AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene070960


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070960.t1 MTR_1g102830 96.237 186 5 2 1 184 1 186 8.73e-126 352
MS.gene070960.t1 MTR_1g102810 93.491 169 10 1 17 184 14 182 5.72e-113 319
MS.gene070960.t1 MTR_1g102780 81.111 180 19 1 20 184 21 200 1.04e-98 284
MS.gene070960.t1 MTR_1g102570 79.775 178 23 1 20 184 21 198 3.27e-98 282
MS.gene070960.t1 MTR_1g102800 80.203 197 26 1 1 184 1 197 5.28e-98 282
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070960.t1 AT3G22840 50.000 192 77 3 7 184 9 195 3.47e-58 181
MS.gene070960.t1 AT4G14690 50.521 192 74 4 11 184 5 193 1.19e-53 169

Find 46 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCTTCCATTGATTCTTTC+AGG 0.165068 1.4:-79525716 None:intergenic
TAGAAGGGATGTTGTTAAAT+TGG 0.226805 1.4:-79524972 None:intergenic
GTTGTTGACAGTTGCTTCTT+TGG 0.263072 1.4:+79525847 MS.gene070960:CDS
ACACTAACACCTTCAAATAA+TGG 0.346554 1.4:-79525872 None:intergenic
ATTCCAAAGCTCTGCATTTG+AGG 0.355412 1.4:-79525921 None:intergenic
GGTTTGTTCGATCAAATATC+TGG 0.369233 1.4:+79525791 MS.gene070960:CDS
TATGTTGGGTTTGATTGCTT+TGG 0.370659 1.4:+79525955 MS.gene070960:CDS
TAGTTTGAAAGTTCGATCTA+TGG 0.378474 1.4:+79525023 MS.gene070960:CDS
AAGCTAGGCATATACATAGA+AGG 0.387722 1.4:-79524988 None:intergenic
TCTTTGGTTCCATTATTTGA+AGG 0.404737 1.4:+79525863 MS.gene070960:CDS
AATGGAAGGTTAGCCATGAT+TGG 0.409893 1.4:+79525728 MS.gene070960:CDS
CGGATTTGATGGCATTTGGT+GGG 0.428133 1.4:+79525687 MS.gene070960:CDS
GCAGGCTGAGGAGTCACCTT+TGG 0.441538 1.4:-79525293 None:intergenic
TCTAGGCCTGCTTGAAATGC+TGG 0.450968 1.4:-79524944 None:intergenic
TTGTTAAATTGGTTAACTCT+AGG 0.463045 1.4:-79524961 None:intergenic
TGTCCTCAAATGCAGAGCTT+TGG 0.467503 1.4:+79525918 MS.gene070960:CDS
AGTGTTGAATCTAAGTCAAA+AGG 0.480583 1.4:+79525890 MS.gene070960:CDS
TCGGATTTGATGGCATTTGG+TGG 0.487791 1.4:+79525686 MS.gene070960:CDS
TGCAGATACAAAACCAATCA+TGG 0.488652 1.4:-79525741 None:intergenic
GAATGGAAGACTTGCTATGT+TGG 0.490221 1.4:+79525940 MS.gene070960:CDS
AATGGAAGACTTGCTATGTT+GGG 0.502682 1.4:+79525941 MS.gene070960:CDS
TTCGATCAAATATCTGGTGG+TGG 0.522060 1.4:+79525797 MS.gene070960:CDS
CTAGCATTCCTTCTGAAGCT+AGG 0.539206 1.4:-79525003 None:intergenic
CCTGCTTGAAATGCTGGTCA+TGG 0.548863 1.4:-79524938 None:intergenic
GCAGCGCCTGAAAGAATCAA+TGG 0.552540 1.4:+79525710 MS.gene070960:CDS
CACTTGTATACAAGAACCAT+GGG 0.556587 1.4:-79525823 None:intergenic
GGATTTGATGGCATTTGGTG+GGG 0.562192 1.4:+79525688 MS.gene070960:CDS
