AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene039946


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene039946.t1 MTR_0031s0060 93.172 454 7 1 9 462 130 559 0.0 832
MS.gene039946.t1 MTR_5g026780 79.526 464 92 2 1 463 30 491 0.0 756
MS.gene039946.t1 MTR_5g026780 79.526 464 92 2 1 463 14 475 0.0 755
MS.gene039946.t1 MTR_1g112950 71.397 451 129 0 2 452 9 459 0.0 666
MS.gene039946.t1 MTR_5g005160 54.897 439 196 2 18 455 9 446 2.99e-168 483
MS.gene039946.t1 MTR_8g085630 48.966 435 219 2 13 444 34 468 1.04e-149 435
MS.gene039946.t1 MTR_5g064750 47.846 441 227 2 14 451 20 460 8.39e-144 419
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene039946.t1 AT1G31830 70.779 462 132 2 5 463 34 495 0.0 688
MS.gene039946.t1 AT1G31830 70.779 462 132 2 5 463 18 479 0.0 687
MS.gene039946.t1 AT5G05630 70.460 457 130 2 1 452 32 488 0.0 665
MS.gene039946.t1 AT1G31820 63.755 458 164 1 8 463 25 482 0.0 603
MS.gene039946.t1 AT3G19553 57.944 428 178 2 18 443 21 448 5.20e-177 504
MS.gene039946.t1 AT3G13620 45.770 461 244 3 5 459 12 472 5.47e-143 418

Find 0 sgRNAs with CRISPR-Local

Find 140 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTATTTCAATTCCTAAGT+TGG - 24246:17341-17360 MS.gene039946:CDS 20.0%
!! TGGATTTAAAAGATATTGAT+TGG - 24246:17385-17404 MS.gene039946:CDS 20.0%
!!! AATATTGATTGGTTTTGTAT+TGG - 24246:18013-18032 MS.gene039946:CDS 20.0%
!!! CTAACTATTTTGAATTATAG+AGG - 24246:17249-17268 MS.gene039946:CDS 20.0%
!!! GAATTGAAATTTTCTTGATT+TGG + 24246:16858-16877 MS.gene039946:intergenic 20.0%
!!! TATTATAGGGATACTTTTTT+CGG - 24246:17797-17816 MS.gene039946:CDS 20.0%
!!! TGTATTTGAATACTCTTTTT+TGG - 24246:17412-17431 MS.gene039946:CDS 20.0%
!!! TTTGTTTTATGCTTTGATTT+TGG - 24246:17509-17528 MS.gene039946:CDS 20.0%
!!! TTTTTGGAATCTTAACTATT+GGG - 24246:17428-17447 MS.gene039946:CDS 20.0%
!!! TTTTTTGGAATCTTAACTAT+TGG - 24246:17427-17446 MS.gene039946:CDS 20.0%
! AAAGCATAAAACAAACCTTT+AGG + 24246:17504-17523 MS.gene039946:intergenic 25.0%
! ACAAAACCAATCAATATTGT+AGG + 24246:18011-18030 MS.gene039946:intergenic 25.0%
! AGATAATCAAGAAACAAAAC+TGG + 24246:17159-17178 MS.gene039946:intergenic 25.0%
! ATAAATCCCATAACAACAAA+AGG + 24246:17327-17346 MS.gene039946:intergenic 25.0%
! TATAGAGGTTTAACTATTGT+TGG - 24246:17264-17283 MS.gene039946:CDS 25.0%
