AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene064204

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064204.t1 MTR_4g045977 81.863 408 54 4 1 402 1 394 0.0 655
MS.gene064204.t1 MTR_4g107170 54.676 278 100 6 1 275 1 255 6.18e-91 275
MS.gene064204.t1 MTR_2g049610 43.277 238 130 3 1 236 1 235 4.61e-62 200
MS.gene064204.t1 MTR_1g115290 54.706 170 56 4 38 205 2 152 4.41e-52 171
MS.gene064204.t1 MTR_2g049630 35.925 373 196 11 2 340 4 367 7.37e-52 177
MS.gene064204.t1 MTR_2g049530 51.205 166 75 3 3 167 5 165 3.88e-49 165
MS.gene064204.t1 MTR_6g005440 36.598 194 109 3 1 190 1 184 1.41e-35 133
MS.gene064204.t1 MTR_6g018920 33.679 193 125 1 1 190 1 193 5.86e-32 124
MS.gene064204.t1 MTR_1g114730 35.468 203 123 3 1 198 1 200 4.66e-31 121
MS.gene064204.t1 MTR_6g005450 36.471 170 105 1 1 167 1 170 3.81e-29 116
MS.gene064204.t1 MTR_3g466980 29.565 115 77 3 1 114 1 112 6.93e-11 62.0
MS.gene064204.t1 MTR_2g016210 25.000 156 107 2 1 148 1 154 7.15e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064204.t1 AT5G55690 33.562 146 86 3 1 142 1 139 4.88e-16 78.2
MS.gene064204.t1 AT5G55690 33.562 146 86 3 1 142 1 139 4.88e-16 78.2

Find 56 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAGTCGACCTAATGATTT+TGG 0.146545 4.2:+56023375 MS.gene064204:CDS
GCATCCAGATTTCCTTAATA+TGG 0.236107 4.2:+56022834 MS.gene064204:CDS
TTCACAATTGTAGGGTCTTC+TGG 0.282013 4.2:-56022661 None:intergenic
TGAAGAGGGCAATGAAAATT+TGG 0.289896 4.2:+56023635 MS.gene064204:CDS
TTGTGGACATCAAATATTTC+AGG 0.290143 4.2:-56022727 None:intergenic
GGGTCTTCTGGCCATGTAAT+TGG 0.293170 4.2:-56022649 None:intergenic
CAATGCTCTCATGCAAAATA+TGG 0.294005 4.2:+56022972 MS.gene064204:CDS
TCTTCCATATTAAGGAAATC+TGG 0.329357 4.2:-56022838 None:intergenic
TCTAAATTTGTTAGCAAGAC+TGG 0.334083 4.2:+56022577 MS.gene064204:CDS
TTTAACCAATCGTCAAAATC+AGG 0.356658 4.2:-56023213 None:intergenic
CTATTTGTTGATGAATTATG+AGG 0.358221 4.2:-56023123 None:intergenic
AAGTTGGATACTTCTTCTTA+AGG 0.361888 4.2:-56022810 None:intergenic
AGTTGGATACTTCTTCTTAA+GGG 0.378758 4.2:-56022809 None:intergenic
AACCAATAGCCAAAATCATT+AGG 0.388302 4.2:-56023384 None:intergenic
TCTTAATTTCAAAGTATTTG+TGG 0.402565 4.2:-56022744 None:intergenic
TAAATGATGGTGTTTCGAAC+TGG 0.414972 4.2:+56023406 MS.gene064204:CDS
ATTAAAATTTATCTTTCCAT+TGG 0.417218 4.2:-56023668 None:intergenic
TCAACAAATAGTGAGATGAT+TGG 0.421059 4.2:+56023135 MS.gene064204:CDS
TCTTTCCATGCAAACTGATC+AGG 0.422436 4.2:-56023438 None:intergenic
GAGAGCAATGCAAGTTATCT+TGG 0.425818 4.2:+56023486 MS.gene064204:CDS
