AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95230


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95230.t1 MTR_7g107200 31.973 294 169 4 10 277 73 361 9.87e-47 160
MS.gene95230.t1 MTR_8g011730 32.302 291 141 7 11 268 75 342 1.87e-40 144
MS.gene95230.t1 MTR_1g042160 32.014 278 141 8 10 286 72 302 4.58e-37 134
MS.gene95230.t1 MTR_7g107170 43.704 135 73 2 150 284 124 255 2.20e-29 112
MS.gene95230.t1 MTR_7g107170 41.463 82 47 1 194 275 1 81 7.18e-11 61.6
MS.gene95230.t1 MTR_7g107160 31.786 280 150 8 10 286 196 437 1.23e-27 111
MS.gene95230.t1 MTR_2g034780 31.892 185 116 3 95 279 81 255 5.35e-26 103
MS.gene95230.t1 MTR_3g079840 43.590 78 42 2 2 77 104 181 3.30e-11 64.3
MS.gene95230.t1 MTR_3g079840 43.590 78 42 2 2 77 105 182 3.37e-11 64.3
MS.gene95230.t1 MTR_5g086700 42.308 78 43 2 2 77 109 186 6.81e-11 63.2
MS.gene95230.t1 MTR_5g086700 42.308 78 43 2 2 77 109 186 7.00e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95230.t1 AT3G11910 42.308 78 43 2 2 77 103 180 3.02e-11 64.3
MS.gene95230.t1 AT3G11910 42.308 78 43 2 2 77 103 180 3.02e-11 64.3
MS.gene95230.t1 AT3G11910 42.308 78 43 2 2 77 102 179 3.16e-11 64.3
MS.gene95230.t1 AT3G11910 42.308 78 43 2 2 77 102 179 3.16e-11 64.3
MS.gene95230.t1 AT5G06600 40.845 71 41 1 8 77 111 181 3.90e-11 63.9
MS.gene95230.t1 AT5G06600 40.845 71 41 1 8 77 110 180 4.27e-11 63.9
MS.gene95230.t1 AT5G06600 40.845 71 41 1 8 77 111 181 4.31e-11 63.9

Find 52 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATGAATTTATTGAAATTT+AGG 0.097481 1.4:-78275700 None:intergenic
TTTAGGTGTGAAACCTTATT+TGG 0.176545 1.4:+78276231 MS.gene95230:CDS
TAGCATTAACATTCATTTCT+TGG 0.196289 1.4:-78276396 None:intergenic
TCACAAGATACCCTTGTTTA+TGG 0.211988 1.4:-78275724 None:intergenic
TTGCTTGCTCTTTCCAAATA+AGG 0.215332 1.4:-78276244 None:intergenic
CCTTATGTTCAATCTGCTTT+AGG 0.228849 1.4:+78276214 MS.gene95230:CDS
TCATCTGAAGATTGATCTAT+TGG 0.237578 1.4:-78275836 None:intergenic
ATTAAGACAATTTATAGATT+TGG 0.265024 1.4:+78275937 MS.gene95230:CDS
CAATGGGCGTTTATTTCATT+AGG 0.313100 1.4:+78276067 MS.gene95230:CDS
GATGTTGAACCTGATGTTCT+TGG 0.313287 1.4:-78275875 None:intergenic
AAGAACAAGAACATTGTAAA+AGG 0.329093 1.4:+78275229 MS.gene95230:CDS
ATCCCATTTGTTTCGACAAT+GGG 0.343222 1.4:+78276051 MS.gene95230:CDS
TGGAAATGAACTTTGGTTCA+AGG 0.380244 1.4:-78275816 None:intergenic
GAAGAGGCTTAGAGATGAAT+TGG 0.381597 1.4:+78276312 MS.gene95230:CDS
GCTGATTCTTTACCACCATA+TGG 0.384239 1.4:+78275157 MS.gene95230:CDS
AAGCAAATTGAAGAAATTAC+AGG 0.385891 1.4:+78276261 MS.gene95230:CDS
ACAGGACAAAGTTGTTGCTT+TGG 0.396787 1.4:+78276279 MS.gene95230:CDS