! TTAAAAAACCAAATGCATCA+AGG - 24246:17934-17953 MS.gene039946:CDS 25.0%
!! GAAAATTTCTTGTACTCTTT+TGG - 24246:17873-17892 MS.gene039946:CDS 25.0%
!! TCATAGTTTTCCCATTTATA+TGG - 24246:16977-16996 MS.gene039946:CDS 25.0%
!!! ATTTTCTTGATTTGGTTTGT+TGG + 24246:16850-16869 MS.gene039946:intergenic 25.0%
!!! GAAAAAAGTATCCCTATAAT+AGG + 24246:17798-17817 MS.gene039946:intergenic 25.0%
!!! TTACTTCCTTTTGTTGTTAT+GGG - 24246:17318-17337 MS.gene039946:CDS 25.0%
AAAACAGTGGTTATGTTGTT+TGG - 24246:17049-17068 MS.gene039946:CDS 30.0%
AAACCAATCAATATTGTAGG+TGG + 24246:18008-18027 MS.gene039946:intergenic 30.0%
AACCAATCAATATTGTAGGT+GGG + 24246:18007-18026 MS.gene039946:intergenic 30.0%
AATTTGTGGAGAGAAAGAAA+TGG - 24246:18111-18130 MS.gene039946:CDS 30.0%
GAAAACTATGAATCCAAGAA+GGG + 24246:16968-16987 MS.gene039946:intergenic 30.0%
GATTCTATAAGTACTCTTGT+TGG - 24246:17450-17469 MS.gene039946:CDS 30.0%
TCAGATATTGCTATGATCAT+TGG - 24246:17615-17634 MS.gene039946:CDS 30.0%
! AAACAGTGGTTATGTTGTTT+GGG - 24246:17050-17069 MS.gene039946:CDS 30.0%
! TATCTGTTTCCTCTTTTTGT+TGG - 24246:17543-17562 MS.gene039946:CDS 30.0%
! TGTTATAAGTGTCATTGCTA+TGG - 24246:18058-18077 MS.gene039946:CDS 30.0%
!!! CTTTGATTTTGGTTGTTAGT+GGG - 24246:17520-17539 MS.gene039946:CDS 30.0%
!!! GCTTAGTTTTGATGAAATTG+TGG - 24246:17845-17864 MS.gene039946:CDS 30.0%
!!! GTTACTTCCTTTTGTTGTTA+TGG - 24246:17317-17336 MS.gene039946:CDS 30.0%
!!! GTTTTGTTGCTGTTTGTTTA+GGG - 24246:17286-17305 MS.gene039946:CDS 30.0%
ATCCCACCTACAATATTGAT+TGG - 24246:18002-18021 MS.gene039946:CDS 35.0%
CAGGGATACTCCATATAAAT+GGG + 24246:16990-17009 MS.gene039946:intergenic 35.0%
CCATGAAAGTAAAATCACAC+CGG + 24246:17826-17845 MS.gene039946:intergenic 35.0%
GATATTGCTATGATCATTGG+TGG - 24246:17618-17637 MS.gene039946:CDS 35.0%
GGAAAACTATGAATCCAAGA+AGG + 24246:16969-16988 MS.gene039946:intergenic 35.0%
TAGAAGATGATGAAGATGAG+AGG + 24246:16883-16902 MS.gene039946:intergenic 35.0%
TCAGGGATACTCCATATAAA+TGG + 24246:16991-17010 MS.gene039946:intergenic 35.0%
TTATAAGGCCTTGATGCATT+TGG + 24246:17945-17964 MS.gene039946:intergenic 35.0%
TTGGTGAAGTTGAAAATCCA+AGG - 24246:17469-17488 MS.gene039946:CDS 35.0%
! AAATGCATCAAGGCCTTATA+AGG - 24246:17944-17963 MS.gene039946:CDS 35.0%
! ACAACATAACCACTGTTTTC+AGG + 24246:17048-17067 MS.gene039946:intergenic 35.0%