TGATGTGTTGTTGCATTTGA+GGG 0.426219 4.2:-56023056 None:intergenic
ATTTGGATGATTTGATCCAA+TGG 0.435367 4.2:+56023652 MS.gene064204:CDS
AAGGGTATCTTTCCTCACTT+TGG 0.441633 4.2:-56022791 None:intergenic
AGTTGCTTTGTTGACGAACT+AGG 0.453824 4.2:-56023354 None:intergenic
AGTTGCTTTGTTGATGAACT+AGG 0.453927 4.2:-56023519 None:intergenic
ATGAGGCAAATCAATATGAT+TGG 0.457882 4.2:-56023106 None:intergenic
TGCTATGCATGACATTAACT+TGG 0.461959 4.2:-56023026 None:intergenic
AGCATGGAGTTCACAATTGT+AGG 0.475418 4.2:-56022670 None:intergenic
TTGATGTGTTGTTGCATTTG+AGG 0.480724 4.2:-56023057 None:intergenic
GATTGGTTAAATCAACTAGA+TGG 0.481740 4.2:+56023225 MS.gene064204:CDS
AAATGATGGTGTTTCGAACT+GGG 0.496008 4.2:+56023407 MS.gene064204:CDS
TTTGGCTATTGGTTAAATGA+TGG 0.498816 4.2:+56023393 MS.gene064204:CDS
AGGAAATCTGGATGCCAAGT+TGG 0.499410 4.2:-56022826 None:intergenic
AGTTGCTTTGTAGATGAACT+AGG 0.501324 4.2:-56023183 None:intergenic
TTGATTGTGTATGATGATGA+TGG 0.536425 4.2:+56022613 MS.gene064204:CDS
CGGTTAAATCAACTAGATGA+TGG 0.538310 4.2:+56023567 MS.gene064204:CDS
GCATGGAGTTCACAATTGTA+GGG 0.541792 4.2:-56022669 None:intergenic
GATCGTCAAAATCATGAGGT+TGG 0.544039 4.2:-56023545 None:intergenic
TGATGATGATGGTAATTATG+TGG 0.549083 4.2:+56022624 MS.gene064204:CDS
CAAATGCAACAACACATCAA+TGG 0.552382 4.2:+56023060 MS.gene064204:CDS
GTCAACCTGATCAGTTTGCA+TGG 0.562911 4.2:+56023433 MS.gene064204:CDS
ATACGAGCATAAGAAGATTG+AGG 0.576279 4.2:+56022699 MS.gene064204:CDS
CATCAATGGTACTAATGAGA+TGG 0.585095 4.2:+56023074 MS.gene064204:CDS
ATTAACTTGGCTTGAATGTG+AGG 0.596037 4.2:-56023013 None:intergenic
GGTGATCAGTTTGCCTCGAG+AGG 0.601089 4.2:+56023591 MS.gene064204:CDS
ATTATGTGGGACCAATTACA+TGG 0.606603 4.2:+56022638 MS.gene064204:CDS
CAATGGTACTAATGAGATGG+TGG 0.610016 4.2:+56023077 MS.gene064204:CDS
GATGATGATGGTAATTATGT+GGG 0.610855 4.2:+56022625 MS.gene064204:CDS
AACCGATCGTCAAAATCATG+AGG 0.617532 4.2:-56023549 None:intergenic
ATGCTCGTATTCTTGAAGCA+TGG 0.620028 4.2:-56022686 None:intergenic
TGCTTTGTTGATGAACTAGG+AGG 0.622470 4.2:-56023516 None:intergenic
TTAAGAAGAAGTATCCAACT+TGG 0.637255 4.2:+56022812 MS.gene064204:CDS
AAGCTAAGATAACCAAAGTG+AGG 0.659175 4.2:+56022779 MS.gene064204:CDS
TGGTTAAATCAACTAGATGG+TGG 0.663107 4.2:+56023228 MS.gene064204:CDS
TTAAATCAACTAGATGATGG+TGG 0.672684 4.2:+56023570 MS.gene064204:CDS
TGCTTTGTAGATGAACTAGG+AGG 0.674710 4.2:-56023180 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCATTTTGAATGTATTTCAT+TGG - chr4.2:56022502-56022521 None:intergenic 20.0%
