AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012194


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012194.t1 MTR_4g124960 93.171 205 10 2 1 204 1 202 3.71e-129 362
MS.gene012194.t1 MTR_4g124960 93.143 175 9 1 1 175 1 172 2.02e-108 308
MS.gene012194.t1 MTR_2g042900 44.828 261 76 11 1 204 1 250 1.95e-49 161
MS.gene012194.t1 MTR_4g124950 64.286 126 40 1 70 190 1 126 8.55e-44 143
MS.gene012194.t1 MTR_2g042900 49.704 169 65 8 1 152 1 166 2.15e-34 122
MS.gene012194.t1 MTR_5g013530 36.478 159 71 5 76 204 5 163 2.35e-21 87.0
MS.gene012194.t1 MTR_5g013530 39.007 141 65 5 85 204 1 141 2.69e-21 86.3
MS.gene012194.t1 MTR_5g013520 35.385 130 56 3 98 204 9 133 1.25e-20 84.3
MS.gene012194.t1 MTR_5g013515 36.364 132 60 2 94 201 4 135 4.05e-20 82.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012194.t1 AT1G19180 36.328 256 106 10 1 203 1 252 1.10e-35 126
MS.gene012194.t1 AT1G19180 36.328 256 106 10 1 203 1 252 1.10e-35 126
MS.gene012194.t1 AT1G74950 35.745 235 84 10 7 180 1 229 2.09e-27 104
MS.gene012194.t1 AT1G74950 35.683 227 79 10 7 172 1 221 5.78e-24 95.1
MS.gene012194.t1 AT1G19180 39.098 133 52 5 99 203 55 186 1.16e-18 80.1
MS.gene012194.t1 AT1G17380 29.353 201 108 5 13 180 7 206 6.77e-14 68.9

Find 44 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGACTTCATCGGACATTTC+TGG 0.184990 8.1:+7097952 MS.gene012194:CDS
ATTGTCAATTGTGCAGTTTC+TGG 0.207124 8.1:-7098575 None:intergenic
CCTTCTTCTCCTTGAGGTAT+TGG 0.218986 8.1:-7098044 None:intergenic
GGTTGTTGAGGGATCATATT+AGG 0.246891 8.1:-7098698 None:intergenic
CAACAACCTCCCTCACTAAT+TGG 0.267401 8.1:+7098713 MS.gene012194:CDS
AGCTTCACTTCGTCGATTCA+TGG 0.304214 8.1:+7098894 MS.gene012194:CDS
TCAGGAAAGGTTCTTTGATA+TGG 0.341074 8.1:-7099311 None:intergenic
TTTATTTACCATTTGTTTCA+GGG 0.363709 8.1:-7098104 None:intergenic
CGACTTTATCAGTTTGTTGC+CGG 0.376712 8.1:-7097980 None:intergenic
AGCTCCTCAACTTTCTCAGC+AGG 0.410410 8.1:-7098635 None:intergenic
TCCGCTCCATGGCTTGTGTT+AGG 0.414480 8.1:+7099359 MS.gene012194:CDS
TTACAGAGTTATTAATCCTA+TGG 0.427315 8.1:+7098544 MS.gene012194:intron
TCATGGAGAAGAGGAAAGAT+AGG 0.451183 8.1:+7098911 MS.gene012194:CDS
GTTTCTGGCTCTTTAACCAT+AGG 0.475200 8.1:-7098560 None:intergenic
CCAATACCTCAAGGAGAAGA+AGG 0.480824 8.1:+7098044 MS.gene012194:CDS
