AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene041795


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene041795.t1 MTR_4g122260 93.252 163 11 0 1 163 1 163 5.38e-110 310
MS.gene041795.t1 MTR_1g076650 29.252 147 96 3 10 154 6 146 3.16e-14 66.2
MS.gene041795.t1 MTR_1g071150 28.378 148 101 2 10 157 6 148 7.91e-14 65.5
MS.gene041795.t1 MTR_5g017550 28.477 151 103 3 4 154 36 181 3.27e-13 64.7
MS.gene041795.t1 MTR_1g041285 28.082 146 97 3 11 154 7 146 2.29e-11 58.9
MS.gene041795.t1 MTR_7g115040 30.216 139 93 2 16 154 12 146 4.72e-11 58.2
MS.gene041795.t1 MTR_7g087610 25.000 140 101 2 15 154 11 146 9.48e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene041795.t1 AT5G49480 57.669 163 55 3 1 154 1 158 1.44e-56 175
MS.gene041795.t1 AT3G22930 30.000 150 97 3 10 157 29 172 1.19e-14 68.2
MS.gene041795.t1 AT4G14640 29.577 142 92 3 15 154 12 147 4.15e-13 63.5
MS.gene041795.t1 AT4G37010 26.115 157 104 3 6 154 13 165 1.65e-12 62.4
MS.gene041795.t1 AT4G37010 26.115 157 104 3 6 154 9 161 1.67e-12 62.4
MS.gene041795.t1 AT1G18530 27.397 146 101 2 17 159 8 151 1.34e-11 59.7
MS.gene041795.t1 AT3G43810 24.324 148 100 3 15 158 11 150 9.59e-11 58.5