!!! TCTTAATTTCAAAGTATTTG+TGG - chr4.2:56022747-56022766 None:intergenic 20.0%
! GCTTTCAAAGAAAGAAAAAA+TGG + chr4.2:56022538-56022557 MS.gene064204:CDS 25.0%
!! CTATTTGTTGATGAATTATG+AGG - chr4.2:56023126-56023145 None:intergenic 25.0%
!! TTTTCATCTCAAAGTGAAAA+GGG + chr4.2:56023303-56023322 MS.gene064204:CDS 25.0%
!! TTTTTCATCTCAAAGTGAAA+AGG + chr4.2:56023302-56023321 MS.gene064204:CDS 25.0%
!!! AAAGAAAAAATGGATTAGCA+AGG + chr4.2:56022548-56022567 MS.gene064204:CDS 25.0%
!!! GTTGATTTTCTTCCATATTA+AGG - chr4.2:56022849-56022868 None:intergenic 25.0%
AACCAATAGCCAAAATCATT+AGG - chr4.2:56023387-56023406 None:intergenic 30.0%
AAGTTGGATACTTCTTCTTA+AGG - chr4.2:56022813-56022832 None:intergenic 30.0%
AGTTGGATACTTCTTCTTAA+GGG - chr4.2:56022812-56022831 None:intergenic 30.0%
ATGAGGCAAATCAATATGAT+TGG - chr4.2:56023109-56023128 None:intergenic 30.0%
ATTTGGATGATTTGATCCAA+TGG + chr4.2:56023652-56023671 MS.gene064204:CDS 30.0%
TCAACAAATAGTGAGATGAT+TGG + chr4.2:56023135-56023154 MS.gene064204:CDS 30.0%
TCTTCCATATTAAGGAAATC+TGG - chr4.2:56022841-56022860 None:intergenic 30.0%
TTGTGGACATCAAATATTTC+AGG - chr4.2:56022730-56022749 None:intergenic 30.0%
TTTAACCAATCGTCAAAATC+AGG - chr4.2:56023216-56023235 None:intergenic 30.0%
! GATTGGTTAAATCAACTAGA+TGG + chr4.2:56023225-56023244 MS.gene064204:CDS 30.0%
! TTAAATCAACTAGATGATGG+TGG + chr4.2:56023570-56023589 MS.gene064204:CDS 30.0%
! TTGATTGTGTATGATGATGA+TGG + chr4.2:56022613-56022632 MS.gene064204:CDS 30.0%
! TTTGGCTATTGGTTAAATGA+TGG + chr4.2:56023393-56023412 MS.gene064204:CDS 30.0%
!! GATGATGATGGTAATTATGT+GGG + chr4.2:56022625-56022644 MS.gene064204:CDS 30.0%
!! TCTAAATTTGTTAGCAAGAC+TGG + chr4.2:56022577-56022596 MS.gene064204:CDS 30.0%
!! TGATGATGATGGTAATTATG+TGG + chr4.2:56022624-56022643 MS.gene064204:CDS 30.0%
!! TTAAGAAGAAGTATCCAACT+TGG + chr4.2:56022812-56022831 MS.gene064204:CDS 30.0%
AAGCTAAGATAACCAAAGTG+AGG + chr4.2:56022779-56022798 MS.gene064204:CDS 35.0%
ATACGAGCATAAGAAGATTG+AGG + chr4.2:56022699-56022718 MS.gene064204:CDS 35.0%
ATTATGTGGGACCAATTACA+TGG + chr4.2:56022638-56022657 MS.gene064204:CDS 35.0%
CAAATGCAACAACACATCAA+TGG + chr4.2:56023060-56023079 MS.gene064204:CDS 35.0%
CAATGCTCTCATGCAAAATA+TGG + chr4.2:56022972-56022991 MS.gene064204:CDS 35.0%
CATCAATGGTACTAATGAGA+TGG + chr4.2:56023074-56023093 MS.gene064204:CDS 35.0%
CGGTTAAATCAACTAGATGA+TGG + chr4.2:56023567-56023586 MS.gene064204:CDS 35.0%
GCATCCAGATTTCCTTAATA+TGG + chr4.2:56022834-56022853 MS.gene064204:CDS 35.0%