CAATCTACAGGGTCATCACC+TGG 0.484929 8.1:+7098324 MS.gene012194:intron
TTAGTGAGGGAGGTTGTTGA+GGG 0.495882 8.1:-7098709 None:intergenic
TTATTTACCATTTGTTTCAG+GGG 0.508177 8.1:-7098103 None:intergenic
GATACCAATGTCGACTTCAT+CGG 0.515126 8.1:+7097942 None:intergenic
ATTAGTGAGGGAGGTTGTTG+AGG 0.517348 8.1:-7098710 None:intergenic
GCATGCACCCCTGAAACAAA+TGG 0.517892 8.1:+7098096 MS.gene012194:CDS
TAATGGACAAGTTATTGTGT+TGG 0.534161 8.1:+7098604 MS.gene012194:CDS
GAGAAGAAGGGTAGTTTCGA+AGG 0.535740 8.1:+7098057 MS.gene012194:CDS
CAGGGGTGCATGCGTTGTGA+AGG 0.536647 8.1:-7098086 None:intergenic
CCTGGTTCATCTTCTCACTC+TGG 0.547944 8.1:+7098342 MS.gene012194:CDS
CCAGAGTGAGAAGATGAACC+AGG 0.548191 8.1:-7098342 None:intergenic
AGCATGCTGACTCCGCTCCA+TGG 0.562298 8.1:+7099348 MS.gene012194:CDS
TGCATGCGTTGTGAAGGTTA+AGG 0.575616 8.1:-7098080 None:intergenic
AAATCAATTACCAATTAGTG+AGG 0.584879 8.1:-7098723 None:intergenic
GGTTCTTTGATATGGTGAGT+AGG 0.584950 8.1:-7099303 None:intergenic
TTCTGGAGCAGAGTCAGGAA+AGG 0.587295 8.1:-7099324 None:intergenic
GTTTGTGGGAAATAAATCCA+TGG 0.589977 8.1:-7098370 None:intergenic
TTAGCACCTAACACAAGCCA+TGG 0.596993 8.1:-7099365 None:intergenic
AACTACCCTTCTTCTCCTTG+AGG 0.603992 8.1:-7098050 None:intergenic
TTCTCACTCTGGAATAACCA+TGG 0.605298 8.1:+7098353 MS.gene012194:CDS
CAATTACCAATTAGTGAGGG+AGG 0.610131 8.1:-7098719 None:intergenic
CAATACCTCAAGGAGAAGAA+GGG 0.616382 8.1:+7098045 MS.gene012194:CDS
TTCGTCGATTCATGGAGAAG+AGG 0.618289 8.1:+7098902 MS.gene012194:CDS
ACCTAACACAAGCCATGGAG+CGG 0.623220 8.1:-7099360 None:intergenic
TCTATTGAGCCAATACCTCA+AGG 0.624878 8.1:+7098035 MS.gene012194:CDS
AATCAATTACCAATTAGTGA+GGG 0.634671 8.1:-7098722 None:intergenic
ATGTCCGATGAAGTCGACAT+TGG 0.636880 8.1:-7097946 None:intergenic
TTACAAGTTTGAGAAAACGT+AGG 0.650898 8.1:-7098012 None:intergenic
CAACAAACTGATAAAGTCGT+CGG 0.655555 8.1:+7097984 MS.gene012194:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTTTTAATTTAACTGA+TGG + chr8.1:7098832-7098851 MS.gene012194:intron 10.0%
!!! ATGTCTATTAAATCTTTTTT+CGG + chr8.1:7099011-7099030 MS.gene012194:intron 15.0%
!! TTTATTTACCATTTGTTTCA+GGG - chr8.1:7098107-7098126 None:intergenic 20.0%
!!! CAATTGACAATGTTTTATAA+TGG + chr8.1:7098587-7098606 MS.gene012194:CDS 20.0%