Find 59 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTACTGATGAAGAGATTA+AGG 0.345504 8.3:-6543301 MS.gene041795:CDS
TGGAGATTTGAAGAATTATA+TGG 0.346456 8.3:-6543340 MS.gene041795:CDS
AAGTCGGTTGTGCTAGGTTG+TGG 0.373923 8.3:+6543645 None:intergenic
TTTGAAGAATTATATGGCTT+GGG 0.391177 8.3:-6543334 MS.gene041795:CDS
GAAAAGAGAGCGTTGGGATG+TGG 0.396765 8.3:-6543420 MS.gene041795:CDS
AACATCATCATGTGTCCATC+TGG 0.418396 8.3:-6543681 None:intergenic
ACAGTCACAGGTGGCGTGAA+TGG 0.423179 8.3:-6543546 MS.gene041795:CDS
AACGGTGGCGTTAGCTTCGA+TGG 0.425296 8.3:-6543249 MS.gene041795:CDS
ATTTGAAGAATTATATGGCT+TGG 0.438657 8.3:-6543335 MS.gene041795:CDS
AATTAATTGAATCAATTAGC+TGG 0.438984 8.3:+6543192 None:intergenic
TAGGTTGTGGGCGGAGGCTA+CGG 0.443861 8.3:+6543658 None:intergenic
GGTCGGAAGTCGGTTGTGCT+AGG 0.461824 8.3:+6543639 None:intergenic
AGTCGGTTGTGCTAGGTTGT+GGG 0.462510 8.3:+6543646 None:intergenic
ATTCACGCCACCTGTGACTG+TGG 0.465058 8.3:+6543548 None:intergenic
TTGTGCTAGGTTGTGGGCGG+AGG 0.474583 8.3:+6543652 None:intergenic
AAGAATTATATGGCTTGGGC+TGG 0.482717 8.3:-6543330 MS.gene041795:CDS
CTCCACGAATCCATCCTTGT+TGG 0.484249 8.3:+6543482 None:intergenic
AATGGAGAAAAGAGAGCGTT+GGG 0.487401 8.3:-6543426 MS.gene041795:CDS
ATTAAGGCTATGATTAAGCT+TGG 0.501005 8.3:-6543285 MS.gene041795:CDS
CGGTGCCATGATGTCGGTGG+CGG 0.526043 8.3:-6543508 MS.gene041795:CDS
AAAAGAGAGCGTTGGGATGT+GGG 0.529403 8.3:-6543419 MS.gene041795:CDS
GTCAAATGCCGGTCGGAAGT+CGG 0.535676 8.3:+6543629 None:intergenic
CAATGGAGAAAAGAGAGCGT+TGG 0.541706 8.3:-6543427 MS.gene041795:CDS
GGCCATGGAAGATGTGTTCA+AGG 0.543484 8.3:-6543397 MS.gene041795:CDS
GGAAGATGTGTTCAAGGTGA+TGG 0.543516 8.3:-6543391 MS.gene041795:CDS
CACCTTGAACACATCTTCCA+TGG 0.544540 8.3:+6543395 None:intergenic
TCATTCTACGCCACAGTCAC+AGG 0.546712 8.3:-6543558 MS.gene041795:CDS
AGCGTTGGGATGTGGGGCCA+TGG 0.550034 8.3:-6543412 MS.gene041795:CDS
GGTGTCCGCCACCGACATCA+TGG 0.552161 8.3:+6543503 None:intergenic
GGGCGGAGGCTACGGCCAGA+TGG 0.563386 8.3:+6543666 None:intergenic
CACCAACAAGGATGGATTCG+TGG 0.565557 8.3:-6543484 MS.gene041795:CDS
AAGGCTATGATTAAGCTTGG+TGG 0.567678 8.3:-6543282 MS.gene041795:CDS
GAATTCGAGCGGGTGGTTAG+CGG 0.572181 8.3:-6543453 MS.gene041795:CDS
TGTGATGGTAAGCTTAGTCA+TGG 0.573041 8.3:-6543360 MS.gene041795:CDS
AGAATGAACGGAGGTCATCA+CGG 0.579774 8.3:+6543574 None:intergenic
GTGGCGGACACCAACAAGGA+TGG 0.583986 8.3:-6543492 MS.gene041795:CDS
AATGGAGGAGACGATGCAAT+CGG 0.588136 8.3:-6543528 MS.gene041795:CDS
ATTCTTGACACCGATTGCGA+CGG 0.588733 8.3:-6543606 MS.gene041795:CDS
GTGTCAAGAATGTCAAATGC+CGG 0.601112 8.3:+6543618 None:intergenic
CGGGTGGTTAGCGGAAACAA+TGG 0.602363 8.3:-6543444 MS.gene041795:CDS
GTCACAGGTGGCGTGAATGG+AGG 0.607930 8.3:-6543543 MS.gene041795:CDS
GGAGTACGAGGAATTCGAGC+GGG 0.609161 8.3:-6543463 MS.gene041795:CDS
AAAGAGAGCGTTGGGATGTG+GGG 0.611324 8.3:-6543418 MS.gene041795:CDS
TAGCACAACCGACTTCCGAC+CGG 0.613292 8.3:-6543637 MS.gene041795:CDS
CTTGGTGGTGGTGATCAAAA+CGG 0.629557 8.3:-6543267 MS.gene041795:CDS
GGATGGATTCGTGGAGTACG+AGG 0.629636 8.3:-6543475 MS.gene041795:CDS
GTCGGTGGCGGACACCAACA+AGG 0.635758 8.3:-6543496 MS.gene041795:CDS
TGCAATCGGTGCCATGATGT+CGG 0.643160 8.3:-6543514 MS.gene041795:CDS
GTACGAGGAATTCGAGCGGG+TGG 0.644464 8.3:-6543460 MS.gene041795:CDS
CGGTTGTGCTAGGTTGTGGG+CGG 0.647620 8.3:+6543649 None:intergenic
CAAGAATGTCAAATGCCGGT+CGG 0.649071 8.3:+6543622 None:intergenic
TGACTGTGGCGTAGAATGAA+CGG 0.660507 8.3:+6543562 None:intergenic
GCTATGATTAAGCTTGGTGG+TGG 0.672010 8.3:-6543279 MS.gene041795:CDS
TTCTACGCCACAGTCACAGG+TGG 0.673372 8.3:-6543555 MS.gene041795:CDS
AATCGGTGCCATGATGTCGG+TGG 0.708734 8.3:-6543511 MS.gene041795:CDS
GGTGGTGGTGATCAAAACGG+TGG 0.729393 8.3:-6543264 MS.gene041795:CDS
TGGAGTACGAGGAATTCGAG+CGG 0.729660 8.3:-6543464 MS.gene041795:CDS
GTGATGGATAGAGATTGTGA+TGG 0.773795 8.3:-6543375 MS.gene041795:CDS
CTGTGGCGTAGAATGAACGG+AGG 0.784689 8.3:+6543565 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTTGAAGAATTATATGGCT+TGG - chr8.3:6543540-6543559 MS.gene041795:CDS 25.0%
! TGGAGATTTGAAGAATTATA+TGG - chr8.3:6543535-6543554 MS.gene041795:CDS 25.0%
! TTTGAAGAATTATATGGCTT+GGG - chr8.3:6543541-6543560 MS.gene041795:CDS 25.0%
ATTAAGGCTATGATTAAGCT+TGG - chr8.3:6543590-6543609 MS.gene041795:CDS 30.0%
TGCTACTGATGAAGAGATTA+AGG - chr8.3:6543574-6543593 MS.gene041795:CDS 35.0%
