AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00607

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00607.t1 MTR_5g015480 76.419 229 33 2 1 208 1 229 4.51e-122 347
MS.gene00607.t1 MTR_6g017200 68.932 103 28 1 36 134 34 136 6.14e-43 142
MS.gene00607.t1 MTR_1g057920 60.714 112 40 1 27 134 1 112 8.43e-40 133
MS.gene00607.t1 MTR_2g070590 67.368 95 31 0 40 134 1 95 4.08e-39 131
MS.gene00607.t1 MTR_0402s0040 66.990 103 30 1 36 134 2 104 1.09e-38 139
MS.gene00607.t1 MTR_0137s0040 67.045 88 25 1 25 108 1 88 6.75e-37 125
MS.gene00607.t1 MTR_0291s0060 63.014 73 23 1 38 106 13 85 1.06e-24 93.6
MS.gene00607.t1 MTR_7g113010 46.903 113 42 2 26 134 423 521 5.05e-21 90.9
MS.gene00607.t1 MTR_4g067290 40.164 122 61 3 56 166 56 176 1.73e-19 83.6
MS.gene00607.t1 MTR_1g091013 67.857 56 18 0 69 124 14 69 1.98e-19 79.0
MS.gene00607.t1 MTR_4g067290 40.164 122 61 3 56 166 74 194 2.35e-19 83.6
MS.gene00607.t1 MTR_4g067290 40.164 122 61 3 56 166 76 196 2.63e-19 83.6
MS.gene00607.t1 MTR_4g102720 49.367 79 39 1 56 134 7 84 3.28e-19 82.8
MS.gene00607.t1 MTR_4g067290 39.516 124 61 4 56 166 56 178 3.90e-18 80.1
MS.gene00607.t1 MTR_4g067290 39.516 124 61 4 56 166 76 198 5.40e-18 80.1
MS.gene00607.t1 MTR_4g067290 39.516 124 61 4 56 166 116 238 9.99e-18 80.1
MS.gene00607.t1 MTR_2g098920 38.211 123 63 4 56 166 80 201 3.67e-17 78.2
MS.gene00607.t1 MTR_7g074790 36.567 134 64 4 56 170 10 141 3.09e-14 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00607.t1 AT3G59470 40.650 123 60 5 56 166 70 191 1.33e-15 73.6
MS.gene00607.t1 AT3G59470 40.650 123 60 5 56 166 70 191 1.33e-15 73.6
MS.gene00607.t1 AT3G59470 40.650 123 60 5 56 166 82 203 1.52e-15 73.6

Find 47 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTGTCAGCTTCTGTTAA+AGG 0.115830 2.1:-75886061 None:intergenic
TCCTAATCTCATTTGACATT+TGG 0.288109 2.1:-75886105 None:intergenic
GCTTGGAATGGAAGCCAATC+TGG 0.361798 2.1:+75885983 MS.gene00607:CDS
TATAGTAGGAAATGTGGTTT+TGG 0.369598 2.1:+75885266 MS.gene00607:CDS
GGTGAATGATATCGTGCAAC+AGG 0.381657 2.1:+75885160 MS.gene00607:CDS
TCACCATTCATCACCACCTC+TGG 0.385515 2.1:+75884940 MS.gene00607:CDS
GACACCGCGTCTACCCTCTT+TGG 0.402002 2.1:-75885357 None:intergenic
TAATGTACCACACTTGGAAA+TGG 0.424296 2.1:+75885202 MS.gene00607:CDS
TCCAAGCATGTATGCCATCA+TGG 0.434387 2.1:-75885967 None:intergenic
ATATGGAAGCCATGCTTTGA+TGG 0.436030 2.1:+75886006 MS.gene00607:CDS
TACACCTTCAACCATTGGAT+TGG 0.436578 2.1:-75885129 None:intergenic
AATGGAAGCCAATCTGGATA+TGG 0.437868 2.1:+75885989 MS.gene00607:CDS
ACGTGTGTCGTTTCTACCAT+TGG 0.448381 2.1:-75884899 None:intergenic