! ATCATCTTCTATGAAGTGTC+TGG - 24246:16892-16911 MS.gene039946:CDS 35.0%
! CAACATAACCACTGTTTTCA+GGG + 24246:17047-17066 MS.gene039946:intergenic 35.0%
! TAAGTTGGAACCATCAAGAT+GGG - 24246:17356-17375 MS.gene039946:CDS 35.0%
!! ACTATTCCAGCTTTAGAAAG+TGG - 24246:17186-17205 MS.gene039946:CDS 35.0%
!! ATCAGCTTTAGGACCTTATT+GGG - 24246:17077-17096 MS.gene039946:CDS 35.0%
!!! GCTTTGATTTTGGTTGTTAG+TGG - 24246:17519-17538 MS.gene039946:CDS 35.0%
!!! GGTTTTGTTGCTGTTTGTTT+AGG - 24246:17285-17304 MS.gene039946:CDS 35.0%
AATCCAAGAAGGGTTAAGAG+AGG + 24246:16958-16977 MS.gene039946:intergenic 40.0%
ACAATGTTCCCTGAAAACAG+TGG - 24246:17036-17055 MS.gene039946:CDS 40.0%
CCAAGGAAAACACTTCCTAA+AGG - 24246:17486-17505 MS.gene039946:CDS 40.0%
CCTAATGTTGCCAAAACTCT+AGG + 24246:17216-17235 MS.gene039946:intergenic 40.0%
TCCAACAAGGTTGGATGAAA+TGG - 24246:17103-17122 MS.gene039946:CDS 40.0%
TCCATTTCATCCAACCTTGT+TGG + 24246:17107-17126 MS.gene039946:intergenic 40.0%
TGAAAGTAAAATCACACCGG+AGG + 24246:17823-17842 MS.gene039946:intergenic 40.0%
TGCCTGAGTTCTTTACCAAA+AGG - 24246:17757-17776 MS.gene039946:CDS 40.0%
! AGTGTCATTGCTATGGTGAT+TGG - 24246:18065-18084 MS.gene039946:CDS 40.0%
! ATCTTCTATGAAGTGTCTGG+AGG - 24246:16895-16914 MS.gene039946:CDS 40.0%
! CATCTTGATGGTTCCAACTT+AGG + 24246:17357-17376 MS.gene039946:intergenic 40.0%
! CCGGTGTGATTTTACTTTCA+TGG - 24246:17823-17842 MS.gene039946:CDS 40.0%
! CTAAGTTGGAACCATCAAGA+TGG - 24246:17355-17374 MS.gene039946:CDS 40.0%
! CTCTCCACAAATTTGAGACA+AGG + 24246:18104-18123 MS.gene039946:intergenic 40.0%
! GACCTTTTGGTAAAGAACTC+AGG + 24246:17762-17781 MS.gene039946:intergenic 40.0%
! GTTTGGGTTTCATCAGCTTT+AGG - 24246:17066-17085 MS.gene039946:CDS 40.0%
! TTTCCTCTTTTTGTTGGCAC+CGG - 24246:17549-17568 MS.gene039946:CDS 40.0%
!! CATCAGCTTTAGGACCTTAT+TGG - 24246:17076-17095 MS.gene039946:CDS 40.0%
!! CCTAGAGTTTTGGCAACATT+AGG - 24246:17213-17232 MS.gene039946:CDS 40.0%
!! CTTGATTTGGTTTGTTGGTG+TGG + 24246:16845-16864 MS.gene039946:intergenic 40.0%
!! GGTTGGATGAAATGGATTAG+TGG - 24246:17111-17130 MS.gene039946:CDS 40.0%
!! TCAGCTTTAGGACCTTATTG+GGG - 24246:17078-17097 MS.gene039946:CDS 40.0%
!!! CCTTTAGGAAGTGTTTTCCT+TGG + 24246:17489-17508 MS.gene039946:intergenic 40.0%
ACCTACCTGATCTGGACAAT+GGG - 24246:18156-18175 MS.gene039946:CDS 45.0%
