AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene021695


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene021695.t1 MTR_7g010210 97.899 238 5 0 30 267 88 325 7.10e-170 472
MS.gene021695.t1 MTR_7g010210 69.874 239 16 3 30 267 88 271 3.25e-108 314
MS.gene021695.t1 MTR_6g012180 57.322 239 73 8 30 256 88 309 5.81e-67 211
MS.gene021695.t1 MTR_3g039990 41.667 240 99 9 30 257 89 299 8.17e-39 138
MS.gene021695.t1 MTR_0140s0030 39.526 253 109 11 30 257 89 322 1.78e-35 129
MS.gene021695.t1 MTR_0489s0020 39.526 253 109 11 30 257 89 322 1.78e-35 129
MS.gene021695.t1 MTR_7g087130 28.179 291 126 10 7 249 68 323 3.59e-15 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene021695.t1 AT3G28910 41.909 241 99 8 30 250 12 231 5.45e-39 136
MS.gene021695.t1 AT3G28910 41.909 241 99 8 30 250 88 307 1.49e-37 135
MS.gene021695.t1 AT5G62470 40.856 257 110 6 30 251 88 337 1.01e-36 133
MS.gene021695.t1 AT5G62470 40.856 257 110 6 30 251 87 336 1.01e-36 133
MS.gene021695.t1 AT3G47600 40.079 252 98 9 30 251 82 310 2.45e-34 126
MS.gene021695.t1 AT3G47600 39.300 257 113 9 21 251 77 316 2.62e-34 126
MS.gene021695.t1 AT1G74650 38.636 264 104 11 25 260 1 234 1.50e-28 109
MS.gene021695.t1 AT1G74650 37.209 258 105 10 30 260 12 239 5.29e-28 108
MS.gene021695.t1 AT1G74650 38.760 258 101 10 30 260 88 315 7.61e-27 106
MS.gene021695.t1 AT1G08810 33.745 243 77 8 28 252 3 179 1.40e-21 89.7
MS.gene021695.t1 AT1G08810 33.745 243 77 8 28 252 3 179 1.40e-21 89.7
MS.gene021695.t1 AT1G08810 32.830 265 87 10 7 251 68 261 2.72e-21 90.9
MS.gene021695.t1 AT5G15310 61.538 39 15 0 22 60 1 39 9.38e-12 63.9
MS.gene021695.t1 AT3G01140 34.677 124 51 5 30 125 88 209 9.87e-11 61.6

Find 42 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATCATGAATACATTATTT+AGG 0.228293 7.4:-89040774 MS.gene021695:intron
AACATAGCTCGTTTACTAAA+AGG 0.252975 7.4:-89039709 MS.gene021695:CDS
CTTCTTTCCCATTGACCTCT+TGG 0.294000 7.4:+89039892 None:intergenic
AAGAACATGGTCCTGGAAAT+TGG 0.298566 7.4:-89040947 None:intergenic
AGTTGTCCTGAAAAGGTATT+AGG 0.303742 7.4:-89039391 MS.gene021695:CDS
GAAACATTTGAATCTTTGTT+TGG 0.358400 7.4:-89039571 MS.gene021695:CDS
ATGTCATTATCTGTTCTTTG+TGG 0.377477 7.4:+89040027 None:intergenic
GTACTAACCGATGATTTGAT+TGG 0.381105 7.4:+89039673 None:intergenic
GAAAATGAGTTACTATTTGT+AGG 0.397920 7.4:+89039781 None:intergenic