AAGGCTATGATTAAGCTTGG+TGG - chr8.3:6543593-6543612 MS.gene041795:CDS 40.0%
GTGTCAAGAATGTCAAATGC+CGG + chr8.3:6543260-6543279 None:intergenic 40.0%
TGTGATGGTAAGCTTAGTCA+TGG - chr8.3:6543515-6543534 MS.gene041795:CDS 40.0%
! AAGAATTATATGGCTTGGGC+TGG - chr8.3:6543545-6543564 MS.gene041795:CDS 40.0%
!! AATGGAGAAAAGAGAGCGTT+GGG - chr8.3:6543449-6543468 MS.gene041795:CDS 40.0%
!! GTGATGGATAGAGATTGTGA+TGG - chr8.3:6543500-6543519 MS.gene041795:CDS 40.0%
AATGGAGGAGACGATGCAAT+CGG - chr8.3:6543347-6543366 MS.gene041795:CDS 45.0%
AGAATGAACGGAGGTCATCA+CGG + chr8.3:6543304-6543323 None:intergenic 45.0%
CAAGAATGTCAAATGCCGGT+CGG + chr8.3:6543256-6543275 None:intergenic 45.0%
CACCTTGAACACATCTTCCA+TGG + chr8.3:6543483-6543502 None:intergenic 45.0%
GGAAGATGTGTTCAAGGTGA+TGG - chr8.3:6543484-6543503 MS.gene041795:CDS 45.0%
TGACTGTGGCGTAGAATGAA+CGG + chr8.3:6543316-6543335 None:intergenic 45.0%
! ATTCTTGACACCGATTGCGA+CGG - chr8.3:6543269-6543288 MS.gene041795:CDS 45.0%
! CAATGGAGAAAAGAGAGCGT+TGG - chr8.3:6543448-6543467 MS.gene041795:CDS 45.0%
! GCTATGATTAAGCTTGGTGG+TGG - chr8.3:6543596-6543615 MS.gene041795:CDS 45.0%
!! AAAAGAGAGCGTTGGGATGT+GGG - chr8.3:6543456-6543475 MS.gene041795:CDS 45.0%
!! CTTGGTGGTGGTGATCAAAA+CGG - chr8.3:6543608-6543627 MS.gene041795:CDS 45.0%
!!! GCTTATTTTGCCGTCGCAAT+CGG + chr8.3:6543282-6543301 None:intergenic 45.0%
AAGTCGGTTGTGCTAGGTTG+TGG + chr8.3:6543233-6543252 None:intergenic 50.0%
AGTCGGTTGTGCTAGGTTGT+GGG + chr8.3:6543232-6543251 None:intergenic 50.0%
CTCCACGAATCCATCCTTGT+TGG + chr8.3:6543396-6543415 None:intergenic 50.0%
GGCCATGGAAGATGTGTTCA+AGG - chr8.3:6543478-6543497 MS.gene041795:CDS 50.0%
TCATTCTACGCCACAGTCAC+AGG - chr8.3:6543317-6543336 MS.gene041795:CDS 50.0%
TGGAGTACGAGGAATTCGAG+CGG - chr8.3:6543411-6543430 MS.gene041795:CDS 50.0%
! CACCAACAAGGATGGATTCG+TGG - chr8.3:6543391-6543410 MS.gene041795:CDS 50.0%
!! AAAGAGAGCGTTGGGATGTG+GGG - chr8.3:6543457-6543476 MS.gene041795:CDS 50.0%
!! GAAAAGAGAGCGTTGGGATG+TGG - chr8.3:6543455-6543474 MS.gene041795:CDS 50.0%
!! TGCAATCGGTGCCATGATGT+CGG - chr8.3:6543361-6543380 MS.gene041795:CDS 50.0%
ACAGTCACAGGTGGCGTGAA+TGG - chr8.3:6543329-6543348 MS.gene041795:CDS 55.0%
ATTCACGCCACCTGTGACTG+TGG + chr8.3:6543330-6543349 None:intergenic 55.0%
CGGGTGGTTAGCGGAAACAA+TGG - chr8.3:6543431-6543450 MS.gene041795:CDS 55.0%
CTGTGGCGTAGAATGAACGG+AGG + chr8.3:6543313-6543332 None:intergenic 55.0%
GAATTCGAGCGGGTGGTTAG+CGG - chr8.3:6543422-6543441 MS.gene041795:CDS 55.0%
GGAGTACGAGGAATTCGAGC+GGG - chr8.3:6543412-6543431 MS.gene041795:CDS 55.0%
GTCAAATGCCGGTCGGAAGT+CGG + chr8.3:6543249-6543268 None:intergenic 55.0%
TTCTACGCCACAGTCACAGG+TGG - chr8.3:6543320-6543339 MS.gene041795:CDS 55.0%
! AACGGTGGCGTTAGCTTCGA+TGG - chr8.3:6543626-6543645 MS.gene041795:CDS 55.0%
! GGATGGATTCGTGGAGTACG+AGG - chr8.3:6543400-6543419 MS.gene041795:CDS 55.0%
! GGTGGTGGTGATCAAAACGG+TGG - chr8.3:6543611-6543630 MS.gene041795:CDS 55.0%
! TAGCACAACCGACTTCCGAC+CGG - chr8.3:6543238-6543257 MS.gene041795:CDS 55.0%
!! AATCGGTGCCATGATGTCGG+TGG - chr8.3:6543364-6543383 MS.gene041795:CDS 55.0%
CGGTTGTGCTAGGTTGTGGG+CGG + chr8.3:6543229-6543248 None:intergenic 60.0%
GGTCGGAAGTCGGTTGTGCT+AGG + chr8.3:6543239-6543258 None:intergenic 60.0%
GTACGAGGAATTCGAGCGGG+TGG - chr8.3:6543415-6543434 MS.gene041795:CDS 60.0%
GTCACAGGTGGCGTGAATGG+AGG - chr8.3:6543332-6543351 MS.gene041795:CDS 60.0%
TAGGTTGTGGGCGGAGGCTA+CGG + chr8.3:6543220-6543239 None:intergenic 60.0%
TTGTGCTAGGTTGTGGGCGG+AGG + chr8.3:6543226-6543245 None:intergenic 60.0%
!! GTGGCGGACACCAACAAGGA+TGG - chr8.3:6543383-6543402 MS.gene041795:CDS 60.0%
GGTGTCCGCCACCGACATCA+TGG + chr8.3:6543375-6543394 None:intergenic 65.0%
! AGCGTTGGGATGTGGGGCCA+TGG - chr8.3:6543463-6543482 MS.gene041795:CDS 65.0%
!! CGGTGCCATGATGTCGGTGG+CGG - chr8.3:6543367-6543386 MS.gene041795:CDS 65.0%
!! GTCGGTGGCGGACACCAACA+AGG - chr8.3:6543379-6543398 MS.gene041795:CDS 65.0%
GGGCGGAGGCTACGGCCAGA+TGG + chr8.3:6543212-6543231 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 6543203 6543694 6543203 ID=MS.gene041795
chr8.3 mRNA 6543203 6543694 6543203 ID=MS.gene041795.t1;Parent=MS.gene041795
chr8.3 exon 6543203 6543694 6543203 ID=MS.gene041795.t1.exon1;Parent=MS.gene041795.t1
chr8.3 CDS 6543203 6543694 6543203 ID=cds.MS.gene041795.t1;Parent=MS.gene041795.t1
Gene Sequence