!!! TTTTATTTACCATTTGTTTC+AGG - chr8.1:7098108-7098127 None:intergenic 20.0%
!!! TTTTCTTTTTTCAATCTACA+GGG + chr8.1:7098313-7098332 MS.gene012194:intron 20.0%
!!! TTTTTCTTTTTTCAATCTAC+AGG + chr8.1:7098312-7098331 MS.gene012194:intron 20.0%
! AAATCAATTACCAATTAGTG+AGG - chr8.1:7098726-7098745 None:intergenic 25.0%
! AAATGAACTTGGTCAAAAAA+TGG + chr8.1:7098210-7098229 MS.gene012194:intron 25.0%
! AACCGAATAGAGAAAAATAA+GGG - chr8.1:7098269-7098288 None:intergenic 25.0%
! AATCAATTACCAATTAGTGA+GGG - chr8.1:7098725-7098744 None:intergenic 25.0%
! AATCCAAAATCCAAATTAGT+TGG - chr8.1:7099043-7099062 None:intergenic 25.0%
! AGAAAAAATCCATAGTTGTA+AGG - chr8.1:7098410-7098429 None:intergenic 25.0%
! CTTGATAAGTAAATAACAAG+AGG - chr8.1:7099207-7099226 None:intergenic 25.0%
! TAACCGAATAGAGAAAAATA+AGG - chr8.1:7098270-7098289 None:intergenic 25.0%
! TAGTCTTTGTTAAATGAACT+TGG + chr8.1:7098199-7098218 MS.gene012194:intron 25.0%
! TTACAGAGTTATTAATCCTA+TGG + chr8.1:7098544-7098563 MS.gene012194:intron 25.0%
! TTATTTACCATTTGTTTCAG+GGG - chr8.1:7098106-7098125 None:intergenic 25.0%
!! AATTCAGTTCCTATAGTTTT+GGG + chr8.1:7098144-7098163 MS.gene012194:intron 25.0%
!! CAAATACAGGAAATTGTTTT+TGG + chr8.1:7098784-7098803 MS.gene012194:intron 25.0%
!! TTGTGATTTGAAACAAATAC+AGG + chr8.1:7098771-7098790 MS.gene012194:intron 25.0%
!!! ATTTAATTTGTTTGAGAGAG+AGG - chr8.1:7098941-7098960 None:intergenic 25.0%
!!! CTATTAAATCTTTTTTCGGT+TGG + chr8.1:7099015-7099034 MS.gene012194:intron 25.0%
!!! TTCCCTTATTTTTCTCTATT+CGG + chr8.1:7098264-7098283 MS.gene012194:intron 25.0%
!!! TTGAACATTTTTTGAGCTTT+TGG + chr8.1:7099061-7099080 MS.gene012194:intron 25.0%
AATTGCAATGACTCAAACAA+TGG - chr8.1:7098492-7098511 None:intergenic 30.0%
TTACAAGTTTGAGAAAACGT+AGG - chr8.1:7098015-7098034 None:intergenic 30.0%
TTCTCTATTCGGTTACAATT+GGG + chr8.1:7098275-7098294 MS.gene012194:intron 30.0%
TTTCTCTATTCGGTTACAAT+TGG + chr8.1:7098274-7098293 MS.gene012194:intron 30.0%
! CAATTCAGTTCCTATAGTTT+TGG + chr8.1:7098143-7098162 MS.gene012194:intron 30.0%
! GTACCAACTAATTTGGATTT+TGG + chr8.1:7099037-7099056 MS.gene012194:intron 30.0%
! TAATGGACAAGTTATTGTGT+TGG + chr8.1:7098604-7098623 MS.gene012194:CDS 30.0%
! TCCATAGTTGTAAGGTTTTT+CGG - chr8.1:7098402-7098421 None:intergenic 30.0%
