AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97614


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97614.t1 MTR_1g098170 100.000 152 0 0 1 152 1 152 6.47e-112 314
MS.gene97614.t1 MTR_1g098220 100.000 152 0 0 1 152 1 152 6.47e-112 314
MS.gene97614.t1 MTR_6g043210 98.684 152 2 0 1 152 1 152 6.70e-111 311
MS.gene97614.t1 MTR_1g492710 97.945 146 3 0 1 146 794 939 1.21e-97 303
MS.gene97614.t1 MTR_1g098220 99.160 119 1 0 1 119 1 119 2.71e-84 243
MS.gene97614.t1 MTR_5g027650 95.098 102 5 0 39 140 11 112 7.93e-69 203
MS.gene97614.t1 MTR_5g027580 93.137 102 7 0 39 140 48 149 7.08e-68 202
MS.gene97614.t1 MTR_5g027670 94.382 89 5 0 52 140 1 89 2.79e-58 176
MS.gene97614.t1 MTR_5g027615 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene97614.t1 MTR_5g027605 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene97614.t1 MTR_5g027640 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene97614.t1 MTR_5g027600 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene97614.t1 MTR_1005s0010 94.186 86 5 0 55 140 2 87 2.51e-56 171
MS.gene97614.t1 MTR_4g015960 70.270 74 15 2 68 137 10 80 2.32e-27 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97614.t1 AT4G09800 92.763 152 11 0 1 152 1 152 1.89e-105 298
MS.gene97614.t1 AT1G34030 92.763 152 11 0 1 152 1 152 1.89e-105 298
MS.gene97614.t1 AT1G22780 92.763 152 11 0 1 152 1 152 1.89e-105 298

