AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040430.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040430.01.T01 MTR_7g090140 92.056 214 17 0 2 215 309 522 7.03e-146 416
MsG0780040430.01.T01 MTR_7g090140 92.056 214 17 0 2 215 404 617 3.25e-144 416
MsG0780040430.01.T01 MTR_7g090100 84.507 213 31 2 2 213 404 615 4.41e-129 377
MsG0780040430.01.T01 MTR_7g090120 85.981 214 28 2 2 213 404 617 8.30e-129 376
MsG0780040430.01.T01 MTR_4g054150 76.667 210 48 1 2 210 383 592 1.52e-118 349
MsG0780040430.01.T01 MTR_4g054290 77.143 210 47 1 2 210 404 613 9.55e-117 345
MsG0780040430.01.T01 MTR_8g009560 59.242 211 84 1 2 210 407 617 2.90e-86 267
MsG0780040430.01.T01 MTR_8g009590 52.607 211 98 1 2 210 444 654 2.28e-78 247
MsG0780040430.01.T01 MTR_4g129630 31.963 219 136 4 2 209 409 625 2.12e-27 109
MsG0780040430.01.T01 MTR_4g054320 81.132 53 10 0 158 210 43 95 7.65e-26 96.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040430.01.T01 AT1G02190 52.830 212 94 3 2 208 408 618 2.51e-74 236
MsG0780040430.01.T01 AT1G02190 52.830 212 94 3 2 208 412 622 3.32e-74 236
MsG0780040430.01.T01 AT2G37700 53.302 212 94 2 2 208 367 578 2.06e-73 233
MsG0780040430.01.T01 AT2G37700 53.302 212 94 2 2 208 404 615 3.96e-73 233
MsG0780040430.01.T01 AT2G37700 52.381 210 90 2 2 208 404 606 6.59e-70 224
MsG0780040430.01.T01 AT1G02205 47.664 214 105 2 2 208 168 381 3.21e-68 214
MsG0780040430.01.T01 AT1G02205 47.664 214 105 2 2 208 243 456 4.25e-67 213
MsG0780040430.01.T01 AT1G02205 47.664 214 105 2 2 208 408 621 2.92e-65 212
MsG0780040430.01.T01 AT1G02205 47.664 214 105 2 2 208 407 620 5.44e-65 211
MsG0780040430.01.T01 AT1G02205 47.032 219 104 2 2 208 407 625 1.47e-64 211
MsG0780040430.01.T01 AT5G57800 31.556 225 137 4 2 213 412 632 2.79e-26 106
MsG0780040430.01.T01 AT2G37700 50.725 69 34 0 2 70 404 472 4.48e-17 79.3

Find 46 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATGATTCACCATAGTTTC+TGG 0.262385 7:-77417775 MsG0780040430.01.T01:three_prime_UTR
TTTGGAGGGGAGTGTGAAAA+TGG 0.284339 7:+77418222 None:intergenic
TACTTAGCACTAATAAAGTA+TGG 0.287196 7:-77417917 MsG0780040430.01.T01:CDS
CATGCACTCATAACTCTTCT+TGG 0.337343 7:+77418002 None:intergenic
AGCACTTGATTTGTTCCTTT+AGG 0.358378 7:+77418717 None:intergenic
GCAGGTGGTTGTATTGTATA+AGG 0.364224 7:-77418512 MsG0780040430.01.T01:intron
TCTTCGAGGCAAGTTCAATA+AGG 0.388690 7:-77418694 MsG0780040430.01.T01:CDS
TTGAAGATAAAAGTTGTAGA+TGG 0.404670 7:-77418777 MsG0780040430.01.T01:CDS