ACGCCCATTGTCGAAACAAA+TGG 0.410934 1.4:-78276054 None:intergenic
CCTTGAATCTCTCCTTCATC+TGG 0.419768 1.4:-78275902 None:intergenic
CCTAAAGCAGATTGAACATA+AGG 0.421896 1.4:-78276214 None:intergenic
TAAATAATCTTAAGAGTTTG+TGG 0.433992 1.4:+78276146 MS.gene95230:CDS
GATCTATTGGAAATGAACTT+TGG 0.439000 1.4:-78275823 None:intergenic
CATCGGAATTCGACTTGAGT+TGG 0.457368 1.4:+78276185 MS.gene95230:CDS
GTTAGTTCTCGTTAATCAGC+TGG 0.462338 1.4:+78275204 MS.gene95230:CDS
TCAATGGAGGATATAAAAGC+TGG 0.462376 1.4:+78275666 MS.gene95230:CDS
GAGACTCAGCAAAAGTTCAA+TGG 0.462872 1.4:+78275650 MS.gene95230:intron
AGCTTGTCAGAAATCAGAAA+TGG 0.467999 1.4:+78276370 MS.gene95230:CDS
CGCCCATTGTCGAAACAAAT+GGG 0.469097 1.4:-78276053 None:intergenic
ACAATTAGTCCAAGAACATC+AGG 0.475342 1.4:+78275866 MS.gene95230:CDS
AGATCAATCTTCAGATGAAA+GGG 0.481922 1.4:+78275841 MS.gene95230:CDS
TGCTTCACAAGCAGAGTTTG+AGG 0.482699 1.4:+78276336 MS.gene95230:CDS
TAGATCAATCTTCAGATGAA+AGG 0.487674 1.4:+78275840 MS.gene95230:CDS
CCAGATGAAGGAGAGATTCA+AGG 0.488343 1.4:+78275902 MS.gene95230:CDS
ATTCTTTACCACCATATGGA+TGG 0.506704 1.4:+78275161 MS.gene95230:CDS
AATCCCATTTGTTTCGACAA+TGG 0.512561 1.4:+78276050 MS.gene95230:CDS
AAATAATCTTAAGAGTTTGT+GGG 0.516642 1.4:+78276147 MS.gene95230:CDS
TTCTTTACCACCATATGGAT+GGG 0.526863 1.4:+78275162 MS.gene95230:CDS
GTGTTTCTATCCCATCCATA+TGG 0.542297 1.4:-78275172 None:intergenic
AGACAATTTATAGATTTGGA+TGG 0.545332 1.4:+78275941 MS.gene95230:CDS
CAATGGAGGATATAAAAGCT+GGG 0.546519 1.4:+78275667 MS.gene95230:CDS
AAGCAGAGTTTGAGGTTGCA+AGG 0.553922 1.4:+78276344 MS.gene95230:CDS
CTTTGGATATTAAAATGAAG+AGG 0.557203 1.4:+78276296 MS.gene95230:CDS
ATTTGACTTTGTATCAAAGA+CGG 0.558711 1.4:-78276022 None:intergenic
AACGAGAACTAACTTGAAGA+AGG 0.575362 1.4:-78275194 None:intergenic
TCAACATCTAGTCCAGATGA+AGG 0.586033 1.4:+78275890 MS.gene95230:CDS
AAATTCATTGACCATAAACA+AGG 0.592420 1.4:+78275713 MS.gene95230:CDS
GGAGGAACTAGCAAAATCAT+CGG 0.617394 1.4:+78276168 MS.gene95230:CDS
TAATCTTAAGAGTTTGTGGG+AGG 0.635857 1.4:+78276150 MS.gene95230:CDS
TTTCTATCCCATCCATATGG+TGG 0.636196 1.4:-78275169 None:intergenic
ACTCAGCAAAAGTTCAATGG+AGG 0.650485 1.4:+78275653 MS.gene95230:CDS
AATTCATTGACCATAAACAA+GGG 0.668373 1.4:+78275714 MS.gene95230:CDS
AATGGAGGATATAAAAGCTG+GGG 0.683441 1.4:+78275668 MS.gene95230:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAAAAATATTATTATTAG+AGG - chr1.4:78275587-78275606 None:intergenic 10.0%
!! ATTAAGACAATTTATAGATT+TGG + chr1.4:78275937-78275956 MS.gene95230:CDS 15.0%
!! CAATGAATTTATTGAAATTT+AGG - chr1.4:78275703-78275722 None:intergenic 15.0%
