AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051780


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051780.t1 MTR_4g124960 92.683 205 11 2 1 204 1 202 2.27e-128 360
MS.gene051780.t1 MTR_4g124960 92.571 175 10 1 1 175 1 172 1.44e-107 306
MS.gene051780.t1 MTR_2g042900 44.828 261 76 11 1 204 1 250 6.90e-49 160
MS.gene051780.t1 MTR_4g124950 63.566 129 36 2 70 190 1 126 9.85e-44 142
MS.gene051780.t1 MTR_2g042900 49.704 169 65 8 1 152 1 166 3.86e-34 122
MS.gene051780.t1 MTR_5g013530 36.478 159 71 5 76 204 5 163 6.31e-22 88.2
MS.gene051780.t1 MTR_5g013530 39.007 141 65 5 85 204 1 141 7.03e-22 87.8
MS.gene051780.t1 MTR_5g013515 35.606 132 61 2 94 201 4 135 9.05e-21 84.3
MS.gene051780.t1 MTR_5g013520 36.800 125 61 3 98 204 9 133 1.08e-20 84.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051780.t1 AT1G19180 36.328 256 106 10 1 203 1 252 4.12e-35 124
MS.gene051780.t1 AT1G19180 36.328 256 106 10 1 203 1 252 4.12e-35 124
MS.gene051780.t1 AT1G74950 35.745 235 84 10 7 180 1 229 8.62e-27 103
MS.gene051780.t1 AT1G74950 35.683 227 79 10 7 172 1 221 2.45e-23 93.2
MS.gene051780.t1 AT1G19180 39.098 133 52 5 99 203 55 186 3.50e-18 79.0

Find 44 sgRNAs with CRISPR-Local

Find 88 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGACTTCATCGGACATTTC+TGG 0.184990 8.2:+7702344 MS.gene051780:CDS
ATTGTCAATTGTGCAGTTTC+TGG 0.207124 8.2:-7702967 None:intergenic
CCTTCTTCTCCTTGAGGTAT+TGG 0.218986 8.2:-7702436 None:intergenic
CAACAACCTCCCTCACTAAT+TGG 0.267401 8.2:+7703105 MS.gene051780:CDS
GGTTGTTGAGGGAACATATT+AGG 0.271715 8.2:-7703090 None:intergenic
AGCTTCACTTCGTCGATTCA+TGG 0.304214 8.2:+7703286 MS.gene051780:CDS
TCAGGAAAGGTTCTTTGATA+TGG 0.341074 8.2:-7703734 None:intergenic
TTTATTTACCATTTGTTTCA+GGG 0.363709 8.2:-7702496 None:intergenic
CGACTTTATCAGTTTGTTGC+CGG 0.376712 8.2:-7702372 None:intergenic
AGCTCCTCAACTTTCTCAGC+AGG 0.410410 8.2:-7703027 None:intergenic
TCCGCTCCATGGCTTGTGTT+AGG 0.414480 8.2:+7703782 MS.gene051780:CDS
TTACAGAGTTATTAATCCTA+TGG 0.427315 8.2:+7702936 MS.gene051780:intron
TCATGGAGAAGAGGAAAGAT+AGG 0.451183 8.2:+7703303 MS.gene051780:CDS
GTTTCTGGCTCTTTAACCAT+AGG 0.475200 8.2:-7702952 None:intergenic
CCAATACCTCAAGGAGAAGA+AGG 0.480824 8.2:+7702436 MS.gene051780:CDS
CAATCTACAGGGTCATCACC+TGG 0.484929 8.2:+7702716 MS.gene051780:intron