GGAATAACTCATGCTTTAGA+AGG 0.408256 7:-77417969 MsG0780040430.01.T01:CDS
CTTTCACAACTAAAACTTGA+AGG 0.409219 7:+77417820 None:intergenic
TGTGAATTCATGAATGTAGT+AGG 0.418846 7:+77418150 None:intergenic
TCAACCTTTGGAATATTAAC+CGG 0.430245 7:+77418433 None:intergenic
TGGCTTGTGAGAATCTTTAG+AGG 0.433750 7:+77417867 None:intergenic
GCCAAGCGTGACTAATCAAT+GGG 0.434207 7:-77417848 MsG0780040430.01.T01:exon
ATGAGTGCATGGCGTATTGC+TGG 0.452189 7:-77417990 MsG0780040430.01.T01:CDS
TAATAACAGATATGGTTAGT+TGG 0.455968 7:-77418300 MsG0780040430.01.T01:intron
TATGGTTAGTTGGAGATGAA+TGG 0.456856 7:-77418290 MsG0780040430.01.T01:CDS
GTAGTAGGAGTGATCATTGC+CGG 0.457163 7:+77418165 None:intergenic
TGAACCATTGCCAGAAACTA+TGG 0.459822 7:+77417765 None:intergenic
GCTTAAAGAGCTTGAACAAA+GGG 0.470188 7:-77418485 MsG0780040430.01.T01:CDS
CCCCATTGATTAGTCACGCT+TGG 0.472522 7:+77417847 None:intergenic
TTCACCATAGTTTCTGGCAA+TGG 0.489760 7:-77417769 MsG0780040430.01.T01:three_prime_UTR
GAACAAAGGGTCATCACAAA+AGG 0.490773 7:-77418472 MsG0780040430.01.T01:CDS
AGCCAAGCGTGACTAATCAA+TGG 0.494780 7:-77417849 MsG0780040430.01.T01:exon
ATGGTTAGTTGGAGATGAAT+GGG 0.501106 7:-77418289 MsG0780040430.01.T01:CDS
GTGTTGAACAACATTCCTAA+AGG 0.513501 7:-77418732 MsG0780040430.01.T01:CDS
AGGAAACTTAGCTCTTTCAC+CGG 0.523167 7:-77418452 MsG0780040430.01.T01:CDS
TAACTCATGCTTTAGAAGGA+TGG 0.533714 7:-77417965 MsG0780040430.01.T01:CDS
TTGTGAGAATCTTTAGAGGT+TGG 0.536944 7:+77417871 None:intergenic
ACTGTGAACTTTATATTCGA+AGG 0.537501 7:-77418809 MsG0780040430.01.T01:CDS
CTTGCATAAAGCATTAGCAA+TGG 0.548575 7:+77418662 None:intergenic
ACAAATCAAGTGCTTCTTCG+AGG 0.550673 7:-77418708 MsG0780040430.01.T01:CDS
AGCTTAAAGAGCTTGAACAA+AGG 0.552700 7:-77418486 MsG0780040430.01.T01:CDS
GTATAGTGTCTCCACACTCA+TGG 0.557211 7:+77417937 None:intergenic
TGATCATTGCCGGTGTAAAG+TGG 0.567817 7:+77418175 None:intergenic
ACTTAGCACTAATAAAGTAT+GGG 0.582927 7:-77417916 MsG0780040430.01.T01:CDS
CAAGAAGAGTTATGAGTGCA+TGG 0.584185 7:-77418001 MsG0780040430.01.T01:CDS
CATGAATTCACACTCTTGTG+AGG 0.587054 7:-77418139 MsG0780040430.01.T01:intron
TTCACCGGTTAATATTCCAA+AGG 0.589759 7:-77418437 MsG0780040430.01.T01:intron
TCAACACAATTGCAGCAGCT+AGG 0.603032 7:+77418748 None:intergenic
GAGCAAATGAAAGCATCAGA+AGG 0.627033 7:-77418258 MsG0780040430.01.T01:CDS
TGGGAAGCAAGTATTCGTCA+TGG 0.629295 7:-77417897 MsG0780040430.01.T01:CDS
TTGCTTCTACCACTTTACAC+CGG 0.631400 7:-77418184 MsG0780040430.01.T01:CDS
GGATGGAATGACCATGAGTG+TGG 0.655796 7:-77417948 MsG0780040430.01.T01:CDS