GGAACAGCCCTCCAATTTCC+AGG 0.403047 7.4:+89040936 None:intergenic
TATGAACTATTAACCTGTCT+TGG 0.426618 7.4:+89040911 None:intergenic
AGATTGACCTGGTTCTTTAG+TGG 0.427373 7.4:+89039756 None:intergenic
ATGATCAACAACAGTCCTCT+TGG 0.437915 7.4:+89040790 None:intergenic
CCATTTCTCAAGCAAAGAAA+AGG 0.449839 7.4:+89039429 None:intergenic
TCTTGTAAAACCGTTGCGTC+TGG 0.450422 7.4:+89039487 None:intergenic
AACTATTAACCTGTCTTGGT+TGG 0.452548 7.4:+89040915 None:intergenic
AAGAATTCCAAGAGGTCAAT+GGG 0.456644 7.4:-89039899 MS.gene021695:CDS
ATTGTTTCCGAACCAACATC+AGG 0.463985 7.4:+89039454 None:intergenic
AAAGAATTCCAAGAGGTCAA+TGG 0.463998 7.4:-89039900 MS.gene021695:CDS
AAAATGAGTTACTATTTGTA+GGG 0.472669 7.4:+89039782 None:intergenic
TGAAGCAAGTTGTCCTGAAA+AGG 0.483879 7.4:-89039398 MS.gene021695:CDS
CATTATCTGTTCTTTGTGGA+AGG 0.487830 7.4:+89040031 None:intergenic
AAGTAAGCCTGATGTTGGTT+CGG 0.506124 7.4:-89039461 MS.gene021695:CDS
TATATACAAGAACATGGTCC+TGG 0.507906 7.4:-89040954 None:intergenic
GCCTCTAGTAGTGGAACAAA+GGG 0.509575 7.4:-89039607 MS.gene021695:CDS
GGCAGAATCAAAGTTGTTGA+AGG 0.509963 7.4:+89039627 None:intergenic
AGGGCTGTTCCAACCAAGAC+AGG 0.512302 7.4:-89040924 MS.gene021695:intron
AAGCTCAAGAAATCACAAAC+AGG 0.513721 7.4:-89039973 MS.gene021695:CDS
TTTGATTCTGCCTCTAGTAG+TGG 0.523596 7.4:-89039616 MS.gene021695:CDS
TAGCTCGTTTACTAAAAGGT+TGG 0.524179 7.4:-89039705 MS.gene021695:CDS
ACTTCAAACAGATATTCAAA+TGG 0.548282 7.4:-89039869 MS.gene021695:CDS
ATCTTTGTCACCAGACGCAA+CGG 0.557723 7.4:-89039497 MS.gene021695:CDS
CATTTCTCAAGCAAAGAAAA+GGG 0.562614 7.4:+89039430 None:intergenic
TGCCTCTAGTAGTGGAACAA+AGG 0.565467 7.4:-89039608 MS.gene021695:CDS
GATGAAAGTAAGCCTGATGT+TGG 0.577667 7.4:-89039466 MS.gene021695:CDS
ACCCTTTGTTCCACTACTAG+AGG 0.586721 7.4:+89039606 None:intergenic
AACATGGTCCTGGAAATTGG+AGG 0.614224 7.4:-89040944 MS.gene021695:CDS
GATGACTCCAAAGACTCCAA+AGG 0.614822 7.4:+89039541 None:intergenic
ACATGGTCCTGGAAATTGGA+GGG 0.621706 7.4:-89040943 MS.gene021695:CDS
GAAAAGGTATTAGGTTGTGA+TGG 0.624953 7.4:-89039382 MS.gene021695:CDS
TAGGAAAATCATGATCCAAG+AGG 0.661671 7.4:-89040805 MS.gene021695:CDS
GCATCTCAAAGAATTCCAAG+AGG 0.704482 7.4:-89039907 MS.gene021695:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAACTACTAAAAAAAT+TGG + chr7.4:89040174-89040193 None:intergenic 10.0%
!! ATACAAAAAATTATAGAAAT+AGG + chr7.4:89040033-89040052 None:intergenic 10.0%