!! ATTCTAAAGCCCAAAACTAT+AGG - chr8.1:7098156-7098175 None:intergenic 30.0%
!!! AGGAAATTGTTTTTGGTATC+AGG + chr8.1:7098791-7098810 MS.gene012194:intron 30.0%
!!! CTATGGATTTTTTCTTTCCA+AGG + chr8.1:7098415-7098434 MS.gene012194:CDS 30.0%
!!! GGAAATTGTTTTTGGTATCA+GGG + chr8.1:7098792-7098811 MS.gene012194:intron 30.0%
ACCGAAAAACCTTACAACTA+TGG + chr8.1:7098398-7098417 MS.gene012194:CDS 35.0%
ATGCATGCATAGCATAAATC+TGG + chr8.1:7099086-7099105 MS.gene012194:intron 35.0%
ATTGTCAATTGTGCAGTTTC+TGG - chr8.1:7098578-7098597 None:intergenic 35.0%
ATTTCCAGTCACACAAAGAA+AGG - chr8.1:7099112-7099131 None:intergenic 35.0%
CAACAAACTGATAAAGTCGT+CGG + chr8.1:7097984-7098003 MS.gene012194:CDS 35.0%
GTTTGTGGGAAATAAATCCA+TGG - chr8.1:7098373-7098392 None:intergenic 35.0%
TCAGGAAAGGTTCTTTGATA+TGG - chr8.1:7099314-7099333 None:intergenic 35.0%
! AAAAGCACAAAAACTCACCT+TGG - chr8.1:7098435-7098454 None:intergenic 35.0%
!! AGTGAAGCTTTTCTAGCAAT+TGG - chr8.1:7098883-7098902 None:intergenic 35.0%
AGGCAAAGCAATTTGCACAA+TGG - chr8.1:7099187-7099206 None:intergenic 40.0%
CAATACCTCAAGGAGAAGAA+GGG + chr8.1:7098045-7098064 MS.gene012194:CDS 40.0%
CAATTACCAATTAGTGAGGG+AGG - chr8.1:7098722-7098741 None:intergenic 40.0%
GGTTCTTTGATATGGTGAGT+AGG - chr8.1:7099306-7099325 None:intergenic 40.0%
GGTTGTTGAGGGATCATATT+AGG - chr8.1:7098701-7098720 None:intergenic 40.0%
TCATGGAGAAGAGGAAAGAT+AGG + chr8.1:7098911-7098930 MS.gene012194:CDS 40.0%
TCTATTGAGCCAATACCTCA+AGG + chr8.1:7098035-7098054 MS.gene012194:CDS 40.0%
! TCGGTTGGTACCAACTAATT+TGG + chr8.1:7099030-7099049 MS.gene012194:intron 40.0%
! TTTTCCTGCTGAGAAAGTTG+AGG + chr8.1:7098631-7098650 MS.gene012194:CDS 40.0%
!! CGACTTTATCAGTTTGTTGC+CGG - chr8.1:7097983-7098002 None:intergenic 40.0%
!! GTTTCTGGCTCTTTAACCAT+AGG - chr8.1:7098563-7098582 None:intergenic 40.0%
!! TTCTCACTCTGGAATAACCA+TGG + chr8.1:7098353-7098372 MS.gene012194:CDS 40.0%
!!! TCGGACATTTCTGGTTTTTC+CGG + chr8.1:7097961-7097980 MS.gene012194:CDS 40.0%
!!! TTTTTCGGTGTCACGTTTGT+GGG - chr8.1:7098387-7098406 None:intergenic 40.0%
AACTACCCTTCTTCTCCTTG+AGG - chr8.1:7098053-7098072 None:intergenic 45.0%
ATTAGTGAGGGAGGTTGTTG+AGG - chr8.1:7098713-7098732 None:intergenic 45.0%
CAACAACCTCCCTCACTAAT+TGG + chr8.1:7098713-7098732 MS.gene012194:CDS 45.0%
