AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51055


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51055.t1 MTR_4g107840 96.098 205 8 0 8 212 40 244 2.43e-144 402
MS.gene51055.t1 MTR_8g469150 40.566 212 117 3 3 212 72 276 1.46e-46 155
MS.gene51055.t1 MTR_7g009330 41.176 204 111 3 11 212 81 277 7.47e-46 153
MS.gene51055.t1 MTR_8g469150 40.306 196 109 2 3 196 72 261 4.33e-43 146
MS.gene51055.t1 MTR_6g011390 37.209 215 122 4 2 212 73 278 4.50e-42 143
MS.gene51055.t1 MTR_5g015580 27.358 212 145 3 3 212 72 276 1.88e-25 100
MS.gene51055.t1 MTR_1g018205 25.943 212 148 3 3 212 73 277 1.58e-21 89.7
MS.gene51055.t1 MTR_4g128300 29.016 193 129 2 22 212 93 279 3.50e-21 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51055.t1 AT3G01280 41.951 205 110 3 10 212 79 276 6.00e-49 161
MS.gene51055.t1 AT5G15090 36.275 204 119 4 11 212 80 274 1.05e-38 135
MS.gene51055.t1 AT5G15090 36.275 204 119 4 11 212 80 274 1.05e-38 135
MS.gene51055.t1 AT5G57490 30.189 212 137 4 3 212 72 274 9.50e-29 108
MS.gene51055.t1 AT5G67500 30.189 212 139 3 3 212 72 276 8.22e-28 106
MS.gene51055.t1 AT5G67500 30.189 212 139 3 3 212 99 303 1.08e-27 107
MS.gene51055.t1 AT5G67500 29.064 203 135 3 3 203 72 267 3.16e-23 95.1
MS.gene51055.t1 AT3G49920 34.127 126 82 1 87 212 102 226 1.10e-15 73.2

Find 58 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGCCGGCGAAATGGATTT+TGG 0.152016 8.4:+19270627 MS.gene51055:CDS
ACTGGATGCATTGGATTATT+AGG 0.191506 8.4:+19270037 MS.gene51055:CDS
CTCTCATTCAACAAGGATTT+TGG 0.192793 8.4:+19270586 MS.gene51055:CDS
CGAGCCTTTAGCAATGTTTC+AGG 0.209136 8.4:-19270537 None:intergenic
TTGCAATGGCCGTCTGGGTT+AGG 0.244222 8.4:-19270446 None:intergenic
AATAGATTCACTGGGATTAC+TGG 0.244615 8.4:+19270019 MS.gene51055:CDS
CTTGTGTTGCAATGGCCGTC+TGG 0.310688 8.4:-19270452 None:intergenic
TGCAATGGCCGTCTGGGTTA+GGG 0.312768 8.4:-19270445 None:intergenic
AAGAAATTCTACCTGGATTC+AGG 0.317980 8.4:+19269829 MS.gene51055:CDS
GACCCTGTTGTAAAATTATC+AGG 0.320742 8.4:+19270079 MS.gene51055:CDS
ACAGAATGCTTGTTCCTAAA+AGG 0.329840 8.4:-19270102 None:intergenic
GGGGTTTACTTCATGATAAA+TGG 0.338544 8.4:-19270424 None:intergenic
TAGAATTTCTTGAACTGTAA+TGG 0.369739 8.4:-19269817 None:intergenic
AAAGGCTCGCTTTGACAGTT+CGG 0.382952 8.4:+19270551 MS.gene51055:CDS
TGTAACTATGGCCGGCGAAA+TGG 0.408333 8.4:+19270620 MS.gene51055:CDS
AAGGCTCGCTTTGACAGTTC+GGG 0.409065 8.4:+19270552 MS.gene51055:CDS
AATGGTACCTTCCCGGAGTC+TGG 0.421783 8.4:-19269873 None:intergenic
ACCAAGTTGACTGCTGGCTT+CGG 0.424833 8.4:+19270169 MS.gene51055:CDS
GCAAGGCAACATTGGCTCCT+AGG 0.425523 8.4:-19270126 None:intergenic