AGCTAGGCATATACATAGAA+GGG 0.567045 1.4:-79524987 None:intergenic
GAACGAGTAGAAGCAGGCTG+AGG 0.574059 1.4:-79525305 None:intergenic
GGCTGTCACAGAATATGTCA+AGG 0.578680 1.4:+79525976 MS.gene070960:CDS
TCAAATGCAGAGCTTTGGAA+TGG 0.580798 1.4:+79525923 MS.gene070960:CDS
TTTGGTGAACGAGTAGAAGC+AGG 0.581281 1.4:-79525311 None:intergenic
TGCTTCTACTCGTTCACCAA+AGG 0.583895 1.4:+79525313 MS.gene070960:CDS
GGTGGAATTAGCAAAAGGGC+AGG 0.590541 1.4:+79525769 MS.gene070960:CDS
GAAAGTTCGATCTATGGCTG+AGG 0.590785 1.4:+79525029 MS.gene070960:CDS
TTGTTCGATCAAATATCTGG+TGG 0.594040 1.4:+79525794 MS.gene070960:CDS
TGTATATGCCTAGCTTCAGA+AGG 0.603350 1.4:+79524995 MS.gene070960:CDS
CCATGACCAGCATTTCAAGC+AGG 0.603962 1.4:+79524938 MS.gene070960:CDS
GTGGAATTAGCAAAAGGGCA+GGG 0.608172 1.4:+79525770 MS.gene070960:CDS
ACACTTGTATACAAGAACCA+TGG 0.618963 1.4:-79525824 None:intergenic
CGCCTGAAAGAATCAATGGA+AGG 0.624472 1.4:+79525714 MS.gene070960:CDS
AGGGCAGAAAGAGCAACCAA+AGG 0.630670 1.4:+79525277 MS.gene070960:CDS
TATAAAACTCTACTTACACA+AGG 0.652785 1.4:-79526006 None:intergenic
GCTGTCACAGAATATGTCAA+GGG 0.676919 1.4:+79525977 MS.gene070960:CDS
TATCTGGTGGTGGAATCCCA+TGG 0.688884 1.4:+79525807 MS.gene070960:CDS
ATAAAACTCTACTTACACAA+GGG 0.707854 1.4:-79526005 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAGCATCATAATAAAAAAA+GGG + chr1.4:79525336-79525355 MS.gene070960:intron 15.0%
!! AATCATATGAAACATGTTTA+TGG + chr1.4:79525139-79525158 MS.gene070960:intron 20.0%
!! AATGTTTCTTTACATTATTC+AGG + chr1.4:79525253-79525272 MS.gene070960:intron 20.0%
!! ATCATAATAAAAAAAGGGTT+AGG + chr1.4:79525341-79525360 MS.gene070960:intron 20.0%
!! GGTTTATCAAACAAATATTA+AGG + chr1.4:79525059-79525078 MS.gene070960:intron 20.0%
!! GTAAGCATCATAATAAAAAA+AGG + chr1.4:79525335-79525354 MS.gene070960:intron 20.0%
!!! ACAAAGTTGTAATTTTTTGA+TGG - chr1.4:79525546-79525565 None:intergenic 20.0%
!!! CAAAGTTGTAATTTTTTGAT+GGG - chr1.4:79525545-79525564 None:intergenic 20.0%
! ATAAAAGACACCTTCATAAA+AGG + chr1.4:79525504-79525523 MS.gene070960:intron 25.0%
! TTCTTTACATTATTCAGGAA+GGG + chr1.4:79525258-79525277 MS.gene070960:intron 25.0%
! TTGTTAAATTGGTTAACTCT+AGG - chr1.4:79524964-79524983 None:intergenic 25.0%
! TTTATTATGATGCTTACCTT+TGG - chr1.4:79525332-79525351 None:intergenic 25.0%
! TTTCTTTACATTATTCAGGA+AGG + chr1.4:79525257-79525276 MS.gene070960:intron 25.0%
!!! GTAGTTGATTTTGTAAATTC+CGG + chr1.4:79525191-79525210 MS.gene070960:intron 25.0%
!!! GTCATGTAAAGTATTGATTT+TGG + chr1.4:79525597-79525616 MS.gene070960:intron 25.0%