GTTTGTTCTACATCAACACA+AGG 0.672182 7:-77417798 MsG0780040430.01.T01:three_prime_UTR
CCAAGCGTGACTAATCAATG+GGG 0.770015 7:-77417847 MsG0780040430.01.T01:exon

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGCATATTAAAAATAAATAT+TGG + Chr7:77418078-77418097 None:intergenic 10.0%
!! ATTTATATATGTAACAGAAT+TGG - Chr7:77418456-77418475 MsG0780040430.01.T01:CDS 15.0%
!! TATAATAGTATATATACTGA+AGG + Chr7:77418395-77418414 None:intergenic 15.0%
!!! AATATTGATTCATCATTTAA+AGG + Chr7:77418143-77418162 None:intergenic 15.0%
!!! ATTTTAGAGATAAAAAACAA+TGG + Chr7:77418745-77418764 None:intergenic 15.0%
!!! TCATTTTGTAATAACAGATA+TGG - Chr7:77418176-77418195 MsG0780040430.01.T01:CDS 20.0%
! ACTTAGCACTAATAAAGTAT+GGG - Chr7:77418568-77418587 MsG0780040430.01.T01:intron 25.0%
! ATAAATATTGGATCAACCTT+TGG + Chr7:77418066-77418085 None:intergenic 25.0%
! TAATAACAGATATGGTTAGT+TGG - Chr7:77418184-77418203 MsG0780040430.01.T01:CDS 25.0%
! TACTTAGCACTAATAAAGTA+TGG - Chr7:77418567-77418586 MsG0780040430.01.T01:intron 25.0%
! TTGAAGATAAAAGTTGTAGA+TGG - Chr7:77417707-77417726 MsG0780040430.01.T01:three_prime_UTR 25.0%
! TTTATGCAAGAAAAATCTAC+AGG - Chr7:77417835-77417854 MsG0780040430.01.T01:three_prime_UTR 25.0%
!! ACAACTTTTATCTTCAATCT+TGG + Chr7:77417704-77417723 None:intergenic 25.0%
!! ATTTTCTCATTTTCTTTGGA+GGG + Chr7:77418279-77418298 None:intergenic 25.0%
!! CAACATTTTCTCATTTTCTT+TGG + Chr7:77418283-77418302 None:intergenic 25.0%
!! CAACTTTTATCTTCAATCTT+GGG + Chr7:77417703-77417722 None:intergenic 25.0%
ACTGTGAACTTTATATTCGA+AGG - Chr7:77417675-77417694 MsG0780040430.01.T01:three_prime_UTR 30.0%
CATATTGATAAATTGCTAGC+AGG - Chr7:77417954-77417973 MsG0780040430.01.T01:CDS 30.0%
CTTTCACAACTAAAACTTGA+AGG + Chr7:77418667-77418686 None:intergenic 30.0%
GCTTAAGCATATATATGCAA+AGG - Chr7:77417881-77417900 MsG0780040430.01.T01:CDS 30.0%
TGTGAATTCATGAATGTAGT+AGG + Chr7:77418337-77418356 None:intergenic 30.0%
! CATTTTCTCATTTTCTTTGG+AGG + Chr7:77418280-77418299 None:intergenic 30.0%
!! TCAACCTTTGGAATATTAAC+CGG + Chr7:77418054-77418073 None:intergenic 30.0%
!! TTTTCTCATTTTCTTTGGAG+GGG + Chr7:77418278-77418297 None:intergenic 30.0%
AGCTTAAAGAGCTTGAACAA+AGG - Chr7:77417998-77418017 MsG0780040430.01.T01:CDS 35.0%
ATTGATAAATTGCTAGCAGG+TGG - Chr7:77417957-77417976 MsG0780040430.01.T01:CDS 35.0%
CAATGATTCACCATAGTTTC+TGG - Chr7:77418709-77418728 MsG0780040430.01.T01:CDS 35.0%
GCTTAAAGAGCTTGAACAAA+GGG - Chr7:77417999-77418018 MsG0780040430.01.T01:CDS 35.0%