ACAAAGTAATGGTACCTTCC+CGG 0.441553 8.4:-19269880 None:intergenic
AGCTTGTCACTCAAGGAAAC+TGG 0.442221 8.4:+19270483 MS.gene51055:CDS
ACTGGGATTACTGGATGCAT+TGG 0.448328 8.4:+19270028 MS.gene51055:CDS
CAGGGTCATATGCTCCATCT+TGG 0.460843 8.4:-19270063 None:intergenic
ACAAGGTCAATGAAGCTTCA+AGG 0.465289 8.4:-19270207 None:intergenic
GCCATGGAGACTCCAACCTT+TGG 0.474824 8.4:-19270669 None:intergenic
CAGTACTTGAATAGATTCAC+TGG 0.475573 8.4:+19270010 MS.gene51055:CDS
AACTTGGTTATCGATCTTGT+TGG 0.497298 8.4:-19270154 None:intergenic
TTTGACAGTTCGGGCAAAGT+AGG 0.498953 8.4:+19270561 MS.gene51055:CDS
GCAATGGCCGTCTGGGTTAG+GGG 0.501382 8.4:-19270444 None:intergenic
CAAGGCAACATTGGCTCCTA+GGG 0.505987 8.4:-19270125 None:intergenic
GCCGAAGCCAGCAGTCAACT+TGG 0.507792 8.4:-19270170 None:intergenic
TTGTGTTGCAATGGCCGTCT+GGG 0.533482 8.4:-19270451 None:intergenic
GGAACAAGCATTCTGTCCCT+AGG 0.535981 8.4:+19270109 MS.gene51055:CDS
AAGGAAACTGGTGTCACCAT+TGG 0.538400 8.4:+19270495 MS.gene51055:CDS
AAATGTACCGTACCAGACTC+CGG 0.544121 8.4:+19269861 MS.gene51055:CDS
CAATGGCCGTCTGGGTTAGG+GGG 0.545151 8.4:-19270443 None:intergenic
TTGAAAACAGTCCTGAATCC+AGG 0.545165 8.4:-19269840 None:intergenic
ACAGTTCAAGAAATTCTACC+TGG 0.548340 8.4:+19269822 MS.gene51055:CDS
TCGATAACCAAGTTGACTGC+TGG 0.549363 8.4:+19270163 MS.gene51055:CDS
GGCCCCAAAATCCATTTCGC+CGG 0.561250 8.4:-19270631 None:intergenic
CGATCTTGTTGGTATGTGCA+AGG 0.562305 8.4:-19270143 None:intergenic
AACCTTTGGAATCTTATCAT+CGG 0.566666 8.4:-19270655 None:intergenic
AAATGCATGCTGAGCACCAA+TGG 0.571123 8.4:-19270511 None:intergenic
GGATTATTAGGAAACCAAGA+TGG 0.572580 8.4:+19270049 MS.gene51055:CDS
TCCAAAGGTTGGAGTCTCCA+TGG 0.577690 8.4:+19270668 MS.gene51055:CDS
ATGCTTCACTTGTGTTGCAA+TGG 0.577920 8.4:-19270460 None:intergenic
GATGATAAGATTCCAAAGGT+TGG 0.579129 8.4:+19270657 MS.gene51055:CDS
AGATTAGGGTCTTAGAGCCA+TGG 0.589733 8.4:-19270685 None:intergenic
AATGTACCGTACCAGACTCC+GGG 0.592748 8.4:+19269862 MS.gene51055:CDS
CTTTGGAATCTTATCATCGG+TGG 0.598433 8.4:-19270652 None:intergenic
GAAGCATAGCTTGTCACTCA+AGG 0.598774 8.4:+19270476 MS.gene51055:CDS
TACCTTCCCGGAGTCTGGTA+CGG 0.603084 8.4:-19269868 None:intergenic
GGTCAATGAAGCTTCAAGGA+AGG 0.612698 8.4:-19270203 None:intergenic
AGTACTTGAATAGATTCACT+GGG 0.614520 8.4:+19270011 MS.gene51055:CDS
TGGTATGTGCAAGGCAACAT+TGG 0.624437 8.4:-19270134 None:intergenic
CACCGATGATAAGATTCCAA+AGG 0.660499 8.4:+19270653 MS.gene51055:CDS
TACCGTACCAGACTCCGGGA+AGG 0.677553 8.4:+19269866 MS.gene51055:CDS
GTAGGTGCTCTCATTCAACA+AGG 0.711960 8.4:+19270579 MS.gene51055:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAAATATTTCATATTATGC+AGG + chr8.4:19270373-19270392 MS.gene51055:intron 15.0%