ACTGCATCCTCTGAACCAAA+TGG + 24246:16922-16941 MS.gene039946:intergenic 45.0%
AGCCTTGATCACTGCTGAAA+TGG - 24246:17011-17030 MS.gene039946:CDS 45.0%
ATTGGGGTTTCCAACAAGGT+TGG - 24246:17094-17113 MS.gene039946:CDS 45.0%
CCCTAGAAGCTGAAATGAGT+CGG + 24246:17718-17737 MS.gene039946:intergenic 45.0%
CCGACTCATTTCAGCTTCTA+GGG - 24246:17715-17734 MS.gene039946:CDS 45.0%
CCTTATTGGGGTTTCCAACA+AGG - 24246:17090-17109 MS.gene039946:CDS 45.0%
CCTTGTTGGAAACCCCAATA+AGG + 24246:17093-17112 MS.gene039946:intergenic 45.0%
CTATGATCATTGGTGGAGCT+TGG - 24246:17625-17644 MS.gene039946:CDS 45.0%
GCCTTGATCACTGCTGAAAT+GGG - 24246:17012-17031 MS.gene039946:CDS 45.0%
GCTACGGTACGCCTATTATA+GGG - 24246:17784-17803 MS.gene039946:CDS 45.0%
TCCACTTCAACCCATCTTGA+TGG + 24246:17369-17388 MS.gene039946:intergenic 45.0%
TCCCATTTCAGCAGTGATCA+AGG + 24246:17016-17035 MS.gene039946:intergenic 45.0%
TTACCCCCTGGTACCTTATA+AGG + 24246:17960-17979 MS.gene039946:intergenic 45.0%
TTTACCAAAAGGTCGCGCTA+CGG - 24246:17768-17787 MS.gene039946:CDS 45.0%
! AAGGCCTTATAAGGTACCAG+GGG - 24246:17953-17972 MS.gene039946:CDS 45.0%
! CAAGGCCTTATAAGGTACCA+GGG - 24246:17952-17971 MS.gene039946:CDS 45.0%
! CTCATTTCAGCTTCTAGGGA+TGG - 24246:17719-17738 MS.gene039946:CDS 45.0%
! GCAGCCTTGTCTCAAATTTG+TGG - 24246:18097-18116 MS.gene039946:CDS 45.0%
! TCAAGGCCTTATAAGGTACC+AGG - 24246:17951-17970 MS.gene039946:CDS 45.0%
!! ACCATCAAGATGGGTTGAAG+TGG - 24246:17365-17384 MS.gene039946:CDS 45.0%
!! TTCCAGCTTTAGAAAGTGGC+TGG - 24246:17190-17209 MS.gene039946:CDS 45.0%
!! TTGGTTTGTTGGTGTGGTAC+TGG + 24246:16839-16858 MS.gene039946:intergenic 45.0%
!! TTTGTTGGTGTGGTACTGGT+AGG + 24246:16835-16854 MS.gene039946:intergenic 45.0%
ATTGCTCCAACTTTACCCCC+TGG + 24246:17972-17991 MS.gene039946:intergenic 50.0%
CAGCAGTGATCAAGGCTTCA+GGG + 24246:17008-17027 MS.gene039946:intergenic 50.0%
CCTACCTGATCTGGACAATG+GGG - 24246:18157-18176 MS.gene039946:CDS 50.0%
CGCTACGGTACGCCTATTAT+AGG - 24246:17783-17802 MS.gene039946:CDS 50.0%
GACCTACCTGATCTGGACAA+TGG - 24246:18155-18174 MS.gene039946:CDS 50.0%
GAGGATGCAGTAAAAGCAGC+TGG - 24246:16931-16950 MS.gene039946:CDS 50.0%
GGTCCTCTCTTAACCCTTCT+TGG - 24246:16952-16971 MS.gene039946:CDS 50.0%
TAGTCCTGACCTACCTGATC+TGG - 24246:18148-18167 MS.gene039946:CDS 50.0%