TCTTTCCAGAAAAACTGATC+AGG - chr4.2:56023276-56023295 None:intergenic 35.0%
TGAAGAGGGCAATGAAAATT+TGG + chr4.2:56023635-56023654 MS.gene064204:CDS 35.0%
TGCTATGCATGACATTAACT+TGG - chr4.2:56023029-56023048 None:intergenic 35.0%
TGGTTAAATCAACTAGATGG+TGG + chr4.2:56023228-56023247 MS.gene064204:CDS 35.0%
! AAATGATGGTGTTTCGAACT+GGG + chr4.2:56023407-56023426 MS.gene064204:CDS 35.0%
! AGTTGCTTTGTAGATGAACT+AGG - chr4.2:56023186-56023205 None:intergenic 35.0%
! AGTTGCTTTGTTGATGAACT+AGG - chr4.2:56023522-56023541 None:intergenic 35.0%
! ATTAACTTGGCTTGAATGTG+AGG - chr4.2:56023016-56023035 None:intergenic 35.0%
! CTTAGTCGACCTAATGATTT+TGG + chr4.2:56023375-56023394 MS.gene064204:CDS 35.0%
! TAAATGATGGTGTTTCGAAC+TGG + chr4.2:56023406-56023425 MS.gene064204:CDS 35.0%
! TGATGTGTTGTTGCATTTGA+GGG - chr4.2:56023059-56023078 None:intergenic 35.0%
! TGATTTTGTGATCACAAGCT+TGG - chr4.2:56022906-56022925 None:intergenic 35.0%
! TTGATGTGTTGTTGCATTTG+AGG - chr4.2:56023060-56023079 None:intergenic 35.0%
! TTTTCATCTCAGAGTGAAGA+GGG + chr4.2:56023621-56023640 MS.gene064204:CDS 35.0%
! TTTTTCATCTCAGAGTGAAG+AGG + chr4.2:56023620-56023639 MS.gene064204:CDS 35.0%
!! AACCTCATGATTTTGACGAT+CGG + chr4.2:56023547-56023566 MS.gene064204:CDS 35.0%
!! CATATTTTGCATGAGAGCAT+TGG - chr4.2:56022974-56022993 None:intergenic 35.0%
!!! GACCTAATGATTTTGGCTAT+TGG + chr4.2:56023382-56023401 MS.gene064204:CDS 35.0%
AACCGATCGTCAAAATCATG+AGG - chr4.2:56023552-56023571 None:intergenic 40.0%
AGCATGGAGTTCACAATTGT+AGG - chr4.2:56022673-56022692 None:intergenic 40.0%
ATGCTCGTATTCTTGAAGCA+TGG - chr4.2:56022689-56022708 None:intergenic 40.0%
CAATGGTACTAATGAGATGG+TGG + chr4.2:56023077-56023096 MS.gene064204:CDS 40.0%
GAGAGCAATGCAAGTTATCT+TGG + chr4.2:56023486-56023505 MS.gene064204:CDS 40.0%
GATCGTCAAAATCATGAGGT+TGG - chr4.2:56023548-56023567 None:intergenic 40.0%
GCATGGAGTTCACAATTGTA+GGG - chr4.2:56022672-56022691 None:intergenic 40.0%
TCTTTCCATGCAAACTGATC+AGG - chr4.2:56023441-56023460 None:intergenic 40.0%
TGAAAAAGAAAGACCTCTCG+AGG - chr4.2:56023607-56023626 None:intergenic 40.0%
TGCTTTGTAGATGAACTAGG+AGG - chr4.2:56023183-56023202 None:intergenic 40.0%
TTCACAATTGTAGGGTCTTC+TGG - chr4.2:56022664-56022683 None:intergenic 40.0%
! AGTTGCTTTGTTGACGAACT+AGG - chr4.2:56023357-56023376 None:intergenic 40.0%
! TGCTTTGTTGATGAACTAGG+AGG - chr4.2:56023519-56023538 None:intergenic 40.0%
!! AAGGGTATCTTTCCTCACTT+TGG - chr4.2:56022794-56022813 None:intergenic 40.0%
!! AGATGGTGGTGTTTTGAATC+AGG + chr4.2:56023242-56023261 MS.gene064204:CDS 40.0%