!! AAATAATCTTAAGAGTTTGT+GGG + chr1.4:78276147-78276166 MS.gene95230:CDS 20.0%
!! ATAAATGACAAAACTAGTAA+AGG - chr1.4:78275279-78275298 None:intergenic 20.0%
!! TAAATAATCTTAAGAGTTTG+TGG + chr1.4:78276146-78276165 MS.gene95230:CDS 20.0%
!! TAAATGACAAAACTAGTAAA+GGG - chr1.4:78275278-78275297 None:intergenic 20.0%
!! TCTACTAAATCACTATAAAT+TGG - chr1.4:78275318-78275337 None:intergenic 20.0%
! AAATTCATTGACCATAAACA+AGG + chr1.4:78275713-78275732 MS.gene95230:CDS 25.0%
! AAGAACAAGAACATTGTAAA+AGG + chr1.4:78275229-78275248 MS.gene95230:CDS 25.0%
! AAGCAAATTGAAGAAATTAC+AGG + chr1.4:78276261-78276280 MS.gene95230:CDS 25.0%
! AATTCATTGACCATAAACAA+GGG + chr1.4:78275714-78275733 MS.gene95230:CDS 25.0%
! AGACAATTTATAGATTTGGA+TGG + chr1.4:78275941-78275960 MS.gene95230:CDS 25.0%
! CTTTGGATATTAAAATGAAG+AGG + chr1.4:78276296-78276315 MS.gene95230:CDS 25.0%
!! ATTTGACTTTGTATCAAAGA+CGG - chr1.4:78276025-78276044 None:intergenic 25.0%
!! ATTTTAGACTTCTAGATGAA+AGG + chr1.4:78275504-78275523 MS.gene95230:intron 25.0%
!! GAATTGATGTCATGAATTTT+TGG - chr1.4:78275797-78275816 None:intergenic 25.0%
!! TTTTAGACTTCTAGATGAAA+GGG + chr1.4:78275505-78275524 MS.gene95230:intron 25.0%
AAAGGGAAGAATGAAAATCT+GGG - chr1.4:78275261-78275280 None:intergenic 30.0%
AGATCAATCTTCAGATGAAA+GGG + chr1.4:78275841-78275860 MS.gene95230:CDS 30.0%
ATGAGCAGTTTGATCTTAAT+AGG + chr1.4:78275408-78275427 MS.gene95230:intron 30.0%
GATCTATTGGAAATGAACTT+TGG - chr1.4:78275826-78275845 None:intergenic 30.0%
TAAAGGGAAGAATGAAAATC+TGG - chr1.4:78275262-78275281 None:intergenic 30.0%
TAGATCAATCTTCAGATGAA+AGG + chr1.4:78275840-78275859 MS.gene95230:CDS 30.0%
TCATCTGAAGATTGATCTAT+TGG - chr1.4:78275839-78275858 None:intergenic 30.0%
TGAGCAGTTTGATCTTAATA+GGG + chr1.4:78275409-78275428 MS.gene95230:intron 30.0%
TTTAGGTGTGAAACCTTATT+TGG + chr1.4:78276231-78276250 MS.gene95230:CDS 30.0%
AACGAGAACTAACTTGAAGA+AGG - chr1.4:78275197-78275216 None:intergenic 35.0%
AAGATCTAAAGGCTCATATC+TGG + chr1.4:78275374-78275393 MS.gene95230:intron 35.0%
AATCCCATTTGTTTCGACAA+TGG + chr1.4:78276050-78276069 MS.gene95230:CDS 35.0%
AATGGAGGATATAAAAGCTG+GGG + chr1.4:78275668-78275687 MS.gene95230:CDS 35.0%
ACAATTAGTCCAAGAACATC+AGG + chr1.4:78275866-78275885 MS.gene95230:CDS 35.0%
ACGTCCTAAACAAGATCTAA+AGG + chr1.4:78275363-78275382 MS.gene95230:intron 35.0%
ACGTTACTTACATGACTGTA+GGG + chr1.4:78275458-78275477 MS.gene95230:intron 35.0%
AGCTTGTCAGAAATCAGAAA+TGG + chr1.4:78276370-78276389 MS.gene95230:CDS 35.0%
ATCCCATTTGTTTCGACAAT+GGG + chr1.4:78276051-78276070 MS.gene95230:CDS 35.0%
ATTCTTTACCACCATATGGA+TGG + chr1.4:78275161-78275180 MS.gene95230:CDS 35.0%