AAAGTGAAAATCACACCTTA+AGG - chr1.4:79525407-79525426 None:intergenic 30.0%
ACACTAACACCTTCAAATAA+TGG - chr1.4:79525875-79525894 None:intergenic 30.0%
TAGAAGGGATGTTGTTAAAT+TGG - chr1.4:79524975-79524994 None:intergenic 30.0%
TAGTTTGAAAGTTCGATCTA+TGG + chr1.4:79525023-79525042 MS.gene070960:CDS 30.0%
TTACATGACTATACTCTTCT+TGG - chr1.4:79525586-79525605 None:intergenic 30.0%
! AGTGTTGAATCTAAGTCAAA+AGG + chr1.4:79525890-79525909 MS.gene070960:CDS 30.0%
! ATAGAAGACACCTTTTATGA+AGG - chr1.4:79525517-79525536 None:intergenic 30.0%
! CACAAAATTTTCGGATTTGA+TGG + chr1.4:79525676-79525695 MS.gene070960:CDS 30.0%
! GCAGATAAGCACAAAATTTT+CGG + chr1.4:79525667-79525686 MS.gene070960:intron 30.0%
! TCTTTGGTTCCATTATTTGA+AGG + chr1.4:79525863-79525882 MS.gene070960:CDS 30.0%
!! AAAGACACCAACTTACTTTT+AGG - chr1.4:79525459-79525478 None:intergenic 30.0%
!!! ATTGGTTTTGTATCTGCAAT+GGG + chr1.4:79525746-79525765 MS.gene070960:CDS 30.0%
AAGCTAGGCATATACATAGA+AGG - chr1.4:79524991-79525010 None:intergenic 35.0%
AAGTGACATTCAAGACGTTA+TGG - chr1.4:79525222-79525241 None:intergenic 35.0%
ACACCTTCCTAAAAGTAAGT+TGG + chr1.4:79525449-79525468 MS.gene070960:intron 35.0%
ACACTTGTATACAAGAACCA+TGG - chr1.4:79525827-79525846 None:intergenic 35.0%
AGCTAGGCATATACATAGAA+GGG - chr1.4:79524990-79525009 None:intergenic 35.0%
ATCTATGGCTGAGGTAATTA+AGG + chr1.4:79525038-79525057 MS.gene070960:intron 35.0%
CACTTGTATACAAGAACCAT+GGG - chr1.4:79525826-79525845 None:intergenic 35.0%
TATGTTGGGTTTGATTGCTT+TGG + chr1.4:79525955-79525974 MS.gene070960:CDS 35.0%
TGATAAAAGACACCACCAAA+GGG - chr1.4:79525377-79525396 None:intergenic 35.0%
TGCAGATACAAAACCAATCA+TGG - chr1.4:79525744-79525763 None:intergenic 35.0%
TTGATAAAAGACACCACCAA+AGG - chr1.4:79525378-79525397 None:intergenic 35.0%
TTGTTCGATCAAATATCTGG+TGG + chr1.4:79525794-79525813 MS.gene070960:CDS 35.0%
! ACTCTTCTTGGACACAATTT+TGG - chr1.4:79525574-79525593 None:intergenic 35.0%
! GGTTTGTTCGATCAAATATC+TGG + chr1.4:79525791-79525810 MS.gene070960:CDS 35.0%
! TTTTATCAAGCCACACCTTA+AGG + chr1.4:79525389-79525408 MS.gene070960:intron 35.0%
!! AACCTTCCATTGATTCTTTC+AGG - chr1.4:79525719-79525738 None:intergenic 35.0%
!! AATGGAAGACTTGCTATGTT+GGG + chr1.4:79525941-79525960 MS.gene070960:CDS 35.0%
!! ACACCAACTTACTTTTAGGA+AGG - chr1.4:79525455-79525474 None:intergenic 35.0%
!! TTTTCGGATTTGATGGCATT+TGG + chr1.4:79525683-79525702 MS.gene070960:CDS 35.0%
!!! GATTGGTTTTGTATCTGCAA+TGG + chr1.4:79525745-79525764 MS.gene070960:CDS 35.0%