!! GTCAACCTGATTTTGACGAT+TGG + chr4.2:56023208-56023227 MS.gene064204:CDS 40.0%
AGGAAATCTGGATGCCAAGT+TGG - chr4.2:56022829-56022848 None:intergenic 45.0%
GTCAACCTGATCAGTTTGCA+TGG + chr4.2:56023433-56023452 MS.gene064204:CDS 45.0%
! GTCAGCCTGATCAGTTTTTC+TGG + chr4.2:56023268-56023287 MS.gene064204:CDS 45.0%
GGGTCTTCTGGCCATGTAAT+TGG - chr4.2:56022652-56022671 None:intergenic 50.0%
GGTGATCAGTTTGCCTCGAG+AGG + chr4.2:56023591-56023610 MS.gene064204:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 56022481 56023689 56022481 ID=MS.gene064204
chr4.2 mRNA 56022481 56023689 56022481 ID=MS.gene064204.t1;Parent=MS.gene064204
chr4.2 exon 56022481 56023689 56022481 ID=MS.gene064204.t1.exon1;Parent=MS.gene064204.t1
chr4.2 CDS 56022481 56023689 56022481 ID=cds.MS.gene064204.t1;Parent=MS.gene064204.t1
Gene Sequence

>MS.gene064204

ATGGGTCGTAAAAAAATACCAATGAAATACATTCAAAATGAGAAATCTCGCAAAATAGCTTTCAAAGAAAGAAAAAATGGATTAGCAAGGAAACTTTCTAAATTTGTTAGCAAGACTGGAGCAAGAGCTTGTTTGATTGTGTATGATGATGATGGTAATTATGTGGGACCAATTACATGGCCAGAAGACCCTACAATTGTGAACTCCATGCTTCAAGAATACGAGCATAAGAAGATTGAGGAAGCTCCTGAAATATTTGATGTCCACAAATACTTTGAAATTAAGAAAAAAAATGTTGAAGCTAAGATAACCAAAGTGAGGAAAGATACCCTTAAGAAGAAGTATCCAACTTGGCATCCAGATTTCCTTAATATGGAAGAAAATCAACTCAGAAACTTCATTGCTACTATAAATGATAAGATCCAAGCTTGTGATCACAAAATCAGCATGTTGAAAAATATGCAACATAGTGAAACTAGTTTCTTGCAAACCAATGCTCTCATGCAAAATATGGTTCAAGAGAGTGTTGTTTCCTCACATTCAAGCCAAGTTAATGTCATGCATAGCAATAGCATCCCTCAAATGCAACAACACATCAATGGTACTAATGAGATGGTGGATTTGACCAATCATATTGATTTGCCTCATAATTCATCAACAAATAGTGAGATGATTGGTTTCACTGATCTTGATGATTTGCCTCCTAGTTCATCTACAAAGCAACTTAGTCAACCTGATTTTGACGATTGGTTAAATCAACTAGATGGTGGTGTTTTGAATCAGGATAGTCAGCCTGATCAGTTTTTCTGGAAAGATCGTTCTTTTTCATCTCAAAGTGAAAAGGGCAATGCAAGTTATCTTATTGATTTGCATCCTAGTTCGTCAACAAAGCAACTTAGTCGACCTAATGATTTTGGCTATTGGTTAAATGATGGTGTTTCGAACTGGGCTAGTCAACCTGATCAGTTTGCATGGAAAGATCATTCTTTTTCATCTCAAAATGAAGAGAGCAATGCAAGTTATCTTGGTGAGTTTCCTCCTAGTTCATCAACAAAGCAACTTAGCCAACCTCATGATTTTGACGATCGGTTAAATCAACTAGATGATGGTGGTGATCAGTTTGCCTCGAGAGGTCTTTCTTTTTCATCTCAGAGTGAAGAGGGCAATGAAAATTTGGATGATTTGATCCAATGGAAAGATAAATTTTAA
Protein sequence

>MS.gene064204.t1

MGRKKIPMKYIQNEKSRKIAFKERKNGLARKLSKFVSKTGARACLIVYDDDGNYVGPITWPEDPTIVNSMLQEYEHKKIEEAPEIFDVHKYFEIKKKNVEAKITKVRKDTLKKKYPTWHPDFLNMEENQLRNFIATINDKIQACDHKISMLKNMQHSETSFLQTNALMQNMVQESVVSSHSSQVNVMHSNSIPQMQQHINGTNEMVDLTNHIDLPHNSSTNSEMIGFTDLDDLPPSSSTKQLSQPDFDDWLNQLDGGVLNQDSQPDQFFWKDRSFSSQSEKGNASYLIDLHPSSSTKQLSRPNDFGYWLNDGVSNWASQPDQFAWKDHSFSSQNEESNASYLGEFPPSSSTKQLSQPHDFDDRLNQLDDGGDQFASRGLSFSSQSEEGNENLDDLIQWKDKF