CAATGGAGGATATAAAAGCT+GGG + chr1.4:78275667-78275686 MS.gene95230:CDS 35.0%
CAATGGGCGTTTATTTCATT+AGG + chr1.4:78276067-78276086 MS.gene95230:CDS 35.0%
CCTAAAGCAGATTGAACATA+AGG - chr1.4:78276217-78276236 None:intergenic 35.0%
CCTTATGTTCAATCTGCTTT+AGG + chr1.4:78276214-78276233 MS.gene95230:CDS 35.0%
TAATCTTAAGAGTTTGTGGG+AGG + chr1.4:78276150-78276169 MS.gene95230:CDS 35.0%
TACGTTACTTACATGACTGT+AGG + chr1.4:78275457-78275476 MS.gene95230:intron 35.0%
TCAATGGAGGATATAAAAGC+TGG + chr1.4:78275666-78275685 MS.gene95230:CDS 35.0%
TTCTTTACCACCATATGGAT+GGG + chr1.4:78275162-78275181 MS.gene95230:CDS 35.0%
TTGCTTGCTCTTTCCAAATA+AGG - chr1.4:78276247-78276266 None:intergenic 35.0%
! CGGAACAAAATGCTTTTCTT+CGG - chr1.4:78275975-78275994 None:intergenic 35.0%
! GGAACAAAATGCTTTTCTTC+GGG - chr1.4:78275974-78275993 None:intergenic 35.0%
! GTGCAAACTTCCTCTAAAAA+CGG - chr1.4:78275995-78276014 None:intergenic 35.0%
! TCACAAGATACCCTTGTTTA+TGG - chr1.4:78275727-78275746 None:intergenic 35.0%
! TGAGCCTTTAGATCTTGTTT+AGG - chr1.4:78275370-78275389 None:intergenic 35.0%
! TGGAAATGAACTTTGGTTCA+AGG - chr1.4:78275819-78275838 None:intergenic 35.0%
!! GCATTTTGTTCCGTTTTTAG+AGG + chr1.4:78275982-78276001 MS.gene95230:CDS 35.0%
ACTCAGCAAAAGTTCAATGG+AGG + chr1.4:78275653-78275672 MS.gene95230:CDS 40.0%
GAAGAGGCTTAGAGATGAAT+TGG + chr1.4:78276312-78276331 MS.gene95230:CDS 40.0%
GAGACTCAGCAAAAGTTCAA+TGG + chr1.4:78275650-78275669 MS.gene95230:intron 40.0%
GATGTTGAACCTGATGTTCT+TGG - chr1.4:78275878-78275897 None:intergenic 40.0%
GGAGGAACTAGCAAAATCAT+CGG + chr1.4:78276168-78276187 MS.gene95230:CDS 40.0%
TCAACATCTAGTCCAGATGA+AGG + chr1.4:78275890-78275909 MS.gene95230:CDS 40.0%
TTTCTATCCCATCCATATGG+TGG - chr1.4:78275172-78275191 None:intergenic 40.0%
! ACAGGACAAAGTTGTTGCTT+TGG + chr1.4:78276279-78276298 MS.gene95230:CDS 40.0%
! CCTAACTTACTGATTGGGTA+GGG - chr1.4:78275343-78275362 None:intergenic 40.0%
! GACGTCCTAACTTACTGATT+GGG - chr1.4:78275348-78275367 None:intergenic 40.0%
! GCTGATTCTTTACCACCATA+TGG + chr1.4:78275157-78275176 MS.gene95230:CDS 40.0%
! GTGTTTCTATCCCATCCATA+TGG - chr1.4:78275175-78275194 None:intergenic 40.0%
! GTTAGTTCTCGTTAATCAGC+TGG + chr1.4:78275204-78275223 MS.gene95230:CDS 40.0%
! TCCTAACTTACTGATTGGGT+AGG - chr1.4:78275344-78275363 None:intergenic 40.0%
!! TTTTAGAGGAAGTTTGCACG+TGG + chr1.4:78275996-78276015 MS.gene95230:CDS 40.0%
ACGCCCATTGTCGAAACAAA+TGG - chr1.4:78276057-78276076 None:intergenic 45.0%
CCAGATGAAGGAGAGATTCA+AGG + chr1.4:78275902-78275921 MS.gene95230:CDS 45.0%
CCCTACCCAATCAGTAAGTT+AGG + chr1.4:78275340-78275359 MS.gene95230:intron 45.0%
