGG+TGG - chr1.1:61385473-61385492 None:intergenic 55.0%
AACTCGCACGTGCGAGATCG+GGG - chr1.1:61385513-61385532 None:intergenic 60.0%
CAACTCGCACGTGCGAGATC+GGG - chr1.1:61385514-61385533 None:intergenic 60.0%
CCGATGACACGCCTAATGCG+AGG + chr1.1:61386038-61386057 MS.gene056043:intron 60.0%
CTACTTGCCTGCCCCACTGA+AGG - chr1.1:61386816-61386835 None:intergenic 60.0%
CTTCAGTGGGGCAGGCAAGT+AGG + chr1.1:61386814-61386833 MS.gene056043:CDS 60.0%
GATCGGGGATGGGAAGGTTC+TGG - chr1.1:61385498-61385517 None:intergenic 60.0%
GCAACTCGCACGTGCGAGAT+CGG - chr1.1:61385515-61385534 None:intergenic 60.0%
! CGTCTGCCGAGTCTGGAACT+CGG + chr1.1:61385534-61385553 MS.gene056043:CDS 60.0%
!! GATTTGGAGGGTGTCGGTGG+AGG - chr1.1:61385470-61385489 None:intergenic 60.0%
!! GGTGTCGGTGGAGGAAAGTG+CGG - chr1.1:61385461-61385480 None:intergenic 60.0%
CGAGTTGCGTCTGCCGAGTC+TGG + chr1.1:61385527-61385546 MS.gene056043:CDS 65.0%
GCACGTGCGAGATCGGGGAT+GGG - chr1.1:61385508-61385527 None:intergenic 65.0%
GTGCGAGATCGGGGATGGGA+AGG - chr1.1:61385504-61385523 None:intergenic 65.0%
CCTGCCCCACTGAAGGTCCG+CGG - chr1.1:61386809-61386828 None:intergenic 70.0%
CGCACGTGCGAGATCGGGGA+TGG - chr1.1:61385509-61385528 None:intergenic 70.0%
CCGCGGACCTTCAGTGGGGC+AGG + chr1.1:61386806-61386825 MS.gene056043:CDS 75.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 61385442 61386846 61385442 ID=MS.gene056043
chr1.1 mRNA 61385442 61386846 61385442 ID=MS.gene056043.t1;Parent=MS.gene056043
chr1.1 exon 61385442 61385738 61385442 ID=MS.gene056043.t1.exon1;Parent=MS.gene056043.t1
chr1.1 CDS 61385442 61385738 61385442 ID=cds.MS.gene056043.t1;Parent=MS.gene056043.t1
chr1.1 exon 61386472 61386846 61386472 ID=MS.gene056043.t1.exon2;Parent=MS.gene056043.t1
chr1.1 CDS 61386472 61386846 61386472 ID=cds.MS.gene056043.t1;Parent=MS.gene056043.t1
Gene Sequence

>MS.gene056043

ATGAATTCTCATTTCTCCGCACTTTCCTCCACCGACACCCTCCAAATCATCTTCCAGAACCTTCCCATCCCCGATCTCGCACGTGCGAGTTGCGTCTGCCGAGTCTGGAACTCGGTAGCCTCACAAAGGGAGATGGTAACCAGAGCTTTCTTAGCACCGTGGAAATTGAAGGACGTAGTTGGAAACCCGATTTCTAGAAGCTTCTGGAGAGATAATTCACTTGCTAAATTCGCAATCTCGCATCGTATTGTGCGTGGTGATAGTGTTGCTAGTCTCGCCGTTAAGTACTCCGTTCAGGTCCGTTTGGGTTTATTACTTTGTTTCAGAAATTGAAATGCATAATTTTTTGTTGTTGTTGATAATTGTGCTTTTGAAAATGATGACAATGAAATTATGGAATCATCTCTCTCTGAAATTCAAGATTATGTTTGAATATAGTTCATATGAGATGGTTTTATATGTATAAATCACATAATATATGTGTTGGTGTCATGTCCGTGTCGGACACGACACATGTCTAATTCCGCGATAAAAGAGCTCTGTTTCCAAACAGATTTGTCCATCCGTAATGGAGATAACATTGGTGGGAATATAGGCCGATGACACGCCTAATGCGAGGAGTGACCATGCTTCATAGATTGGTGCGGCAAACAGTAGAAATGCATAACCTTAGAGATTTCTGTGCTTTACAGTCAGGACTAAATTAATCGTTCCTTGTTGACTACTGTACTGTGATCAAATATGTTAGGGATATCATTTTAAAATGTTTTTAATTTCATGGACCAAATTTCCCTGTCACTGCAATATCAGGTTTTAGGATTAAAATTTTGATTAGCTCAAATCAAATTGTTAACATCTACTTGTTGTGTATAATTTAGCATTTTCCTATTAAGAATTTATAAACTAGTTGATCTTTTTCTGACTATTTTTACTGTAAGCACTAAGCTATATTTTCATTGTTCTGTGCCTGGTTTTTTCTGTTTAATACTTTTGATAAAGTTGAATGATAAATTTTTTGATGTTTCGACAGGTGATGGACATAAAACGATTGAACAACATGATGAGCGATCATGGTATATACTCAAGGGAAAGGTTATTAATTCCTATTAGTAATCCCGATATTCTTGTTAAAAGAACTTGCTTTATTGAGCTGGATGTTAATGCGAAACGAGAAGTTGCAGTGTTGTATCCGGATGATGTACCTGACATAAAGAGTAGCTATGTATCAAACAGAATATCCTCAGAAGAAACCAACAAAAAGGTGCTTGATTCCTTGAAGAGAAGCATGCAAGTTGATAGTGAAACTGCTCAATACTACTGGTCTGTTTCAAACGGTGATCCTCGTGCTGCTCTTGCTGAATTTTCCGCGGACCTTCAGTGGGGCAGGCAAGTAGGTCACTCCTAG

Protein sequence

>MS.gene056043.t1

MNSHFSALSSTDTLQIIFQNLPIPDLARASCVCRVWNSVASQREMVTRAFLAPWKLKDVVGNPISRSFWRDNSLAKFAISHRIVRGDSVASLAVKYSVQVMDIKRLNNMMSDHGIYSRERLLIPISNPDILVKRTCFIELDVNAKREVAVLYPDDVPDIKSSYVSNRISSEETNKKVLDSLKRSMQVDSETAQYYWSVSNGDPRAALAEFSADLQWGRQVGHS