TGTGTACCATCATTGTTTGC+AGG 0.460822 2.1:-75885736 None:intergenic
GGACTTTGAGTCTGAGGCCT+TGG 0.461262 2.1:+75885223 MS.gene00607:CDS
CATGGCTTCCATATCCAGAT+TGG 0.462462 2.1:-75885997 None:intergenic
AACAGGATGTTTAGCACGTA+TGG 0.468473 2.1:+75885424 MS.gene00607:CDS
ATGGAAGTCTACATGAGATT+AGG 0.477147 2.1:+75886080 MS.gene00607:CDS
TCCAAATGTCAAATGAGATT+AGG 0.485144 2.1:+75886104 MS.gene00607:CDS
CCCATGATGGCATACATGCT+TGG 0.488076 2.1:+75885966 MS.gene00607:CDS
GATGGTACACATGCTTTGAA+TGG 0.516924 2.1:+75885748 MS.gene00607:CDS
CACCATTCATCACCACCTCT+GGG 0.529997 2.1:+75884941 MS.gene00607:CDS
ACATCCAATCCAATGGTTGA+AGG 0.531051 2.1:+75885125 MS.gene00607:CDS
GCTCGAGCAGAAACTAGAAC+AGG 0.536024 2.1:+75885407 MS.gene00607:CDS
CAATCTCCTGCAAACAATGA+TGG 0.539918 2.1:+75885730 MS.gene00607:CDS
TGTATGCCATCATGGGTTGC+TGG 0.540590 2.1:-75885959 None:intergenic
ACGTGATTACTTAACAAAAG+AGG 0.543276 2.1:+75885385 MS.gene00607:CDS
CAATCTCCAGCAACCCATGA+TGG 0.544924 2.1:+75885953 MS.gene00607:CDS
TGCCCAGAGGTGGTGATGAA+TGG 0.545146 2.1:-75884943 None:intergenic
GTACACATGCTTTGAATGGA+AGG 0.545764 2.1:+75885752 MS.gene00607:CDS
CCAAGCATGTATGCCATCAT+GGG 0.548509 2.1:-75885966 None:intergenic
AATGAGTATAGTAGGAAATG+TGG 0.549866 2.1:+75885260 MS.gene00607:CDS
TGTTAGTAATGTACCACACT+TGG 0.560348 2.1:+75885196 MS.gene00607:CDS
ATCTTACCGGTGCCCAGAGG+TGG 0.565589 2.1:-75884953 None:intergenic
GGAAATGGACTTTGAGTCTG+AGG 0.567953 2.1:+75885217 MS.gene00607:CDS
ATTATAAAATTCATATGCCA+AGG 0.568982 2.1:-75885240 None:intergenic
TTTGAGATGCCATCAAAGCA+TGG 0.583887 2.1:-75886015 None:intergenic
AAAATTTGTGTGCTCCAAAG+AGG 0.589431 2.1:+75885343 MS.gene00607:CDS
TCATCACCACCTCTGGGCAC+CGG 0.597509 2.1:+75884947 MS.gene00607:CDS
GATGGCATACATGCTTGGAA+TGG 0.609086 2.1:+75885971 MS.gene00607:CDS
CCTTTAACAGAAGCTGACAA+TGG 0.612454 2.1:+75886061 MS.gene00607:CDS
GAATATTACATCCAATCCAA+TGG 0.614280 2.1:+75885118 MS.gene00607:CDS
AAATTTGTGTGCTCCAAAGA+GGG 0.614397 2.1:+75885344 MS.gene00607:CDS
TCAAAGTCCATTTCCAAGTG+TGG 0.632466 2.1:-75885209 None:intergenic
TGCTCCAAAGAGGGTAGACG+CGG 0.660484 2.1:+75885353 MS.gene00607:CDS
GTGAATGATATCGTGCAACA+GGG 0.667513 2.1:+75885161 MS.gene00607:CDS
AAAATCTTACCGGTGCCCAG+AGG 0.742952 2.1:-75884956 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTTTATAATGAGTATAGT+AGG + chr2.1:75885252-75885271 MS.gene00607:CDS 15.0%
!! ATTATAAAATTCATATGCCA+AGG - chr2.1:75885243-75885262 None:intergenic 20.0%
!! TATTCACATTATCTAGAAAA+TGG - chr2.1:75885103-75885122 None:intergenic 20.0%
!!! CATGAATATTTGAAAGTATT+TGG + chr2.1:75885010-75885029 MS.gene00607:intron 20.0%