!!! TTGGTTTTGTATCTGCAATG+GGG + chr1.4:79525747-79525766 MS.gene070960:CDS 35.0%
ATTCCAAAGCTCTGCATTTG+AGG - chr1.4:79525924-79525943 None:intergenic 40.0%
GAAAATCACACCTTAAGGTG+TGG - chr1.4:79525402-79525421 None:intergenic 40.0%
GCTGTCACAGAATATGTCAA+GGG + chr1.4:79525977-79525996 MS.gene070960:CDS 40.0%
GTTGTTGACAGTTGCTTCTT+TGG + chr1.4:79525847-79525866 MS.gene070960:CDS 40.0%
TCAAGACGTTATGGATTCTC+CGG - chr1.4:79525213-79525232 None:intergenic 40.0%
TGTATATGCCTAGCTTCAGA+AGG + chr1.4:79524995-79525014 MS.gene070960:CDS 40.0%
TTCGATCAAATATCTGGTGG+TGG + chr1.4:79525797-79525816 MS.gene070960:CDS 40.0%
! AATGGAAGGTTAGCCATGAT+TGG + chr1.4:79525728-79525747 MS.gene070960:CDS 40.0%
!! GAATGGAAGACTTGCTATGT+TGG + chr1.4:79525940-79525959 MS.gene070960:CDS 40.0%
!! TCAAATGCAGAGCTTTGGAA+TGG + chr1.4:79525923-79525942 MS.gene070960:CDS 40.0%
!!! TGGTTTTGTATCTGCAATGG+GGG + chr1.4:79525748-79525767 MS.gene070960:CDS 40.0%
ATGGGGGTGGAATTAGCAAA+AGG + chr1.4:79525764-79525783 MS.gene070960:CDS 45.0%
CGCCTGAAAGAATCAATGGA+AGG + chr1.4:79525714-79525733 MS.gene070960:CDS 45.0%
GAAAGTTCGATCTATGGCTG+AGG + chr1.4:79525029-79525048 MS.gene070960:CDS 45.0%
GGCTGTCACAGAATATGTCA+AGG + chr1.4:79525976-79525995 MS.gene070960:CDS 45.0%
GTGGAATTAGCAAAAGGGCA+GGG + chr1.4:79525770-79525789 MS.gene070960:CDS 45.0%
TAAAAGACACCACCAAAGGG+TGG - chr1.4:79525374-79525393 None:intergenic 45.0%
TGCTTCTACTCGTTCACCAA+AGG + chr1.4:79525313-79525332 MS.gene070960:CDS 45.0%
TGGGGGTGGAATTAGCAAAA+GGG + chr1.4:79525765-79525784 MS.gene070960:CDS 45.0%
TGTCCTCAAATGCAGAGCTT+TGG + chr1.4:79525918-79525937 MS.gene070960:CDS 45.0%
TTAGGTTACAAGCCACCCTT+TGG + chr1.4:79525359-79525378 MS.gene070960:intron 45.0%
TTTGGTGAACGAGTAGAAGC+AGG - chr1.4:79525314-79525333 None:intergenic 45.0%
! CGGATTTGATGGCATTTGGT+GGG + chr1.4:79525687-79525706 MS.gene070960:CDS 45.0%
! GGATTTGATGGCATTTGGTG+GGG + chr1.4:79525688-79525707 MS.gene070960:CDS 45.0%
! TCGGATTTGATGGCATTTGG+TGG + chr1.4:79525686-79525705 MS.gene070960:CDS 45.0%
! TTTTGTATCTGCAATGGGGG+TGG + chr1.4:79525751-79525770 MS.gene070960:CDS 45.0%
!! CTAGCATTCCTTCTGAAGCT+AGG - chr1.4:79525006-79525025 None:intergenic 45.0%
AGGGCAGAAAGAGCAACCAA+AGG + chr1.4:79525277-79525296 MS.gene070960:CDS 50.0%
CCATGACCAGCATTTCAAGC+AGG + chr1.4:79524938-79524957 MS.gene070960:CDS 50.0%
CCTGCTTGAAATGCTGGTCA+TGG - chr1.4:79524941-79524960 None:intergenic 50.0%
GCAGCGCCTGAAAGAATCAA+TGG + chr1.4:79525710-79525729 MS.gene070960:CDS 50.0%