!!! ATTTTTCTGATAAATTTAGT+CGG - chr8.4:19270255-19270274 None:intergenic 15.0%
!! AATTTATCAGAAAAATGGAT+AGG + chr8.4:19270259-19270278 MS.gene51055:intron 20.0%
!! GACTAAATTTATCAGAAAAA+TGG + chr8.4:19270254-19270273 MS.gene51055:intron 20.0%
!! TGATACTATACATAGTATAT+AGG - chr8.4:19269911-19269930 None:intergenic 20.0%
! TAGAATTTCTTGAACTGTAA+TGG - chr8.4:19269820-19269839 None:intergenic 25.0%
! TATAGGTAAGTACAAAGTAA+TGG - chr8.4:19269894-19269913 None:intergenic 25.0%
! TATGAATTCATTGTGATTTG+AGG - chr8.4:19269980-19269999 None:intergenic 25.0%
! TCAAATCACAATGAATTCAT+AGG + chr8.4:19269979-19269998 MS.gene51055:intron 25.0%
!!! TATGATGGATATATCTTACA+AGG - chr8.4:19270227-19270246 None:intergenic 25.0%
AATCACAATGAATTCATAGG+TGG + chr8.4:19269982-19270001 MS.gene51055:intron 30.0%
AGTACTTGAATAGATTCACT+GGG + chr8.4:19270011-19270030 MS.gene51055:CDS 30.0%
ATTTAGTCGGTAGTTTATGA+TGG - chr8.4:19270242-19270261 None:intergenic 30.0%
! GTAAAATTATCAGGCCTTTT+AGG + chr8.4:19270088-19270107 MS.gene51055:CDS 30.0%
! TTTTCCTGAAACATTGCTAA+AGG + chr8.4:19270533-19270552 MS.gene51055:CDS 30.0%
!! AACCTTTGGAATCTTATCAT+CGG - chr8.4:19270658-19270677 None:intergenic 30.0%
!!! AGATTTTTTGTAACTATGGC+CGG + chr8.4:19270612-19270631 MS.gene51055:CDS 30.0%
!!! GCAGAGATTTTTTGTAACTA+TGG + chr8.4:19270608-19270627 MS.gene51055:CDS 30.0%
AACTTGGTTATCGATCTTGT+TGG - chr8.4:19270157-19270176 None:intergenic 35.0%
AAGAAATTCTACCTGGATTC+AGG + chr8.4:19269829-19269848 MS.gene51055:CDS 35.0%
AATAGATTCACTGGGATTAC+TGG + chr8.4:19270019-19270038 MS.gene51055:CDS 35.0%
ACAGAATGCTTGTTCCTAAA+AGG - chr8.4:19270105-19270124 None:intergenic 35.0%
ACAGTTCAAGAAATTCTACC+TGG + chr8.4:19269822-19269841 MS.gene51055:CDS 35.0%
ACTGGATGCATTGGATTATT+AGG + chr8.4:19270037-19270056 MS.gene51055:CDS 35.0%
CAGTACTTGAATAGATTCAC+TGG + chr8.4:19270010-19270029 MS.gene51055:CDS 35.0%
GACCCTGTTGTAAAATTATC+AGG + chr8.4:19270079-19270098 MS.gene51055:CDS 35.0%
GATGATAAGATTCCAAAGGT+TGG + chr8.4:19270657-19270676 MS.gene51055:CDS 35.0%
GGATTATTAGGAAACCAAGA+TGG + chr8.4:19270049-19270068 MS.gene51055:CDS 35.0%
GGGGTTTACTTCATGATAAA+TGG - chr8.4:19270427-19270446 None:intergenic 35.0%
! AGGCCTGATAATTTTACAAC+AGG - chr8.4:19270085-19270104 None:intergenic 35.0%
! CTCTCATTCAACAAGGATTT+TGG + chr8.4:19270586-19270605 MS.gene51055:CDS 35.0%
! GGCCTGATAATTTTACAACA+GGG - chr8.4:19270084-19270103 None:intergenic 35.0%
ACAAAGTAATGGTACCTTCC+CGG - chr8.4:19269883-19269902 None:intergenic 40.0%
ACAAGGTCAATGAAGCTTCA+AGG - chr8.4:19270210-19270229 None:intergenic 40.0%