! AAGGAAGAGAAAGAAAAAAT+TGG + chr2.1:75885771-75885790 MS.gene00607:CDS 25.0%
! CACATGTTAAAAAGAAAGTA+TGG - chr2.1:75885646-75885665 None:intergenic 25.0%
! CTTGATTGGAAATGAAAAAA+AGG + chr2.1:75885455-75885474 MS.gene00607:intron 25.0%
! GACTAAGAGAAAGAAAAAAT+TGG + chr2.1:75885611-75885630 MS.gene00607:intron 25.0%
! GCAAATAAAAGCAAAAAAGA+TGG + chr2.1:75885305-75885324 MS.gene00607:CDS 25.0%
! TGGATAAAAAGAGACAAAAA+AGG + chr2.1:75885580-75885599 MS.gene00607:intron 25.0%
!! TGTTACTTCTACTATTATGT+AGG + chr2.1:75885928-75885947 MS.gene00607:intron 25.0%
!!! TGTTACTTTTACTACTATGT+AGG + chr2.1:75885705-75885724 MS.gene00607:intron 25.0%
!!! TTTTATTTGCATATTCTCGA+CGG - chr2.1:75885295-75885314 None:intergenic 25.0%
AATGAGTATAGTAGGAAATG+TGG + chr2.1:75885260-75885279 MS.gene00607:CDS 30.0%
ACGTGATTACTTAACAAAAG+AGG + chr2.1:75885385-75885404 MS.gene00607:CDS 30.0%
GAATATTACATCCAATCCAA+TGG + chr2.1:75885118-75885137 MS.gene00607:CDS 30.0%
GACAAAGAACAAAATCTTAC+CGG - chr2.1:75884969-75884988 None:intergenic 30.0%
GATAGCAGTACTAAAATTCT+AGG - chr2.1:75885669-75885688 None:intergenic 30.0%
GCTTAGATAGGACTAAAAAA+AGG + chr2.1:75885535-75885554 MS.gene00607:intron 30.0%
TCCAAATGTCAAATGAGATT+AGG + chr2.1:75886104-75886123 MS.gene00607:CDS 30.0%
TCCTAATCTCATTTGACATT+TGG - chr2.1:75886108-75886127 None:intergenic 30.0%
TGAAAAAAAGGATCAGAATG+TGG + chr2.1:75885467-75885486 MS.gene00607:intron 30.0%
! GTATGGTTATTTCACTTGAT+TGG + chr2.1:75885441-75885460 MS.gene00607:intron 30.0%
! TATAGTAGGAAATGTGGTTT+TGG + chr2.1:75885266-75885285 MS.gene00607:CDS 30.0%
!! CTAAAAAAAGGTATCCAACT+TGG + chr2.1:75885547-75885566 MS.gene00607:intron 30.0%
AAAATTTGTGTGCTCCAAAG+AGG + chr2.1:75885343-75885362 MS.gene00607:CDS 35.0%
AAATTTGTGTGCTCCAAAGA+GGG + chr2.1:75885344-75885363 MS.gene00607:CDS 35.0%
ATGGAAGTCTACATGAGATT+AGG + chr2.1:75886080-75886099 MS.gene00607:CDS 35.0%
TAATGTACCACACTTGGAAA+TGG + chr2.1:75885202-75885221 MS.gene00607:CDS 35.0%
TAGTCCTATCTAAGCAATCT+CGG - chr2.1:75885530-75885549 None:intergenic 35.0%
TGTTAGTAATGTACCACACT+TGG + chr2.1:75885196-75885215 MS.gene00607:CDS 35.0%
! GGTTGAAGGTGTAGAAAAAT+TGG + chr2.1:75885139-75885158 MS.gene00607:CDS 35.0%
! TTTTCTACACCTTCAACCAT+TGG - chr2.1:75885137-75885156 None:intergenic 35.0%
AACAGGATGTTTAGCACGTA+TGG + chr2.1:75885424-75885443 MS.gene00607:CDS 40.0%
AATGGAAGCCAATCTGGATA+TGG + chr2.1:75885989-75886008 MS.gene00607:CDS 40.0%
AATGTGGACACTGTTGATCT+TGG + chr2.1:75885483-75885502 MS.gene00607:intron 40.0%
ACATCCAATCCAATGGTTGA+AGG + chr2.1:75885125-75885144 MS.gene00607:CDS 40.0%