TTAGTGAGGGAGGTTGTTGA+GGG 0.495882 8.2:-7703101 None:intergenic
TTATTTACCATTTGTTTCAG+GGG 0.508177 8.2:-7702495 None:intergenic
GATACCAATGTCGACTTCAT+CGG 0.515126 8.2:+7702334 None:intergenic
ATTAGTGAGGGAGGTTGTTG+AGG 0.517348 8.2:-7703102 None:intergenic
GCATGCACCCCTGAAACAAA+TGG 0.517892 8.2:+7702488 MS.gene051780:CDS
TAATGGACAAGTTATTGTGT+TGG 0.534161 8.2:+7702996 MS.gene051780:CDS
GAGAAGAAGGGTAGTTTCGA+AGG 0.535740 8.2:+7702449 MS.gene051780:CDS
CAGGGGTGCATGCGTTGTGA+AGG 0.536647 8.2:-7702478 None:intergenic
CCTGGTTCATCTTCTCACTC+TGG 0.547944 8.2:+7702734 MS.gene051780:CDS
CCAGAGTGAGAAGATGAACC+AGG 0.548191 8.2:-7702734 None:intergenic
AGCATGCTGACTCCGCTCCA+TGG 0.562298 8.2:+7703771 MS.gene051780:CDS
TGCATGCGTTGTGAAGGTTA+AGG 0.575616 8.2:-7702472 None:intergenic
AAATCAATTACCAATTAGTG+AGG 0.584879 8.2:-7703115 None:intergenic
GGTTCTTTGATATGGTGAGT+AGG 0.584950 8.2:-7703726 None:intergenic
TTCTGGAGCAGAGTCAGGAA+AGG 0.587295 8.2:-7703747 None:intergenic
GTTTGTGGGAAATAAATCCA+TGG 0.589977 8.2:-7702762 None:intergenic
TTAGCACCTAACACAAGCCA+TGG 0.596993 8.2:-7703788 None:intergenic
AACTACCCTTCTTCTCCTTG+AGG 0.603992 8.2:-7702442 None:intergenic
TTCTCACTCTGGAATAACCA+TGG 0.605298 8.2:+7702745 MS.gene051780:CDS
CAATTACCAATTAGTGAGGG+AGG 0.610131 8.2:-7703111 None:intergenic
CAATACCTCAAGGAGAAGAA+GGG 0.616382 8.2:+7702437 MS.gene051780:CDS
TTCGTCGATTCATGGAGAAG+AGG 0.618289 8.2:+7703294 MS.gene051780:CDS
ACCTAACACAAGCCATGGAG+CGG 0.623220 8.2:-7703783 None:intergenic
TCTATTGAGCCAATACCTCA+AGG 0.624878 8.2:+7702427 MS.gene051780:CDS
AATCAATTACCAATTAGTGA+GGG 0.634671 8.2:-7703114 None:intergenic
ATGTCCGATGAAGTCGACAT+TGG 0.636880 8.2:-7702338 None:intergenic
TTACAAGTTTGAGAAAACGT+AGG 0.650898 8.2:-7702404 None:intergenic
CAACAAACTGATAAAGTCGT+CGG 0.655555 8.2:+7702376 MS.gene051780:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTTTTAATTTAACTGA+TGG + chr8.2:7703224-7703243 MS.gene051780:intron 10.0%
!!! TCTCATAATAAATCTTTTTT+CGG + chr8.2:7703434-7703453 MS.gene051780:intron 15.0%
!! TTTATTTACCATTTGTTTCA+GGG - chr8.2:7702499-7702518 None:intergenic 20.0%
!!! ATAATAAATCTTTTTTCGGT+TGG + chr8.2:7703438-7703457 MS.gene051780:intron 20.0%
!!! CAATTGACAATGTTTTATAA+TGG + chr8.2:7702979-7702998 MS.gene051780:CDS 20.0%