GTGTTGAACAACATTCCTAA+AGG - Chr7:77417752-77417771 MsG0780040430.01.T01:three_prime_UTR 35.0%
GTTTGTTCTACATCAACACA+AGG - Chr7:77418686-77418705 MsG0780040430.01.T01:CDS 35.0%
! ATGGTTAGTTGGAGATGAAT+GGG - Chr7:77418195-77418214 MsG0780040430.01.T01:CDS 35.0%
! CTTGCATAAAGCATTAGCAA+TGG + Chr7:77417825-77417844 None:intergenic 35.0%
! GGAATAACTCATGCTTTAGA+AGG - Chr7:77418515-77418534 MsG0780040430.01.T01:intron 35.0%
! TATGGTTAGTTGGAGATGAA+TGG - Chr7:77418194-77418213 MsG0780040430.01.T01:CDS 35.0%
! TTCACCGGTTAATATTCCAA+AGG - Chr7:77418047-77418066 MsG0780040430.01.T01:intron 35.0%
! TTGTGAGAATCTTTAGAGGT+TGG + Chr7:77418616-77418635 None:intergenic 35.0%
!! AGCACTTGATTTGTTCCTTT+AGG + Chr7:77417770-77417789 None:intergenic 35.0%
!! TAACTCATGCTTTAGAAGGA+TGG - Chr7:77418519-77418538 MsG0780040430.01.T01:intron 35.0%
ACAAATCAAGTGCTTCTTCG+AGG - Chr7:77417776-77417795 MsG0780040430.01.T01:three_prime_UTR 40.0%
CAAGAAGAGTTATGAGTGCA+TGG - Chr7:77418483-77418502 MsG0780040430.01.T01:CDS 40.0%
CATGAATTCACACTCTTGTG+AGG - Chr7:77418345-77418364 MsG0780040430.01.T01:intron 40.0%
CATGCACTCATAACTCTTCT+TGG + Chr7:77418485-77418504 None:intergenic 40.0%
GAACAAAGGGTCATCACAAA+AGG - Chr7:77418012-77418031 MsG0780040430.01.T01:CDS 40.0%
GCAGGTGGTTGTATTGTATA+AGG - Chr7:77417972-77417991 MsG0780040430.01.T01:CDS 40.0%
TCTTCGAGGCAAGTTCAATA+AGG - Chr7:77417790-77417809 MsG0780040430.01.T01:three_prime_UTR 40.0%
TGAACCATTGCCAGAAACTA+TGG + Chr7:77418722-77418741 None:intergenic 40.0%
TTGCTTCTACCACTTTACAC+CGG - Chr7:77418300-77418319 MsG0780040430.01.T01:intron 40.0%
! AGGAAACTTAGCTCTTTCAC+CGG - Chr7:77418032-77418051 MsG0780040430.01.T01:intron 40.0%
! TGGCTTGTGAGAATCTTTAG+AGG + Chr7:77418620-77418639 None:intergenic 40.0%
!! GAGCAAATGAAAGCATCAGA+AGG - Chr7:77418226-77418245 MsG0780040430.01.T01:CDS 40.0%
!! TTCACCATAGTTTCTGGCAA+TGG - Chr7:77418715-77418734 MsG0780040430.01.T01:CDS 40.0%
AGCCAAGCGTGACTAATCAA+TGG - Chr7:77418635-77418654 MsG0780040430.01.T01:intron 45.0%
CCAAGCGTGACTAATCAATG+GGG - Chr7:77418637-77418656 MsG0780040430.01.T01:intron 45.0%
GCCAAGCGTGACTAATCAAT+GGG - Chr7:77418636-77418655 MsG0780040430.01.T01:intron 45.0%
GTAGTAGGAGTGATCATTGC+CGG + Chr7:77418322-77418341 None:intergenic 45.0%
GTATAGTGTCTCCACACTCA+TGG + Chr7:77418550-77418569 None:intergenic 45.0%
TCAACACAATTGCAGCAGCT+AGG + Chr7:77417739-77417758 None:intergenic 45.0%
TGATCATTGCCGGTGTAAAG+TGG + Chr7:77418312-77418331 None:intergenic 45.0%