ATATGGAAGCCATGCTTTGA+TGG + chr2.1:75886006-75886025 MS.gene00607:CDS 40.0%
CAATCTCCTGCAAACAATGA+TGG + chr2.1:75885730-75885749 MS.gene00607:CDS 40.0%
CCATTGTCAGCTTCTGTTAA+AGG - chr2.1:75886064-75886083 None:intergenic 40.0%
CCTTTAACAGAAGCTGACAA+TGG + chr2.1:75886061-75886080 MS.gene00607:CDS 40.0%
GTGAATGATATCGTGCAACA+GGG + chr2.1:75885161-75885180 MS.gene00607:CDS 40.0%
TACACCTTCAACCATTGGAT+TGG - chr2.1:75885132-75885151 None:intergenic 40.0%
TCAAAGTCCATTTCCAAGTG+TGG - chr2.1:75885212-75885231 None:intergenic 40.0%
TCCAATTTCTCAAGCCAAGT+TGG - chr2.1:75885564-75885583 None:intergenic 40.0%
TGTGTACCATCATTGTTTGC+AGG - chr2.1:75885739-75885758 None:intergenic 40.0%
! GATGGTACACATGCTTTGAA+TGG + chr2.1:75885748-75885767 MS.gene00607:CDS 40.0%
! GTACACATGCTTTGAATGGA+AGG + chr2.1:75885752-75885771 MS.gene00607:CDS 40.0%
! TCCAACTTGGCTTGAGAAAT+TGG + chr2.1:75885560-75885579 MS.gene00607:intron 40.0%
! TTTGAGATGCCATCAAAGCA+TGG - chr2.1:75886018-75886037 None:intergenic 40.0%
AGAGCCGAGATTGCTTAGAT+AGG + chr2.1:75885523-75885542 MS.gene00607:intron 45.0%
CATGGCTTCCATATCCAGAT+TGG - chr2.1:75886000-75886019 None:intergenic 45.0%
CCAAGCATGTATGCCATCAT+GGG - chr2.1:75885969-75885988 None:intergenic 45.0%
GATGGCATACATGCTTGGAA+TGG + chr2.1:75885971-75885990 MS.gene00607:CDS 45.0%
GGTGAATGATATCGTGCAAC+AGG + chr2.1:75885160-75885179 MS.gene00607:CDS 45.0%
TCCAAGCATGTATGCCATCA+TGG - chr2.1:75885970-75885989 None:intergenic 45.0%
TGGACACTGTTGATCTTGGT+GGG + chr2.1:75885487-75885506 MS.gene00607:intron 45.0%
! GGAAATGGACTTTGAGTCTG+AGG + chr2.1:75885217-75885236 MS.gene00607:CDS 45.0%
AAAATCTTACCGGTGCCCAG+AGG - chr2.1:75884959-75884978 None:intergenic 50.0%
CAATCTCCAGCAACCCATGA+TGG + chr2.1:75885953-75885972 MS.gene00607:CDS 50.0%
CACCATTCATCACCACCTCT+GGG + chr2.1:75884941-75884960 MS.gene00607:CDS 50.0%
CCCATGATGGCATACATGCT+TGG + chr2.1:75885966-75885985 MS.gene00607:CDS 50.0%
GCTCGAGCAGAAACTAGAAC+AGG + chr2.1:75885407-75885426 MS.gene00607:CDS 50.0%
GCTTGGAATGGAAGCCAATC+TGG + chr2.1:75885983-75886002 MS.gene00607:CDS 50.0%
GGACACTGTTGATCTTGGTG+GGG + chr2.1:75885488-75885507 MS.gene00607:intron 50.0%
GTGGACACTGTTGATCTTGG+TGG + chr2.1:75885486-75885505 MS.gene00607:intron 50.0%
TCACCATTCATCACCACCTC+TGG + chr2.1:75884940-75884959 MS.gene00607:CDS 50.0%
! TGTATGCCATCATGGGTTGC+TGG - chr2.1:75885962-75885981 None:intergenic 50.0%
TGCTCCAAAGAGGGTAGACG+CGG + chr2.1:75885353-75885372 MS.gene00607:CDS 55.0%
! GGACTTTGAGTCTGAGGCCT+TGG + chr2.1:75885223-75885242 MS.gene00607:CDS 55.0%
! TGCCCAGAGGTGGTGATGAA+TGG - chr2.1:75884946-75884965 None:intergenic 55.0%