ATGCTTCACTTGTGTTGCAA+TGG - chr8.4:19270463-19270482 None:intergenic 40.0%
CACCGATGATAAGATTCCAA+AGG + chr8.4:19270653-19270672 MS.gene51055:CDS 40.0%
TTGAAAACAGTCCTGAATCC+AGG - chr8.4:19269843-19269862 None:intergenic 40.0%
!! CTTTGGAATCTTATCATCGG+TGG - chr8.4:19270655-19270674 None:intergenic 40.0%
AAAGGCTCGCTTTGACAGTT+CGG + chr8.4:19270551-19270570 MS.gene51055:CDS 45.0%
AAATGCATGCTGAGCACCAA+TGG - chr8.4:19270514-19270533 None:intergenic 45.0%
AAATGTACCGTACCAGACTC+CGG + chr8.4:19269861-19269880 MS.gene51055:CDS 45.0%
ACTGGGATTACTGGATGCAT+TGG + chr8.4:19270028-19270047 MS.gene51055:CDS 45.0%
AGCTTGTCACTCAAGGAAAC+TGG + chr8.4:19270483-19270502 MS.gene51055:CDS 45.0%
CGAGCCTTTAGCAATGTTTC+AGG - chr8.4:19270540-19270559 None:intergenic 45.0%
CGATCTTGTTGGTATGTGCA+AGG - chr8.4:19270146-19270165 None:intergenic 45.0%
GGTCAATGAAGCTTCAAGGA+AGG - chr8.4:19270206-19270225 None:intergenic 45.0%
GTAGGTGCTCTCATTCAACA+AGG + chr8.4:19270579-19270598 MS.gene51055:CDS 45.0%
TGGTATGTGCAAGGCAACAT+TGG - chr8.4:19270137-19270156 None:intergenic 45.0%
TTTGACAGTTCGGGCAAAGT+AGG + chr8.4:19270561-19270580 MS.gene51055:CDS 45.0%
! GAAGCATAGCTTGTCACTCA+AGG + chr8.4:19270476-19270495 MS.gene51055:CDS 45.0%
! TCGATAACCAAGTTGACTGC+TGG + chr8.4:19270163-19270182 MS.gene51055:CDS 45.0%
!! AAGGAAACTGGTGTCACCAT+TGG + chr8.4:19270495-19270514 MS.gene51055:CDS 45.0%
AAGGCTCGCTTTGACAGTTC+GGG + chr8.4:19270552-19270571 MS.gene51055:CDS 50.0%
AATGTACCGTACCAGACTCC+GGG + chr8.4:19269862-19269881 MS.gene51055:CDS 50.0%
AGTAAACCCCCTAACCCAGA+CGG + chr8.4:19270437-19270456 MS.gene51055:CDS 50.0%
CAGGGTCATATGCTCCATCT+TGG - chr8.4:19270066-19270085 None:intergenic 50.0%
GGAACAAGCATTCTGTCCCT+AGG + chr8.4:19270109-19270128 MS.gene51055:CDS 50.0%
TCCAAAGGTTGGAGTCTCCA+TGG + chr8.4:19270668-19270687 MS.gene51055:CDS 50.0%
TGTAACTATGGCCGGCGAAA+TGG + chr8.4:19270620-19270639 MS.gene51055:CDS 50.0%
TTGTGTTGCAATGGCCGTCT+GGG - chr8.4:19270454-19270473 None:intergenic 50.0%
!! ACCAAGTTGACTGCTGGCTT+CGG + chr8.4:19270169-19270188 MS.gene51055:CDS 50.0%
!! ATGGCCGGCGAAATGGATTT+TGG + chr8.4:19270627-19270646 MS.gene51055:CDS 50.0%
!! CAAGGCAACATTGGCTCCTA+GGG - chr8.4:19270128-19270147 None:intergenic 50.0%
!! TGGCCGGCGAAATGGATTTT+GGG + chr8.4:19270628-19270647 MS.gene51055:CDS 50.0%
AATGGTACCTTCCCGGAGTC+TGG - chr8.4:19269876-19269895 None:intergenic 55.0%
CTTGTGTTGCAATGGCCGTC+TGG - chr8.4:19270455-19270474 None:intergenic 55.0%
GCCATGGAGACTCCAACCTT+TGG - chr8.4:19270672-19270691 None:intergenic 55.0%
GGCCCCAAAATCCATTTCGC+CGG - chr8.4:19270634-19270653 None:intergenic 55.0%