>MS.gene041795

ATGTGTCCATCTGGCCGTAGCCTCCGCCCACAACCTAGCACAACCGACTTCCGACCGGCATTTGACATTCTTGACACCGATTGCGACGGCAAAATAAGCCGTGATGACCTCCGTTCATTCTACGCCACAGTCACAGGTGGCGTGAATGGAGGAGACGATGCAATCGGTGCCATGATGTCGGTGGCGGACACCAACAAGGATGGATTCGTGGAGTACGAGGAATTCGAGCGGGTGGTTAGCGGAAACAATGGAGAAAAGAGAGCGTTGGGATGTGGGGCCATGGAAGATGTGTTCAAGGTGATGGATAGAGATTGTGATGGTAAGCTTAGTCATGGAGATTTGAAGAATTATATGGCTTGGGCTGGTTTTGATGCTACTGATGAAGAGATTAAGGCTATGATTAAGCTTGGTGGTGGTGATCAAAACGGTGGCGTTAGCTTCGATGGTTTGATTCGTTTATTAGCTCTTGATCATTTTGTACCAGCTAATTGA

Protein sequence

>MS.gene041795.t1

MCPSGRSLRPQPSTTDFRPAFDILDTDCDGKISRDDLRSFYATVTGGVNGGDDAIGAMMSVADTNKDGFVEYEEFERVVSGNNGEKRALGCGAMEDVFKVMDRDCDGKLSHGDLKNYMAWAGFDATDEEIKAMIKLGGGDQNGGVSFDGLIRLLALDHFVPAN