ATCTTACCGGTGCCCAGAGG+TGG - chr2.1:75884956-75884975 None:intergenic 60.0%
GACACCGCGTCTACCCTCTT+TGG - chr2.1:75885360-75885379 None:intergenic 60.0%
TCATCACCACCTCTGGGCAC+CGG + chr2.1:75884947-75884966 MS.gene00607:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 75884902 75886132 75884902 ID=MS.gene00607
chr2.1 mRNA 75884902 75886132 75884902 ID=MS.gene00607.t1;Parent=MS.gene00607
chr2.1 exon 75884902 75884968 75884902 ID=MS.gene00607.t1.exon1;Parent=MS.gene00607.t1
chr2.1 CDS 75884902 75884968 75884902 ID=cds.MS.gene00607.t1;Parent=MS.gene00607.t1
chr2.1 exon 75885111 75885445 75885111 ID=MS.gene00607.t1.exon2;Parent=MS.gene00607.t1
chr2.1 CDS 75885111 75885445 75885111 ID=cds.MS.gene00607.t1;Parent=MS.gene00607.t1
chr2.1 exon 75885727 75885792 75885727 ID=MS.gene00607.t1.exon3;Parent=MS.gene00607.t1
chr2.1 CDS 75885727 75885792 75885727 ID=cds.MS.gene00607.t1;Parent=MS.gene00607.t1
chr2.1 exon 75885950 75886132 75885950 ID=MS.gene00607.t1.exon4;Parent=MS.gene00607.t1
chr2.1 CDS 75885950 75886132 75885950 ID=cds.MS.gene00607.t1;Parent=MS.gene00607.t1
Gene Sequence

>MS.gene00607

ATGGTAGAAACGACACACGTAGAACATGATGCAAATCTTCACCATTCATCACCACCTCTGGGCACCGGTAAGATTTTGTTCTTTGTCGATGAATATACACACGTAGAACATGAATATTTGAAAGTATTTGGACAATATAAAATTAATATAAAATGTCTATGAATATTAACATGTTGACTTTATATTTTTTTTTTCTTTCCATTTTCTAGATAATGTGAATATTACATCCAATCCAATGGTTGAAGGTGTAGAAAAATTGGTGAATGATATCGTGCAACAGGGAAAAGAGAGTACTGTTAGTAATGTACCACACTTGGAAATGGACTTTGAGTCTGAGGCCTTGGCATATGAATTTTATAATGAGTATAGTAGGAAATGTGGTTTTGGTATCCGTCGAGAATATGCAAATAAAAGCAAAAAAGATGGAGTTCTTACTTCAAGAAAATTTGTGTGCTCCAAAGAGGGTAGACGCGGTGTCGACAAACGTGATTACTTAACAAAAGAGGCTCGAGCAGAAACTAGAACAGGATGTTTAGCACGTATGGTTATTTCACTTGATTGGAAATGAAAAAAAGGATCAGAATGTGGACACTGTTGATCTTGGTGGGGCAAAAGCAATAAAGAGCCGAGATTGCTTAGATAGGACTAAAAAAAGGTATCCAACTTGGCTTGAGAAATTGGATAAAAAGAGACAAAAAAGGCTATCACAGACTAAGAGAAAGAAAAAATTGGTAAACAACTCTTTACTTTCTTTTTAACATGTGCCTAGAATTTTAGTACTGCTATCACATATACATAATACATGTTACTTTTACTACTATGTAGGAACAATCTCCTGCAAACAATGATGGTACACATGCTTTGAATGGAAGGAAGAGAAAGAAAAAATTGGTAAAAATATCCATACTTTCTTTTTAACATGTGACAGAATTTCAGTACTGCTATCACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATACATGTTACTTCTACTATTATGTAGGAACAATCTCCAGCAACCCATGATGGCATACATGCTTGGAATGGAAGCCAATCTGGATATGGAAGCCATGCTTTGATGGCATCTCAAACTGAGAATGCAAGTCGACATTTACCTTTAACAGAAGCTGACAATGGAAGTCTACATGAGATTAGGATCCAAATGTCAAATGAGATTAGGATCTAA
Protein sequence

>MS.gene00607.t1

MVETTHVEHDANLHHSSPPLGTDNVNITSNPMVEGVEKLVNDIVQQGKESTVSNVPHLEMDFESEALAYEFYNEYSRKCGFGIRREYANKSKKDGVLTSRKFVCSKEGRRGVDKRDYLTKEARAETRTGCLARMEQSPANNDGTHALNGRKRKKKLEQSPATHDGIHAWNGSQSGYGSHALMASQTENASRHLPLTEADNGSLHEIRIQMSNEIRI