!!! TTTTATTTACCATTTGTTTC+AGG - chr8.2:7702500-7702519 None:intergenic 20.0%
!!! TTTTCTTTTTTCAATCTACA+GGG + chr8.2:7702705-7702724 MS.gene051780:intron 20.0%
!!! TTTTTCTTTTTTCAATCTAC+AGG + chr8.2:7702704-7702723 MS.gene051780:intron 20.0%
! AAATCAATTACCAATTAGTG+AGG - chr8.2:7703118-7703137 None:intergenic 25.0%
! AAATGAACTTGGTCAAAAAA+TGG + chr8.2:7702602-7702621 MS.gene051780:intron 25.0%
! AACCGAATAGAGAAAAATAA+GGG - chr8.2:7702661-7702680 None:intergenic 25.0%
! AATCAATTACCAATTAGTGA+GGG - chr8.2:7703117-7703136 None:intergenic 25.0%
! AATCCAAAATCCAAATTAGT+TGG - chr8.2:7703466-7703485 None:intergenic 25.0%
! AGAAAAAATCCATAGTTGTA+AGG - chr8.2:7702802-7702821 None:intergenic 25.0%
! CTTGATAAGTAAATAACAAG+AGG - chr8.2:7703630-7703649 None:intergenic 25.0%
! TAACCGAATAGAGAAAAATA+AGG - chr8.2:7702662-7702681 None:intergenic 25.0%
! TAGTCTTTGTTAAATGAACT+TGG + chr8.2:7702591-7702610 MS.gene051780:intron 25.0%
! TTACAGAGTTATTAATCCTA+TGG + chr8.2:7702936-7702955 MS.gene051780:intron 25.0%
! TTATTTACCATTTGTTTCAG+GGG - chr8.2:7702498-7702517 None:intergenic 25.0%
!! AATTCAGTTCCTATAGTTTT+GGG + chr8.2:7702536-7702555 MS.gene051780:intron 25.0%
!! CAAATACAGGAAATTGTTTT+TGG + chr8.2:7703176-7703195 MS.gene051780:intron 25.0%
!! TTGTGATTTGAAACAAATAC+AGG + chr8.2:7703163-7703182 MS.gene051780:intron 25.0%
!!! ATTTAATTTGTTTGAGAGAG+AGG - chr8.2:7703333-7703352 None:intergenic 25.0%
!!! TTCCCTTATTTTTCTCTATT+CGG + chr8.2:7702656-7702675 MS.gene051780:intron 25.0%
!!! TTGAACATTTTTTGAGCTTT+TGG + chr8.2:7703484-7703503 MS.gene051780:intron 25.0%
AATTGCAATGACTCAAACAA+TGG - chr8.2:7702884-7702903 None:intergenic 30.0%
ATTCTAAACCCCAAAACTAT+AGG - chr8.2:7702548-7702567 None:intergenic 30.0%
TTACAAGTTTGAGAAAACGT+AGG - chr8.2:7702407-7702426 None:intergenic 30.0%
TTCTCTATTCGGTTACAATT+GGG + chr8.2:7702667-7702686 MS.gene051780:intron 30.0%
TTTCTCTATTCGGTTACAAT+TGG + chr8.2:7702666-7702685 MS.gene051780:intron 30.0%
! CAATTCAGTTCCTATAGTTT+TGG + chr8.2:7702535-7702554 MS.gene051780:intron 30.0%
! GTACCAACTAATTTGGATTT+TGG + chr8.2:7703460-7703479 MS.gene051780:intron 30.0%
! TAATGGACAAGTTATTGTGT+TGG + chr8.2:7702996-7703015 MS.gene051780:CDS 30.0%
! TCCATAGTTGTAAGGTTTTT+CGG - chr8.2:7702794-7702813 None:intergenic 30.0%