GGTGGAATTAGCAAAAGGGC+AGG + chr1.4:79525769-79525788 MS.gene070960:CDS 50.0%
TCTAGGCCTGCTTGAAATGC+TGG - chr1.4:79524947-79524966 None:intergenic 50.0%
!! TATCTGGTGGTGGAATCCCA+TGG + chr1.4:79525807-79525826 MS.gene070960:CDS 50.0%
GAACGAGTAGAAGCAGGCTG+AGG - chr1.4:79525308-79525327 None:intergenic 55.0%
GGTTACAAGCCACCCTTTGG+TGG + chr1.4:79525362-79525381 MS.gene070960:intron 55.0%
GCAGGCTGAGGAGTCACCTT+TGG - chr1.4:79525296-79525315 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 79524901 79526015 79524901 ID=MS.gene070960
chr1.4 mRNA 79524901 79526015 79524901 ID=MS.gene070960.t1;Parent=MS.gene070960
chr1.4 exon 79524901 79525050 79524901 ID=MS.gene070960.t1.exon1;Parent=MS.gene070960.t1
chr1.4 CDS 79524901 79525050 79524901 ID=cds.MS.gene070960.t1;Parent=MS.gene070960.t1
chr1.4 exon 79525275 79525334 79525275 ID=MS.gene070960.t1.exon2;Parent=MS.gene070960.t1
chr1.4 CDS 79525275 79525334 79525275 ID=cds.MS.gene070960.t1;Parent=MS.gene070960.t1
chr1.4 exon 79525671 79526015 79525671 ID=MS.gene070960.t1.exon3;Parent=MS.gene070960.t1
chr1.4 CDS 79525671 79526015 79525671 ID=cds.MS.gene070960.t1;Parent=MS.gene070960.t1
Gene Sequence

>MS.gene070960

ATGGCTGTTTCATCTTGTCAATCTATCATGTCAAGCTCCATGACCAGCATTTCAAGCAGGCCTAGAGTTAACCAATTTAACAACATCCCTTCTATGTATATGCCTAGCTTCAGAAGGAATGCTAGTTTGAAAGTTCGATCTATGGCTGAGGTAATTAAGGTTTATCAAACAAATATTAAGGTCATGTACATAGTGTTTGTTTTGTTCATGCATAATTAATTTGTATACATGAAAAAGCAATCATATGAAACATGTTTATGGTTTATATTTATGAAATATGTACATGAATTGTAGTTGATTTTGTAAATTCCGGAGAATCCATAACGTCTTGAATGTCACTTTAGTTGATAACAATGTTTCTTTACATTATTCAGGAAGGGCAGAAAGAGCAACCAAAGGTGACTCCTCAGCCTGCTTCTACTCGTTCACCAAAGGTAAGCATCATAATAAAAAAAGGGTTAGGTTACAAGCCACCCTTTGGTGGTGTCTTTTATCAAGCCACACCTTAAGGTGTGATTTTCACTTTTTAGTTATAACTTTGATAAAAGACACCTTCCTAAAAGTAAGTTGGTGTCTTTTCGCAAATGCTCACAGAGTAACTTGATAAAAGACACCTTCATAAAAGGTGTCTTCTATCATAACCCATCAAAAAATTACAACTTTGTTTTTTCCAAAATTGTGTCCAAGAAGAGTATAGTCATGTAAAGTATTGATTTTGGTCAAAATTTATGAGACTTTTATGATGAATAATGATGATTATATAATCGCAGATAAGCACAAAATTTTCGGATTTGATGGCATTTGGTGGGGCAGCGCCTGAAAGAATCAATGGAAGGTTAGCCATGATTGGTTTTGTATCTGCAATGGGGGTGGAATTAGCAAAAGGGCAGGGTTTGTTCGATCAAATATCTGGTGGTGGAATCCCATGGTTCTTGTATACAAGTGTGTTGTTGACAGTTGCTTCTTTGGTTCCATTATTTGAAGGTGTTAGTGTTGAATCTAAGTCAAAAGGTATCATGTCCTCAAATGCAGAGCTTTGGAATGGAAGACTTGCTATGTTGGGTTTGATTGCTTTGGCTGTCACAGAATATGTCAAGGGTACTGCCCTTGTGTAA

Protein sequence

>MS.gene070960.t1

MAVSSCQSIMSSSMTSISSRPRVNQFNNIPSMYMPSFRRNASLKVRSMAEEGQKEQPKVTPQPASTRSPKISTKFSDLMAFGGAAPERINGRLAMIGFVSAMGVELAKGQGLFDQISGGGIPWFLYTSVLLTVASLVPLFEGVSVESKSKGIMSSNAELWNGRLAMLGLIALAVTEYVKGTALV