!! TACAAAAAATTATAGAAATA+GGG + chr7.4:89040032-89040051 None:intergenic 10.0%
!!! ATTAATTTATTTGATTTTTG+TGG - chr7.4:89039631-89039650 MS.gene021695:CDS 10.0%
!!! ATTTTTTTAGTAGTTTTTTT+TGG - chr7.4:89040174-89040193 MS.gene021695:intron 10.0%
!!! TTTTATTTTTATTACTTAAC+TGG - chr7.4:89039550-89039569 MS.gene021695:CDS 10.0%
!! ATAATGACATAAAAAACTAT+TGG - chr7.4:89040287-89040306 MS.gene021695:intron 15.0%
!! TTATTCAAATTATGAAGAAA+AGG + chr7.4:89039805-89039824 None:intergenic 15.0%
!! TTTAAATATCCCTAAAAAAA+AGG - chr7.4:89040074-89040093 MS.gene021695:intron 15.0%
!!! AAATTAGAAGATAATTTTTG+TGG + chr7.4:89040487-89040506 None:intergenic 15.0%
!! AAAATGAGTTACTATTTGTA+GGG + chr7.4:89040522-89040541 None:intergenic 20.0%
!! ATCTTTATGGAATTAAAAAC+AGG + chr7.4:89039952-89039971 None:intergenic 20.0%
!! GTATATCATAGATCATTAAT+AGG - chr7.4:89039477-89039496 MS.gene021695:CDS 20.0%
!! TCATAACTAGTATATCTTTA+TGG + chr7.4:89039965-89039984 None:intergenic 20.0%
!! TGATCATGAATACATTATTT+AGG - chr7.4:89039527-89039546 MS.gene021695:CDS 20.0%
!! TTATGAAAGAATATAAGTGT+TGG - chr7.4:89039979-89039998 MS.gene021695:CDS 20.0%
!!! AGCATTTGATTTCATTTTTT+AGG - chr7.4:89039876-89039895 MS.gene021695:CDS 20.0%
!!! ATTAAATTTAGGACATAAGT+TGG - chr7.4:89039916-89039935 MS.gene021695:CDS 20.0%
!!! ATTAGCAAATCCTTTTTTTT+AGG + chr7.4:89040087-89040106 None:intergenic 20.0%
!!! TTAGCAAATCCTTTTTTTTA+GGG + chr7.4:89040086-89040105 None:intergenic 20.0%
!!! TTTTGTGGATTAATTTTTCA+GGG - chr7.4:89039646-89039665 MS.gene021695:CDS 20.0%
!!! TTTTTGTGGATTAATTTTTC+AGG - chr7.4:89039645-89039664 MS.gene021695:CDS 20.0%
! AACATTTATGATGTAACAGA+TGG - chr7.4:89040230-89040249 MS.gene021695:intron 25.0%
! ACATTTATGATGTAACAGAT+GGG - chr7.4:89040231-89040250 MS.gene021695:intron 25.0%
! ACTTCAAACAGATATTCAAA+TGG - chr7.4:89040432-89040451 MS.gene021695:intron 25.0%
! AGGGATATTTAAATCCATTT+AGG + chr7.4:89040067-89040086 None:intergenic 25.0%
! GAAAAATCCAATCAAATCAT+CGG - chr7.4:89040621-89040640 MS.gene021695:intron 25.0%
! GAAAATGAGTTACTATTTGT+AGG + chr7.4:89040523-89040542 None:intergenic 25.0%
! GAAACATTTGAATCTTTGTT+TGG - chr7.4:89040730-89040749 MS.gene021695:intron 25.0%
! TAGGGACACAAATTAAAAAT+AGG + chr7.4:89040014-89040033 None:intergenic 25.0%
! TATATTAGACTTGTCCTAAA+TGG - chr7.4:89040050-89040069 MS.gene021695:CDS 25.0%