TCAGCAGTGATCAAGGCTTC+AGG + 24246:17009-17028 MS.gene039946:intergenic 50.0%
TTGGTGGAGCTTGGTTGAGA+TGG - 24246:17634-17653 MS.gene039946:CDS 50.0%
TTGTCCAGATCAGGTAGGTC+AGG + 24246:18155-18174 MS.gene039946:intergenic 50.0%
! AAGGTACCAGGGGGTAAAGT+TGG - 24246:17963-17982 MS.gene039946:CDS 50.0%
! AGGCCTTATAAGGTACCAGG+GGG - 24246:17954-17973 MS.gene039946:CDS 50.0%
! GAAGTGTCTGGAGGACCATT+TGG - 24246:16904-16923 MS.gene039946:CDS 50.0%
! GCCGACTCATTTCAGCTTCT+AGG - 24246:17714-17733 MS.gene039946:CDS 50.0%
! TGGAGGACCATTTGGTTCAG+AGG - 24246:16912-16931 MS.gene039946:CDS 50.0%
! TGGGGAGAGCACACAAACAT+TGG - 24246:18175-18194 MS.gene039946:CDS 50.0%
!!! AAGTGGCTGGCCTAGAGTTT+TGG - 24246:17203-17222 MS.gene039946:CDS 50.0%
!!! GGGATACTTTTTTCGGCCTC+CGG - 24246:17804-17823 MS.gene039946:CDS 50.0%
CCCCATTGTCCAGATCAGGT+AGG + 24246:18160-18179 MS.gene039946:intergenic 55.0%
CTCTCCCCATTGTCCAGATC+AGG + 24246:18164-18183 MS.gene039946:intergenic 55.0%
GTGGAGCTTGGTTGAGATGG+TGG - 24246:17637-17656 MS.gene039946:CDS 55.0%
GTGGCTTAATGCTGCAGCTG+CGG - 24246:17656-17675 MS.gene039946:CDS 55.0%
! AGCTTCTAGGGATGGCTGAG+AGG - 24246:17727-17746 MS.gene039946:CDS 55.0%
! CTTCTAGGGATGGCTGAGAG+GGG - 24246:17729-17748 MS.gene039946:CDS 55.0%
! GCAGCTGCGGTGTCGAATAT+GGG - 24246:17669-17688 MS.gene039946:CDS 55.0%
! GCTTCTAGGGATGGCTGAGA+GGG - 24246:17728-17747 MS.gene039946:CDS 55.0%
! TGCAGCTGCGGTGTCGAATA+TGG - 24246:17668-17687 MS.gene039946:CDS 55.0%
!! GGCCAGCCACTTTCTAAAGC+TGG + 24246:17195-17214 MS.gene039946:intergenic 55.0%
!!! TCTTTTTGTTGGCACCGGCG+CGG - 24246:17554-17573 MS.gene039946:CDS 55.0%
! CGTACCGTAGCGCGACCTTT+TGG + 24246:17775-17794 MS.gene039946:intergenic 60.0%
! GCGCCGGTGCCAACAAAAAG+AGG + 24246:17555-17574 MS.gene039946:intergenic 60.0%
ACCCGTCACTCCAAGCCGCG+CGG + 24246:17590-17609 MS.gene039946:intergenic 70.0%
TTCCAGTGGACCGCGCGGCT+TGG - 24246:17577-17596 MS.gene039946:CDS 70.0%
! ACCGCGCGGCTTGGAGTGAC+GGG - 24246:17586-17605 MS.gene039946:CDS 70.0%
! GACCGCGCGGCTTGGAGTGA+CGG - 24246:17585-17604 MS.gene039946:CDS 70.0%
CGCGGTTCCAGTGGACCGCG+CGG - 24246:17572-17591 MS.gene039946:CDS 75.0%
CTCCAAGCCGCGCGGTCCAC+TGG + 24246:17582-17601 MS.gene039946:intergenic 75.0%
GCGGTCCACTGGAACCGCGC+CGG + 24246:17571-17590 MS.gene039946:intergenic 75.0%
!! TGGCACCGGCGCGGTTCCAG+TGG - 24246:17563-17582 MS.gene039946:CDS 75.0%