TACCTTCCCGGAGTCTGGTA+CGG - chr8.4:19269871-19269890 None:intergenic 55.0%
TGCAATGGCCGTCTGGGTTA+GGG - chr8.4:19270448-19270467 None:intergenic 55.0%
TTGCAATGGCCGTCTGGGTT+AGG - chr8.4:19270449-19270468 None:intergenic 55.0%
!! GCAAGGCAACATTGGCTCCT+AGG - chr8.4:19270129-19270148 None:intergenic 55.0%
!! GGCCGGCGAAATGGATTTTG+GGG + chr8.4:19270629-19270648 MS.gene51055:CDS 55.0%
GCCGAAGCCAGCAGTCAACT+TGG - chr8.4:19270173-19270192 None:intergenic 60.0%
TACCGTACCAGACTCCGGGA+AGG + chr8.4:19269866-19269885 MS.gene51055:CDS 60.0%
! CAATGGCCGTCTGGGTTAGG+GGG - chr8.4:19270446-19270465 None:intergenic 60.0%
! GCAATGGCCGTCTGGGTTAG+GGG - chr8.4:19270447-19270466 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 19269786 19270704 19269786 ID=MS.gene51055
chr8.4 mRNA 19269786 19270704 19269786 ID=MS.gene51055.t1;Parent=MS.gene51055
chr8.4 exon 19269786 19269887 19269786 ID=MS.gene51055.t1.exon1;Parent=MS.gene51055.t1
chr8.4 CDS 19269786 19269887 19269786 ID=cds.MS.gene51055.t1;Parent=MS.gene51055.t1
chr8.4 exon 19270001 19270227 19270001 ID=MS.gene51055.t1.exon2;Parent=MS.gene51055.t1
chr8.4 CDS 19270001 19270227 19270001 ID=cds.MS.gene51055.t1;Parent=MS.gene51055.t1
chr8.4 exon 19270395 19270704 19270395 ID=MS.gene51055.t1.exon3;Parent=MS.gene51055.t1
chr8.4 CDS 19270395 19270704 19270395 ID=cds.MS.gene51055.t1;Parent=MS.gene51055.t1
Gene Sequence

>MS.gene51055

ATGTCTGACTGTAGTGCTTTTGCTGCTGTATCCATTACAGTTCAAGAAATTCTACCTGGATTCAGGACTGTTTTCAAATGTACCGTACCAGACTCCGGGAAGGTACCATTACTTTGTACTTACCTATATACTATGTATAGTATCATCTTTAATAGTTTTAGTGTTTTTTTGTTCATTGCATCTGAGTATTTCCTCAAATCACAATGAATTCATAGGTGGAACTACAGTACTTGAATAGATTCACTGGGATTACTGGATGCATTGGATTATTAGGAAACCAAGATGGAGCATATGACCCTGTTGTAAAATTATCAGGCCTTTTAGGAACAAGCATTCTGTCCCTAGGAGCCAATGTTGCCTTGCACATACCAACAAGATCGATAACCAAGTTGACTGCTGGCTTCGGCTTAAACACTGCCTTCCTTGAAGCTTCATTGACCTTGTAAGATATATCCATCATAAACTACCGACTAAATTTATCAGAAAAATGGATAGGAATATCAATTAGTGATCTCTAAACTAACTTTAGCATTTAATTAATCATTACTGCTTAGTGTTCTGCTACTGTTTCTTTTGTCGAGCTTGAATTAAATATTTCATATTATGCAGGCATGACAGCTTTGACACTCTAAAAGCGACCATTTATCATGAAGTAAACCCCCTAACCCAGACGGCCATTGCAACACAAGTGAAGCATAGCTTGTCACTCAAGGAAACTGGTGTCACCATTGGTGCTCAGCATGCATTTTTTCCTGAAACATTGCTAAAGGCTCGCTTTGACAGTTCGGGCAAAGTAGGTGCTCTCATTCAACAAGGATTTTGGCAGAGATTTTTTGTAACTATGGCCGGCGAAATGGATTTTGGGGCCACCGATGATAAGATTCCAAAGGTTGGAGTCTCCATGGCTCTAAGACCCTAA

Protein sequence

>MS.gene51055.t1

MSDCSAFAAVSITVQEILPGFRTVFKCTVPDSGKVELQYLNRFTGITGCIGLLGNQDGAYDPVVKLSGLLGTSILSLGANVALHIPTRSITKLTAGFGLNTAFLEASLTLHDSFDTLKATIYHEVNPLTQTAIATQVKHSLSLKETGVTIGAQHAFFPETLLKARFDSSGKVGALIQQGFWQRFFVTMAGEMDFGATDDKIPKVGVSMALRP