TGGGAAGCAAGTATTCGTCA+TGG - Chr7:77418587-77418606 MsG0780040430.01.T01:intron 45.0%
! TTTGGAGGGGAGTGTGAAAA+TGG + Chr7:77418265-77418284 None:intergenic 45.0%
ATGAGTGCATGGCGTATTGC+TGG - Chr7:77418494-77418513 MsG0780040430.01.T01:CDS 50.0%
GGATGGAATGACCATGAGTG+TGG - Chr7:77418536-77418555 MsG0780040430.01.T01:intron 50.0%
! CCCCATTGATTAGTCACGCT+TGG + Chr7:77418640-77418659 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 77417650 77418856 77417650 ID=MsG0780040430.01;Name=MsG0780040430.01
Chr7 mRNA 77417650 77418856 77417650 ID=MsG0780040430.01.T01;Parent=MsG0780040430.01;Name=MsG0780040430.01.T01;_AED=0.50;_eAED=0.50;_QI=0|1|0.75|1|1|1|4|210|215
Chr7 exon 77417650 77418033 77417650 ID=MsG0780040430.01.T01:exon:14892;Parent=MsG0780040430.01.T01
Chr7 exon 77418140 77418313 77418140 ID=MsG0780040430.01.T01:exon:14891;Parent=MsG0780040430.01.T01
Chr7 exon 77418438 77418530 77418438 ID=MsG0780040430.01.T01:exon:14890;Parent=MsG0780040430.01.T01
Chr7 exon 77418650 77418856 77418650 ID=MsG0780040430.01.T01:exon:14889;Parent=MsG0780040430.01.T01
Chr7 CDS 77418650 77418856 77418650 ID=MsG0780040430.01.T01:cds;Parent=MsG0780040430.01.T01
Chr7 CDS 77418438 77418530 77418438 ID=MsG0780040430.01.T01:cds;Parent=MsG0780040430.01.T01
Chr7 CDS 77418140 77418313 77418140 ID=MsG0780040430.01.T01:cds;Parent=MsG0780040430.01.T01
Chr7 CDS 77417860 77418033 77417860 ID=MsG0780040430.01.T01:cds;Parent=MsG0780040430.01.T01
Chr7 three_prime_UTR 77417650 77417859 77417650 ID=MsG0780040430.01.T01:three_prime_utr;Parent=MsG0780040430.01.T01
Gene Sequence

>MsG0780040430.01.T01

ATGCAGAAACAACAACTTAGTACACACTGTGAACTTTATATTCGAAGGTTCCCAAGATTGAAGATAAAAGTTGTAGATGGAAGTAGCCTAGCTGCTGCAATTGTGTTGAACAACATTCCTAAAGGAACAAATCAAGTGCTTCTTCGAGGCAAGTTCAATAAGGTTGCGTTTGCCATTGCTAATGCTTTATGCAAGAAAAATCTACAGGTGGTTGTATTGTATAAGGATGAGCTTAAAGAGCTTGAACAAAGGGTCATCACAAAAGGAAACTTAGCTCTTTCACCGGTTAATATTCCAAAGATATGGTTAGTTGGAGATGAATGGGATGAATATGAGCAAATGAAAGCATCAGAAGGATCGTTGTTCATACCATTTTCACACTCCCCTCCAAAGAAAATGAGAAAATGTTGCTTCTACCACTTTACACCGGCAATGATCACTCCTACTACATTCATGAATTCACACTCTTGTGAGAATTGGCTTCCAAGAAGAGTTATGAGTGCATGGCGTATTGCTGGAATAACTCATGCTTTAGAAGGATGGAATGACCATGAGTGTGGAGACACTATACTTAGCACTAATAAAGTATGGGAAGCAAGTATTCGTCATGGTTTCCAACCTCTAAAGATTCTCACAAGCCAAGCGTGA

Protein sequence

>MsG0780040430.01.T01

MQKQQLSTHCELYIRRFPRLKIKVVDGSSLAAAIVLNNIPKGTNQVLLRGKFNKVAFAIANALCKKNLQVVVLYKDELKELEQRVITKGNLALSPVNIPKIWLVGDEWDEYEQMKASEGSLFIPFSHSPPKKMRKCCFYHFTPAMITPTTFMNSHSCENWLPRRVMSAWRIAGITHALEGWNDHECGDTILSTNKVWEASIRHGFQPLKILTSQA*