CCAATACCTCAAGGAGAAGA+AGG + chr8.1:7098044-7098063 MS.gene012194:CDS 45.0%
CCTTCTTCTCCTTGAGGTAT+TGG - chr8.1:7098047-7098066 None:intergenic 45.0%
GAGAAGAAGGGTAGTTTCGA+AGG + chr8.1:7098057-7098076 MS.gene012194:CDS 45.0%
TCGACTTCATCGGACATTTC+TGG + chr8.1:7097952-7097971 MS.gene012194:CDS 45.0%
TGCATGCGTTGTGAAGGTTA+AGG - chr8.1:7098083-7098102 None:intergenic 45.0%
TTAGCACCTAACACAAGCCA+TGG - chr8.1:7099368-7099387 None:intergenic 45.0%
TTAGTGAGGGAGGTTGTTGA+GGG - chr8.1:7098712-7098731 None:intergenic 45.0%
!! AGCTTCACTTCGTCGATTCA+TGG + chr8.1:7098894-7098913 MS.gene012194:CDS 45.0%
!! TTCGTCGATTCATGGAGAAG+AGG + chr8.1:7098902-7098921 MS.gene012194:CDS 45.0%
!!! GTTTTTCGGTGTCACGTTTG+TGG - chr8.1:7098388-7098407 None:intergenic 45.0%
!! AATAACAATATTATTAAATT+AGG - chr8.1:7099255-7099274 None:intergenic 5.0%
ACCTAACACAAGCCATGGAG+CGG - chr8.1:7099363-7099382 None:intergenic 50.0%
AGCTCCTCAACTTTCTCAGC+AGG - chr8.1:7098638-7098657 None:intergenic 50.0%
CAATCTACAGGGTCATCACC+TGG + chr8.1:7098324-7098343 MS.gene012194:intron 50.0%
CCAGAGTGAGAAGATGAACC+AGG - chr8.1:7098345-7098364 None:intergenic 50.0%
CCTGGTTCATCTTCTCACTC+TGG + chr8.1:7098342-7098361 MS.gene012194:CDS 50.0%
GCATGCACCCCTGAAACAAA+TGG + chr8.1:7098096-7098115 MS.gene012194:CDS 50.0%
! CTGGCCTTTCTTTGTGTGAC+TGG + chr8.1:7099105-7099124 MS.gene012194:intron 50.0%
!! TTCTGGAGCAGAGTCAGGAA+AGG - chr8.1:7099327-7099346 None:intergenic 50.0%
!!! TGCTTTTCTGGAGCAGAGTC+AGG - chr8.1:7099332-7099351 None:intergenic 50.0%
! GCGGAGTCAGCATGCTTTTC+TGG - chr8.1:7099344-7099363 None:intergenic 55.0%
! TCCGCTCCATGGCTTGTGTT+AGG + chr8.1:7099359-7099378 MS.gene012194:CDS 55.0%
! CAGGGGTGCATGCGTTGTGA+AGG - chr8.1:7098089-7098108 None:intergenic 60.0%
!! AGCATGCTGACTCCGCTCCA+TGG + chr8.1:7099348-7099367 MS.gene012194:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 7097949 7099397 7097949 ID=MS.gene012194
chr8.1 mRNA 7097949 7099397 7097949 ID=MS.gene012194.t1;Parent=MS.gene012194
chr8.1 exon 7097949 7098117 7097949 ID=MS.gene012194.t1.exon1;Parent=MS.gene012194.t1
chr8.1 CDS 7097949 7098117 7097949 ID=cds.MS.gene012194.t1;Parent=MS.gene012194.t1
chr8.1 exon 7098334 7098436 7098334 ID=MS.gene012194.t1.exon2;Parent=MS.gene012194.t1
chr8.1 CDS 7098334 7098436 7098334 ID=cds.MS.gene012194.t1;Parent=MS.gene012194.t1