!! ATTCAGTTCCTATAGTTTTG+GGG + chr8.2:7702537-7702556 MS.gene051780:intron 30.0%
!!! AGGAAATTGTTTTTGGTATC+AGG + chr8.2:7703183-7703202 MS.gene051780:intron 30.0%
!!! CTATGGATTTTTTCTTTCCA+AGG + chr8.2:7702807-7702826 MS.gene051780:CDS 30.0%
!!! GGAAATTGTTTTTGGTATCA+GGG + chr8.2:7703184-7703203 MS.gene051780:intron 30.0%
ACCGAAAAACCTTACAACTA+TGG + chr8.2:7702790-7702809 MS.gene051780:CDS 35.0%
ATGCATGCATAGCATAAATC+TGG + chr8.2:7703509-7703528 MS.gene051780:intron 35.0%
ATTGTCAATTGTGCAGTTTC+TGG - chr8.2:7702970-7702989 None:intergenic 35.0%
ATTTCCAGTCACACAAAGAA+AGG - chr8.2:7703535-7703554 None:intergenic 35.0%
CAACAAACTGATAAAGTCGT+CGG + chr8.2:7702376-7702395 MS.gene051780:CDS 35.0%
GTTTGTGGGAAATAAATCCA+TGG - chr8.2:7702765-7702784 None:intergenic 35.0%
TCAGGAAAGGTTCTTTGATA+TGG - chr8.2:7703737-7703756 None:intergenic 35.0%
! AAAAGCACAAAAACTCACCT+TGG - chr8.2:7702827-7702846 None:intergenic 35.0%
!! AGTGAAGCTTTTCTAGCAAT+TGG - chr8.2:7703275-7703294 None:intergenic 35.0%
AGGCAAAGCAATTTGCACAA+TGG - chr8.2:7703610-7703629 None:intergenic 40.0%
CAATACCTCAAGGAGAAGAA+GGG + chr8.2:7702437-7702456 MS.gene051780:CDS 40.0%
CAATTACCAATTAGTGAGGG+AGG - chr8.2:7703114-7703133 None:intergenic 40.0%
GGTTCTTTGATATGGTGAGT+AGG - chr8.2:7703729-7703748 None:intergenic 40.0%
GGTTGTTGAGGGAACATATT+AGG - chr8.2:7703093-7703112 None:intergenic 40.0%
TCATGGAGAAGAGGAAAGAT+AGG + chr8.2:7703303-7703322 MS.gene051780:CDS 40.0%
TCTATTGAGCCAATACCTCA+AGG + chr8.2:7702427-7702446 MS.gene051780:CDS 40.0%
! TCGGTTGGTACCAACTAATT+TGG + chr8.2:7703453-7703472 MS.gene051780:intron 40.0%
! TTTTCCTGCTGAGAAAGTTG+AGG + chr8.2:7703023-7703042 MS.gene051780:CDS 40.0%
!! CGACTTTATCAGTTTGTTGC+CGG - chr8.2:7702375-7702394 None:intergenic 40.0%
!! GTTTCTGGCTCTTTAACCAT+AGG - chr8.2:7702955-7702974 None:intergenic 40.0%
!! TTCTCACTCTGGAATAACCA+TGG + chr8.2:7702745-7702764 MS.gene051780:CDS 40.0%
!!! TCGGACATTTCTGGTTTTTC+CGG + chr8.2:7702353-7702372 MS.gene051780:CDS 40.0%
!!! TTTTTCGGTGTCACGTTTGT+GGG - chr8.2:7702779-7702798 None:intergenic 40.0%
AACTACCCTTCTTCTCCTTG+AGG - chr8.2:7702445-7702464 None:intergenic 45.0%
ATTAGTGAGGGAGGTTGTTG+AGG - chr8.2:7703105-7703124 None:intergenic 45.0%
CAACAACCTCCCTCACTAAT+TGG + chr8.2:7703105-7703124 MS.gene051780:CDS 45.0%
CCAATACCTCAAGGAGAAGA+AGG + chr8.2:7702436-7702455 MS.gene051780:CDS 45.0%