Chromosome Type Strat End Strand Name
24246 gene 16814 18205 16814 ID=MS.gene039946
24246 mRNA 16814 18205 16814 ID=MS.gene039946.t1;Parent=MS.gene039946
24246 exon 16814 18205 16814 ID=MS.gene039946.t1.exon1;Parent=MS.gene039946.t1
24246 CDS 16814 18205 16814 ID=cds.MS.gene039946.t1;Parent=MS.gene039946.t1
Gene Sequence

>MS.gene039946

ATGGCAGTCACAGAATTACCTACCAGTACCACACCAACAAACCAAATCAAGAAAATTTCAATTCTACCTCTCATCTTCATCATCTTCTATGAAGTGTCTGGAGGACCATTTGGTTCAGAGGATGCAGTAAAAGCAGCTGGTCCTCTCTTAACCCTTCTTGGATTCATAGTTTTCCCATTTATATGGAGTATCCCTGAAGCCTTGATCACTGCTGAAATGGGAACAATGTTCCCTGAAAACAGTGGTTATGTTGTTTGGGTTTCATCAGCTTTAGGACCTTATTGGGGTTTCCAACAAGGTTGGATGAAATGGATTAGTGGTGTCATAGACAATGCTTTGTATCCAGTTTTGTTTCTTGATTATCTTAAGTCAACTATTCCAGCTTTAGAAAGTGGCTGGCCTAGAGTTTTGGCAACATTAGGTCTTACTATATTTCTAACTATTTTGAATTATAGAGGTTTAACTATTGTTGGTTTTGTTGCTGTTTGTTTAGGGATTTTTTCGTTACTTCCTTTTGTTGTTATGGGATTTATTTCAATTCCTAAGTTGGAACCATCAAGATGGGTTGAAGTGGATTTAAAAGATATTGATTGGAGTTTGTATTTGAATACTCTTTTTTGGAATCTTAACTATTGGGATTCTATAAGTACTCTTGTTGGTGAAGTTGAAAATCCAAGGAAAACACTTCCTAAAGGTTTGTTTTATGCTTTGATTTTGGTTGTTAGTGGGTATCTGTTTCCTCTTTTTGTTGGCACCGGCGCGGTTCCAGTGGACCGCGCGGCTTGGAGTGACGGGTACTTTTCAGATATTGCTATGATCATTGGTGGAGCTTGGTTGAGATGGTGGCTTAATGCTGCAGCTGCGGTGTCGAATATGGGATTGTTTGTTGCTGAAATGAGCGCCGACTCATTTCAGCTTCTAGGGATGGCTGAGAGGGGAATGTTGCCTGAGTTCTTTACCAAAAGGTCGCGCTACGGTACGCCTATTATAGGGATACTTTTTTCGGCCTCCGGTGTGATTTTACTTTCATGGCTTAGTTTTGATGAAATTGTGGCAGCTGAAAATTTCTTGTACTCTTTTGGAATAATTCTTGAGTTTATTGCATTCATTTTGTTGAAGATTAAAAAACCAAATGCATCAAGGCCTTATAAGGTACCAGGGGGTAAAGTTGGAGCAATTTTTCTGTGTATCCCACCTACAATATTGATTGGTTTTGTATTGGCTTTCTCTTCTCTAAAAGTGTTTGTTATAAGTGTCATTGCTATGGTGATTGGTCTTGTGATGCAGCCTTGTCTCAAATTTGTGGAGAGAAAGAAATGGATCAAGTTCTCTGTTAGTCCTGACCTACCTGATCTGGACAATGGGGAGAGCACACAAACATTGGTGCAATAA

Protein sequence

>MS.gene039946.t1

MAVTELPTSTTPTNQIKKISILPLIFIIFYEVSGGPFGSEDAVKAAGPLLTLLGFIVFPFIWSIPEALITAEMGTMFPENSGYVVWVSSALGPYWGFQQGWMKWISGVIDNALYPVLFLDYLKSTIPALESGWPRVLATLGLTIFLTILNYRGLTIVGFVAVCLGIFSLLPFVVMGFISIPKLEPSRWVEVDLKDIDWSLYLNTLFWNLNYWDSISTLVGEVENPRKTLPKGLFYALILVVSGYLFPLFVGTGAVPVDRAAWSDGYFSDIAMIIGGAWLRWWLNAAAAVSNMGLFVAEMSADSFQLLGMAERGMLPEFFTKRSRYGTPIIGILFSASGVILLSWLSFDEIVAAENFLYSFGIILEFIAFILLKIKKPNASRPYKVPGGKVGAIFLCIPPTILIGFVLAFSSLKVFVISVIAMVIGLVMQPCLKFVERKKWIKFSVSPDLPDLDNGESTQTLVQ