!!! TTCAAGATCTTTTAGGAAAT+AGG - chr7.4:89039775-89039794 MS.gene021695:CDS 25.0%
AACATAGCTCGTTTACTAAA+AGG - chr7.4:89040592-89040611 MS.gene021695:intron 30.0%
ATGTCATTATCTGTTCTTTG+TGG + chr7.4:89040277-89040296 None:intergenic 30.0%
CATTTCTCAAGCAAAGAAAA+GGG + chr7.4:89040874-89040893 None:intergenic 30.0%
TATGAACTATTAACCTGTCT+TGG + chr7.4:89039393-89039412 None:intergenic 30.0%
TTATGATTCACATGTCTAAC+TGG - chr7.4:89040205-89040224 MS.gene021695:intron 30.0%
TTCCTAAAAGATCTTGAAGA+TGG + chr7.4:89039773-89039792 None:intergenic 30.0%
! ATCCATCTTCAAGATCTTTT+AGG - chr7.4:89039768-89039787 MS.gene021695:CDS 30.0%
!! TTAGATGGACTAATTACCTA+AGG - chr7.4:89039697-89039716 MS.gene021695:CDS 30.0%
!!! TGCTTCATTAAGTGCTTTTT+TGG + chr7.4:89040458-89040477 None:intergenic 30.0%
!!! TTTGTTTGGTTTTGAACCTT+TGG - chr7.4:89040744-89040763 MS.gene021695:intron 30.0%
AAAGAATTCCAAGAGGTCAA+TGG - chr7.4:89040401-89040420 MS.gene021695:intron 35.0%
AACTATTAACCTGTCTTGGT+TGG + chr7.4:89039389-89039408 None:intergenic 35.0%
AAGAATTCCAAGAGGTCAAT+GGG - chr7.4:89040402-89040421 MS.gene021695:intron 35.0%
AAGCTCAAGAAATCACAAAC+AGG - chr7.4:89040328-89040347 MS.gene021695:intron 35.0%
CATTATCTGTTCTTTGTGGA+AGG + chr7.4:89040273-89040292 None:intergenic 35.0%
CCATTTCTCAAGCAAAGAAA+AGG + chr7.4:89040875-89040894 None:intergenic 35.0%
GTACTAACCGATGATTTGAT+TGG + chr7.4:89040631-89040650 None:intergenic 35.0%
TAGCTCGTTTACTAAAAGGT+TGG - chr7.4:89040596-89040615 MS.gene021695:intron 35.0%
TAGGAAAATCATGATCCAAG+AGG - chr7.4:89039496-89039515 MS.gene021695:CDS 35.0%
! CCTTTTCTTTGCTTGAGAAA+TGG - chr7.4:89040872-89040891 MS.gene021695:intron 35.0%
! TCACAACCTAATACCTTTTC+AGG + chr7.4:89040919-89040938 None:intergenic 35.0%
! TTTTCTTCCACTAAAGAACC+AGG - chr7.4:89040538-89040557 MS.gene021695:intron 35.0%
!! AGTTGTCCTGAAAAGGTATT+AGG - chr7.4:89040910-89040929 MS.gene021695:intron 35.0%
!! GAAAAGGTATTAGGTTGTGA+TGG - chr7.4:89040919-89040938 MS.gene021695:intron 35.0%
!!! TTTTGAACCTTTGGAGTCTT+TGG - chr7.4:89040753-89040772 MS.gene021695:intron 35.0%
ATGATCAACAACAGTCCTCT+TGG + chr7.4:89039514-89039533 None:intergenic 40.0%
ATTGTTTCCGAACCAACATC+AGG + chr7.4:89040850-89040869 None:intergenic 40.0%
GATGAAAGTAAGCCTGATGT+TGG - chr7.4:89040835-89040854 MS.gene021695:intron 40.0%
GCAAAAGTTGCAGACTTAGA+TGG - chr7.4:89039682-89039701 MS.gene021695:CDS 40.0%