CCTTCTTCTCCTTGAGGTAT+TGG - chr8.2:7702439-7702458 None:intergenic 45.0%
GAGAAGAAGGGTAGTTTCGA+AGG + chr8.2:7702449-7702468 MS.gene051780:CDS 45.0%
TCGACTTCATCGGACATTTC+TGG + chr8.2:7702344-7702363 MS.gene051780:CDS 45.0%
TGCATGCGTTGTGAAGGTTA+AGG - chr8.2:7702475-7702494 None:intergenic 45.0%
TTAGCACCTAACACAAGCCA+TGG - chr8.2:7703791-7703810 None:intergenic 45.0%
TTAGTGAGGGAGGTTGTTGA+GGG - chr8.2:7703104-7703123 None:intergenic 45.0%
!! AGCTTCACTTCGTCGATTCA+TGG + chr8.2:7703286-7703305 MS.gene051780:CDS 45.0%
!! TTCGTCGATTCATGGAGAAG+AGG + chr8.2:7703294-7703313 MS.gene051780:CDS 45.0%
!!! GTTTTTCGGTGTCACGTTTG+TGG - chr8.2:7702780-7702799 None:intergenic 45.0%
!! AATAACAATATTATTAAATT+AGG - chr8.2:7703678-7703697 None:intergenic 5.0%
ACCTAACACAAGCCATGGAG+CGG - chr8.2:7703786-7703805 None:intergenic 50.0%
AGCTCCTCAACTTTCTCAGC+AGG - chr8.2:7703030-7703049 None:intergenic 50.0%
CAATCTACAGGGTCATCACC+TGG + chr8.2:7702716-7702735 MS.gene051780:intron 50.0%
CCAGAGTGAGAAGATGAACC+AGG - chr8.2:7702737-7702756 None:intergenic 50.0%
CCTGGTTCATCTTCTCACTC+TGG + chr8.2:7702734-7702753 MS.gene051780:CDS 50.0%
GCATGCACCCCTGAAACAAA+TGG + chr8.2:7702488-7702507 MS.gene051780:CDS 50.0%
! CTGGCCTTTCTTTGTGTGAC+TGG + chr8.2:7703528-7703547 MS.gene051780:intron 50.0%
!! TTCTGGAGCAGAGTCAGGAA+AGG - chr8.2:7703750-7703769 None:intergenic 50.0%
!!! TGCTTTTCTGGAGCAGAGTC+AGG - chr8.2:7703755-7703774 None:intergenic 50.0%
! GCGGAGTCAGCATGCTTTTC+TGG - chr8.2:7703767-7703786 None:intergenic 55.0%
! TCCGCTCCATGGCTTGTGTT+AGG + chr8.2:7703782-7703801 MS.gene051780:CDS 55.0%
! CAGGGGTGCATGCGTTGTGA+AGG - chr8.2:7702481-7702500 None:intergenic 60.0%
!! AGCATGCTGACTCCGCTCCA+TGG + chr8.2:7703771-7703790 MS.gene051780:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 7702341 7703820 7702341 ID=MS.gene051780
chr8.2 mRNA 7702341 7703820 7702341 ID=MS.gene051780.t1;Parent=MS.gene051780
chr8.2 exon 7702341 7702509 7702341 ID=MS.gene051780.t1.exon1;Parent=MS.gene051780.t1
chr8.2 CDS 7702341 7702509 7702341 ID=cds.MS.gene051780.t1;Parent=MS.gene051780.t1
chr8.2 exon 7702726 7702828 7702726 ID=MS.gene051780.t1.exon2;Parent=MS.gene051780.t1
chr8.2 CDS 7702726 7702828 7702726 ID=cds.MS.gene051780.t1;Parent=MS.gene051780.t1