CCTTGAATCTCTCCTTCATC+TGG - chr1.4:78275905-78275924 None:intergenic 45.0%
CGCCCATTGTCGAAACAAAT+GGG - chr1.4:78276056-78276075 None:intergenic 45.0%
GGACGTCCTAACTTACTGAT+TGG - chr1.4:78275349-78275368 None:intergenic 45.0%
TGCTTCACAAGCAGAGTTTG+AGG + chr1.4:78276336-78276355 MS.gene95230:CDS 45.0%
! AAGCAGAGTTTGAGGTTGCA+AGG + chr1.4:78276344-78276363 MS.gene95230:CDS 45.0%
! CATCGGAATTCGACTTGAGT+TGG + chr1.4:78276185-78276204 MS.gene95230:CDS 45.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 78275151 78276408 78275151 ID=MS.gene95230
chr1.4 mRNA 78275151 78276408 78275151 ID=MS.gene95230.t1;Parent=MS.gene95230
chr1.4 exon 78275151 78275250 78275151 ID=MS.gene95230.t1.exon1;Parent=MS.gene95230.t1
chr1.4 CDS 78275151 78275250 78275151 ID=cds.MS.gene95230.t1;Parent=MS.gene95230.t1
chr1.4 exon 78275651 78276408 78275651 ID=MS.gene95230.t1.exon2;Parent=MS.gene95230.t1
chr1.4 CDS 78275651 78276408 78275651 ID=cds.MS.gene95230.t1;Parent=MS.gene95230.t1
Gene Sequence

>MS.gene95230

ATGGTTGCTGATTCTTTACCACCATATGGATGGGATAGAAACACCTTCTTCAAGTTAGTTCTCGTTAATCAGCTGGATAAGAACAAGAACATTGTAAAAGGTTCTAACCCAGATTTTCATTCTTCCCTTTACTAGTTTTGTCATTTATAATAACTAATTTTAAACCAATTTATAGTGATTTAGTAGATTCCCTACCCAATCAGTAAGTTAGGACGTCCTAAACAAGATCTAAAGGCTCATATCTGGTTTTCTCAAATATGAGCAGTTTGATCTTAATAGGGCGATACTGACTTGCTGATTGTGTTATACGTTACTTACATGACTGTAGGGAATTGAGACTATTTTGAGACTTAATTTTAGACTTCTAGATGAAAGGGAATTGAGACTTCTAGATCTAAATTTTAGACTTCTAGATTCTATTTTGAGATATTTTCCTCTAATAATAATATTTTTTGTTAAATTGAAAGCTAATTCTTCTTATGCGTACTTATTATTTTTAGAGACTCAGCAAAAGTTCAATGGAGGATATAAAAGCTGGGGTGCATTTTTCCTAAATTTCAATAAATTCATTGACCATAAACAAGGGTATCTTGTGAGAGACACATGCATAATTGAAGCTCATATTTGTGTGTCTAACTTTGCACCAAAAATTCATGACATCAATTCCTTGAACCAAAGTTCATTTCCAATAGATCAATCTTCAGATGAAAGGGAAACAATTAGTCCAAGAACATCAGGTTCAACATCTAGTCCAGATGAAGGAGAGATTCAAGGTTCAGATTTAACATTAAGACAATTTATAGATTTGGATGGCTTAAAACCCGAAGAAAAGCATTTTGTTCCGTTTTTAGAGGAAGTTTGCACGTGGCGTCCGTCTTTGATACAAAGTCAAATGAAAAAATCCCATTTGTTTCGACAATGGGCGTTTATTTCATTAGGAAAAGTTCTGTATTTTCTTAAGACGAAGAAAGTGAAAGATATGAGTGAAGATGACATAAATAATCTTAAGAGTTTGTGGGAGGAACTAGCAAAATCATCGGAATTCGACTTGAGTTGGTTAGAGCCTTATGTTCAATCTGCTTTAGGTGTGAAACCTTATTTGGAAAGAGCAAGCAAATTGAAGAAATTACAGGACAAAGTTGTTGCTTTGGATATTAAAATGAAGAGGCTTAGAGATGAATTGGCTGCTTCACAAGCAGAGTTTGAGGTTGCAAGGAAAAGCTTGTCAGAAATCAGAAATGGTTTCCAAGAAATGAAT

Protein sequence

>MS.gene95230.t1

MVADSLPPYGWDRNTFFKLVLVNQLDKNKNIVKETQQKFNGGYKSWGAFFLNFNKFIDHKQGYLVRDTCIIEAHICVSNFAPKIHDINSLNQSSFPIDQSSDERETISPRTSGSTSSPDEGEIQGSDLTLRQFIDLDGLKPEEKHFVPFLEEVCTWRPSLIQSQMKKSHLFRQWAFISLGKVLYFLKTKKVKDMSEDDINNLKSLWEELAKSSEFDLSWLEPYVQSALGVKPYLERASKLKKLQDKVVALDIKMKRLRDELAASQAEFEVARKSLSEIRNGFQEMN