GCATAGCAAAAAGATTGACC+TGG + chr7.4:89040559-89040578 None:intergenic 40.0%
GCATCTCAAAGAATTCCAAG+AGG - chr7.4:89040394-89040413 MS.gene021695:intron 40.0%
GGCAGAATCAAAGTTGTTGA+AGG + chr7.4:89040677-89040696 None:intergenic 40.0%
TGAAGCAAGTTGTCCTGAAA+AGG - chr7.4:89040903-89040922 MS.gene021695:intron 40.0%
TTTGATTCTGCCTCTAGTAG+TGG - chr7.4:89040685-89040704 MS.gene021695:intron 40.0%
! AAGTAAGCCTGATGTTGGTT+CGG - chr7.4:89040840-89040859 MS.gene021695:intron 40.0%
! AGATTGACCTGGTTCTTTAG+TGG + chr7.4:89040548-89040567 None:intergenic 40.0%
!! AAGTTACCCCTTTTGATTCC+TGG + chr7.4:89039723-89039742 None:intergenic 40.0%
ACCCTTTGTTCCACTACTAG+AGG + chr7.4:89040698-89040717 None:intergenic 45.0%
ACCTAAGGCCAGGAATCAAA+AGG - chr7.4:89039712-89039731 MS.gene021695:CDS 45.0%
ATCTTTGTCACCAGACGCAA+CGG - chr7.4:89040804-89040823 MS.gene021695:CDS 45.0%
CCTAAGGCCAGGAATCAAAA+GGG - chr7.4:89039713-89039732 MS.gene021695:CDS 45.0%
CTAAGGCCAGGAATCAAAAG+GGG - chr7.4:89039714-89039733 MS.gene021695:CDS 45.0%
CTTCTTTCCCATTGACCTCT+TGG + chr7.4:89040412-89040431 None:intergenic 45.0%
GATGACTCCAAAGACTCCAA+AGG + chr7.4:89040763-89040782 None:intergenic 45.0%
GGGTAACTTCACTGAACAAG+AGG - chr7.4:89039734-89039753 MS.gene021695:CDS 45.0%
TCTTGTAAAACCGTTGCGTC+TGG + chr7.4:89040817-89040836 None:intergenic 45.0%
TGGACTAATTACCTAAGGCC+AGG - chr7.4:89039702-89039721 MS.gene021695:CDS 45.0%
! GCCTCTAGTAGTGGAACAAA+GGG - chr7.4:89040694-89040713 MS.gene021695:intron 45.0%
! TGCCTCTAGTAGTGGAACAA+AGG - chr7.4:89040693-89040712 MS.gene021695:intron 45.0%
!! TTCATTAAAATTATATTTAT+TGG - chr7.4:89039435-89039454 MS.gene021695:CDS 5.0%
!!! AAATTTAATTTTACAAAAAT+TGG + chr7.4:89039905-89039924 None:intergenic 5.0%
!!! ATTTTTGTAAAATTAAATTT+AGG - chr7.4:89039905-89039924 MS.gene021695:CDS 5.0%
!! CCCTTTTGATTCCTGGCCTT+AGG + chr7.4:89039716-89039735 None:intergenic 50.0%
AGGGCTGTTCCAACCAAGAC+AGG - chr7.4:89039377-89039396 MS.gene021695:CDS 55.0%
GGAACAGCCCTCCAATTTCC+AGG + chr7.4:89039368-89039387 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 89039360 89040963 89039360 ID=MS.gene021695
chr7.4 mRNA 89039360 89040963 89039360 ID=MS.gene021695.t1;Parent=MS.gene021695
chr7.4 exon 89040925 89040963 89040925 ID=MS.gene021695.t1.exon1;Parent=MS.gene021695.t1
chr7.4 CDS 89040925 89040963 89040925 ID=cds.MS.gene021695.t1;Parent=MS.gene021695.t1