chr8.2 exon 7702942 7703126 7702942 ID=MS.gene051780.t1.exon3;Parent=MS.gene051780.t1
chr8.2 CDS 7702942 7703126 7702942 ID=cds.MS.gene051780.t1;Parent=MS.gene051780.t1
chr8.2 exon 7703267 7703324 7703267 ID=MS.gene051780.t1.exon4;Parent=MS.gene051780.t1
chr8.2 CDS 7703267 7703324 7703267 ID=cds.MS.gene051780.t1;Parent=MS.gene051780.t1
chr8.2 exon 7703718 7703820 7703718 ID=MS.gene051780.t1.exon5;Parent=MS.gene051780.t1
chr8.2 CDS 7703718 7703820 7703718 ID=cds.MS.gene051780.t1;Parent=MS.gene051780.t1
Gene Sequence

>MS.gene051780

ATGTCGACTTCATCGGACATTTCTGGTTTTTCCGGCAACAAACTGATAAAGTCGTCGGAGAAACCTACGTTTTCTCAAACTTGTAATCTATTGAGCCAATACCTCAAGGAGAAGAAGGGTAGTTTCGAAGGCCTTAACCTTCACAACGCATGCACCCCTGAAACAAATGGTAAATAAAAATATAAAATTATTTTCAATTCAGTTCCTATAGTTTTGGGGTTTAGAATGTTGAATCAAACTAAGTCTCAAATAGTCTTTGTTAAATGAACTTGGTCAAAAAATGGTAAAACAGAGTATAATGTCATTTCAGATATTTTCCCTTATTTTTCTCTATTCGGTTACAATTGGGTTATTTAAGTTTTCTTTTTCTTTTTTCAATCTACAGGGTCATCACCTGGTTCATCTTCTCACTCTGGAATAACCATGGATTTATTTCCCACAAACGTGACACCGAAAAACCTTACAACTATGGATTTTTTCTTTCCAAGGTGAGTTTTTGTGCTTTTTTAATTCATTCAAGTCGTCAATTAATTTTTTGTACCATTGTTTGAGTCATTGCAATTAATTTGATAATGATTTACACACAATCTTGTTTTTACAGAGTTATTAATCCTATGGTTAAAGAGCCAGAAACTGCACAATTGACAATGTTTTATAATGGACAAGTTATTGTGTTGGATGATTTTCCTGCTGAGAAAGTTGAGGAGCTGAAATCATTTGCTAGAACTCAGACTCAGCATTCAGATGTTCCTAATATGTTCCCTCAACAACCTCCCTCACTAATTGGTAATTGATTTTGAATTTGATTGATCACTGTTGTGATTGTGATTTGAAACAAATACAGGAAATTGTTTTTGGTATCAGGGATGAATTTTTTATTTTATTTATTTTTAATTTAACTGATGGTAAATTGAATTTCATTGCAGATATGCCAATTGCTAGAAAAGCTTCACTTCGTCGATTCATGGAGAAGAGGAAAGATAGGTATGCCTCTCTCTCAAACAAATTAAATTCAAGTTTTTATTCAAATAGATTCACAACAAAAAATTCTTCTGCATGTCTATGTCTATTCTTGATTGAAATGTTCAAACAATCTCATAATAAATCTTTTTTCGGTTGGTACCAACTAATTTGGATTTTGGATTGAACATTTTTTGAGCTTTTGGTGATGCATGCATAGCATAAATCTGGCCTTTCTTTGTGTGACTGGAAATTTTAGCATCATGTTATTTTCATAGTATTAAAAATCTTAATCTAGATTCTAGTCCATTGTGCAAATTGCTTTGCCTCTTGTTATTTACTTATCAAGTATTTGTTGAGTGATGTTGTTTAAGCCTAATTTAATAATATTGTTATTTTCTTATGTTGTGTTTGTAGAGTTTCTGCCTACTCACCATATCAAAGAACCTTTCCTGACTCTGCTCCAGAAAAGCATGCTGACTCCGCTCCATGGCTTGTGTTAGGTGCTAAATCAATGTAA

Protein sequence

>MS.gene051780.t1

MSTSSDISGFSGNKLIKSSEKPTFSQTCNLLSQYLKEKKGSFEGLNLHNACTPETNGSSPGSSSHSGITMDLFPTNVTPKNLTTMDFFFPRVINPMVKEPETAQLTMFYNGQVIVLDDFPAEKVEELKSFARTQTQHSDVPNMFPQQPPSLIDMPIARKASLRRFMEKRKDRVSAYSPYQRTFPDSAPEKHADSAPWLVLGAKSM