chr8.1 exon 7098550 7098734 7098550 ID=MS.gene012194.t1.exon3;Parent=MS.gene012194.t1
chr8.1 CDS 7098550 7098734 7098550 ID=cds.MS.gene012194.t1;Parent=MS.gene012194.t1
chr8.1 exon 7098875 7098932 7098875 ID=MS.gene012194.t1.exon4;Parent=MS.gene012194.t1
chr8.1 CDS 7098875 7098932 7098875 ID=cds.MS.gene012194.t1;Parent=MS.gene012194.t1
chr8.1 exon 7099295 7099397 7099295 ID=MS.gene012194.t1.exon5;Parent=MS.gene012194.t1
chr8.1 CDS 7099295 7099397 7099295 ID=cds.MS.gene012194.t1;Parent=MS.gene012194.t1
Gene Sequence

>MS.gene012194

ATGTCGACTTCATCGGACATTTCTGGTTTTTCCGGCAACAAACTGATAAAGTCGTCGGAGAAACCTACGTTTTCTCAAACTTGTAATCTATTGAGCCAATACCTCAAGGAGAAGAAGGGTAGTTTCGAAGGCCTTAACCTTCACAACGCATGCACCCCTGAAACAAATGGTAAATAAAAATATAAAATTATTTTCAATTCAGTTCCTATAGTTTTGGGCTTTAGAATGTTGAATCAAACTAAGTCTCAAATAGTCTTTGTTAAATGAACTTGGTCAAAAAATGGTAAAACAGAGTATAATGTCATTTCAGATATTTTCCCTTATTTTTCTCTATTCGGTTACAATTGGGTTATTTAAGTTTTCTTTTTCTTTTTTCAATCTACAGGGTCATCACCTGGTTCATCTTCTCACTCTGGAATAACCATGGATTTATTTCCCACAAACGTGACACCGAAAAACCTTACAACTATGGATTTTTTCTTTCCAAGGTGAGTTTTTGTGCTTTTTTAATTCATTCAAGTCGTCAATTAATTTTTTGTACCATTGTTTGAGTCATTGCAATTAATTTGATAATGATTTACACACAATCTTGTTTTTACAGAGTTATTAATCCTATGGTTAAAGAGCCAGAAACTGCACAATTGACAATGTTTTATAATGGACAAGTTATTGTGTTGGATGATTTTCCTGCTGAGAAAGTTGAGGAGCTGAAATCATTTGCTAGAACTCAGACTCAGCATTCAGATGTTCCTAATATGATCCCTCAACAACCTCCCTCACTAATTGGTAATTGATTTTGAATTTGATTGATCACTGTTGTGATTGTGATTTGAAACAAATACAGGAAATTGTTTTTGGTATCAGGGATGAATTTTTTATTTTATTTATTTTTAATTTAACTGATGGTAAATTGAATTTCATTGCAGATATGCCAATTGCTAGAAAAGCTTCACTTCGTCGATTCATGGAGAAGAGGAAAGATAGGTATGCCTCTCTCTCAAACAAATTAAATTCAAGTTTTTATTCAAATAGATTCACAACAAAAAATTCTTCTGCATGTCTATGTCTATTAAATCTTTTTTCGGTTGGTACCAACTAATTTGGATTTTGGATTGAACATTTTTTGAGCTTTTGGTGATGCATGCATAGCATAAATCTGGCCTTTCTTTGTGTGACTGGAAATTTTAGCATCATGTTATTTTCATAGTATTAAAAATCTTAATCTAGATTCTAGTCCATTGTGCAAATTGCTTTGCCTCTTGTTATTTACTTATCAAGTATTTGTTGAGTGATGTTGTTTAAGCCTAATTTAATAATATTGTTATTTTCTTATGTTGTGTTTGTAGAGTTTCTGCCTACTCACCATATCAAAGAACCTTTCCTGACTCTGCTCCAGAAAAGCATGCTGACTCCGCTCCATGGCTTGTGTTAGGTGCTAAATCAATGTAA

Protein sequence

>MS.gene012194.t1

MSTSSDISGFSGNKLIKSSEKPTFSQTCNLLSQYLKEKKGSFEGLNLHNACTPETNGSSPGSSSHSGITMDLFPTNVTPKNLTTMDFFFPRVINPMVKEPETAQLTMFYNGQVIVLDDFPAEKVEELKSFARTQTQHSDVPNMIPQQPPSLIDMPIARKASLRRFMEKRKDRVSAYSPYQRTFPDSAPEKHADSAPWLVLGAKSM