chr7.4 exon 89040775 89040824 89040775 ID=MS.gene021695.t1.exon2;Parent=MS.gene021695.t1
chr7.4 CDS 89040775 89040824 89040775 ID=cds.MS.gene021695.t1;Parent=MS.gene021695.t1
chr7.4 exon 89039360 89040074 89039360 ID=MS.gene021695.t1.exon3;Parent=MS.gene021695.t1
chr7.4 CDS 89039360 89040074 89039360 ID=cds.MS.gene021695.t1;Parent=MS.gene021695.t1
Gene Sequence

>MS.gene021695

ATGGTCCTGGAAATTGGAGGGCTGTTCCAACCAAGACAGGTTAATAGTTCATAACTTTAAGAACTGCAATATTTTTTCATTAAAATTATATTTATTGGCTTTTTTCTTTGTTCTATAGTATATCATAGATCATTAATAGGAAAATCATGATCCAAGAGGACTGTTGTTGATCATGAATACATTATTTAGGTTTTATTTTTATTACTTAACTGGATCTGAATTTAAGTGATTTATTTTTTCTTATTATTATATTTTTATATGCATTGAAGTGATTAATTTATTTGATTTTTGTGGATTAATTTTTCAGGGTTGTCAAGATGCAGCAAAAGTTGCAGACTTAGATGGACTAATTACCTAAGGCCAGGAATCAAAAGGGGTAACTTCACTGAACAAGAGGAGAAGATGATTATCCATCTTCAAGATCTTTTAGGAAATAGGTAAACCTTTTCTTCATAATTTGAATAAGTGATAAGTAAACTATGTTTCTAATTCTGTCATTTTAATTACAAAGAAATTAGCATTTGATTTCATTTTTTAGGTTTCCAATTTTTGTAAAATTAAATTTAGGACATAAGTTGGATATGTGCAACCTGTTTTTAATTCCATAAAGATATACTAGTTATGAAAGAATATAAGTGTTGGAATATTTTTCCTATTTTTAATTTGTGTCCCTATTTCTATAATTTTTTGTATATTAGACTTGTCCTAAATGGATTTAAATATCCCTAAAAAAAAGGATTTGCTAATATGTTTGTTTTAGTATTTAATTTAACTTTCTTGATAGAAAACAATATAAGAAAATTAGAGACTTCCAATTTTTTTAGTAGTTTTTTTTGGTAGCTTCTTTATGATTCACATGTCTAACTGGATAACATTTATGATGTAACAGATGGGCTGCAATAGCATCATACCTTCCACAAAGAACAGATAATGACATAAAAAACTATTGGAATACTCATTTGAAAAAGAAGCTCAAGAAATCACAAACAGGTAATAATGCTGAATGCATTAATTTTGAAGAAGAAAAATTTTCAGCATCTCAAAGAATTCCAAGAGGTCAATGGGAAAGAAGACTTCAAACAGATATTCAAATGGCCAAAAAAGCACTTAATGAAGCACTTTCACCACAAAAATTATCTTCTAATTTTTCTACTTCAAACCCTACAAATAGTAACTCATTTTCTTCCACTAAAGAACCAGGTCAATCTTTTTGCTATGCTTCAAGTGCAGATAACATAGCTCGTTTACTAAAAGGTTGGATGAAAAATCCAATCAAATCATCGGTTAGTACTAATTCTGCTGTGACACAAAATTCCTTCAACAACTTTGATTCTGCCTCTAGTAGTGGAACAAAGGGTGAAATATTGTCTGAAACATTTGAATCTTTGTTTGGTTTTGAACCTTTGGAGTCTTTGGAGTCATCAAATTCTGAATTCTCTCGTCAATCTTTGTCACCAGACGCAACGGTTTTACAAGATGAAAGTAAGCCTGATGTTGGTTCGGAAACAATGCCCTTTTCTTTGCTTGAGAAATGGCTTCTTGATGAAGCAAGTTGTCCTGAAAAGGTATTAGGTTGTGATGGTGATCATGCTCAAGTTTTCTAG

Protein sequence

>MS.gene021695.t1

MVLEIGGLFQPRQENHDPRGLLLIMNTLFRWAAIASYLPQRTDNDIKNYWNTHLKKKLKKSQTGNNAECINFEEEKFSASQRIPRGQWERRLQTDIQMAKKALNEALSPQKLSSNFSTSNPTNSNSFSSTKEPGQSFCYASSADNIARLLKGWMKNPIKSSVSTNSAVTQNSFNNFDSASSSGTKGEILSETFESLFGFEPLESLESSNSEFSRQSLSPDATVLQDESKPDVGSETMPFSLLEKWLLDEASCPEKVLGCDGDHAQVF