Find 40 sgRNAs with CRISPR-Local

Find 99 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGAAGTTGAGAGATGATT+TGG 0.279609 1.1:-70512578 MS.gene97614:CDS
CAACTTCATGTCGAGTTGAT+TGG 0.309472 1.1:+70512591 None:intergenic
ACCGGGGTTTGAGGCACTAC+TGG 0.376368 1.1:-70511620 MS.gene97614:CDS
TCCCCTGCGGCCTGTAGTCT+TGG 0.394682 1.1:+70511572 None:intergenic
CCGGGGTTTGAGGCACTACT+GGG 0.411270 1.1:-70511619 MS.gene97614:CDS
TTCTGTTATGCAGTAATCAC+CGG 0.438670 1.1:-70511638 MS.gene97614:intron
TACTGGGGCCTTCGTGTTCG+TGG 0.449083 1.1:-70511603 MS.gene97614:CDS
GTGTTGAACACAAATGTTGA+TGG 0.456259 1.1:-70513001 MS.gene97614:CDS
TGATTGAGGTCATTGCGAAC+TGG 0.463060 1.1:+70512966 None:intergenic
GTTCGCAATGACCTCAATCA+AGG 0.484324 1.1:-70512963 MS.gene97614:CDS
CAAGGATGGCAAATTCTCTC+AGG 0.484690 1.1:-70512620 MS.gene97614:CDS
ATGACCTCAATCAAGGGTAT+TGG 0.493197 1.1:-70512956 MS.gene97614:CDS
GTCAATTCAAGGTTCCAGAT+TGG 0.495981 1.1:-70512666 MS.gene97614:CDS
CGCTAACATCTGCTGTAAGA+AGG 0.503592 1.1:-70512924 MS.gene97614:CDS
TGCGAATCCTCGTCAATTCA+AGG 0.503849 1.1:-70512677 MS.gene97614:CDS
CCCAGTAGTGCCTCAAACCC+CGG 0.505879 1.1:+70511619 None:intergenic
TGGAGAGACTCAAGAAGATC+CGG 0.512286 1.1:-70512558 MS.gene97614:intron
GAACAGAAAGAAGGATTACA+AGG 0.525479 1.1:-70512638 MS.gene97614:CDS
GCAGTAATCACCGGGGTTTG+AGG 0.529690 1.1:-70511629 MS.gene97614:intron
TGATGTGTTATAGTCTTTGG+TGG 0.546379 1.1:-70513053 MS.gene97614:intron
AGAAAGAAGGATTACAAGGA+TGG 0.565673 1.1:-70512634 MS.gene97614:CDS
GGTCAGCATACCAAGACTAC+AGG 0.569467 1.1:-70511582 MS.gene97614:CDS
TACCAAGACTACAGGCCGCA+GGG 0.580402 1.1:-70511574 MS.gene97614:CDS
TGAATTGAGTGCCGCAGAGT+TGG 0.583506 1.1:-70512719 MS.gene97614:CDS
CCTACCAATACCCTTGATTG+AGG 0.590405 1.1:+70512952 None:intergenic
ATACCAAGACTACAGGCCGC+AGG 0.594524 1.1:-70511575 MS.gene97614:CDS
TCTGTTATGCAGTAATCACC+GGG 0.594587 1.1:-70511637 MS.gene97614:intron
GGCCGCAGGGGAAAGACTGT+TGG 0.608087 1.1:-70511561 MS.gene97614:CDS
GTTGGATAATATTATGACAG+TGG 0.620536 1.1:-70512701 MS.gene97614:CDS
TTCGCAATGACCTCAATCAA+GGG 0.622158 1.1:-70512962 MS.gene97614:CDS
CCTCAATCAAGGGTATTGGT+AGG 0.631523 1.1:-70512952 MS.gene97614:CDS
CCTCTTGTTCATGTCAACAT+CGG 0.651019 1.1:+70512901 None:intergenic
ACCAAGACTACAGGCCGCAG+GGG 0.654823 1.1:-70511573 MS.gene97614:CDS
CCGATGTTGACATGAACAAG+AGG 0.658386 1.1:-70512901 MS.gene97614:intron
TCTGGAACCTTGAATTGACG+AGG 0.669518 1.1:+70512670 None:intergenic
CGGGGTTTGAGGCACTACTG+GGG 0.682879 1.1:-70511618 MS.gene97614:CDS
CATAATATTATCCAACTCTG+CGG 0.698001 1.1:+70512708 None:intergenic
CTGTTATGCAGTAATCACCG+GGG 0.730953 1.1:-70511636 MS.gene97614:intron
TATGCTGACCACGAACACGA+AGG 0.739225 1.1:+70511595 None:intergenic
CACCAACAGTCTTTCCCCTG+CGG 0.740988 1.1:+70511559 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTCAATTCAATAATATAA+TGG - chr1.1:70512949-70512968 MS.gene97614:CDS 10.0%
!!! ATTTTTGTTGTTAAAATTAA+TGG - chr1.1:70511826-70511845 MS.gene97614:intron 10.0%
!!! TTTTTGTTGTTAAAATTAAT+GGG - chr1.1:70511827-70511846 MS.gene97614:intron 10.0%
!! TTTGAGTAGTAAAAAAATAA+TGG + chr1.1:70512872-70512891 None:intergenic 15.0%
!! TTTGATATTATTGTTGAAAT+GGG - chr1.1:70511890-70511909 MS.gene97614:intron 15.0%
!!! TTTTGATATTATTGTTGAAA+TGG - chr1.1:70511889-70511908 MS.gene97614:intron 15.0%
!! AATAAGATGAAAACAGTTTA+TGG - chr1.1:70512760-70512779 MS.gene97614:intron 20.0%
!! AATACATAGTAAAAAATGCA+AGG + chr1.1:70512577-70512596 None:intergenic 20.0%
!! AGTTTAAATAAATCCTATCT+GGG - chr1.1:70512840-70512859 MS.gene97614:intron 20.0%
!! ATCATCTTTATAGTTAACAA+AGG + chr1.1:70512169-70512188 None:intergenic 20.0%
!! ATGATATTCATGTTGATATA+GGG - chr1.1:70512614-70512633 MS.gene97614:CDS 20.0%
!! TAGTTTAAATAAATCCTATC+TGG - chr1.1:70512839-70512858 MS.gene97614:intron 20.0%
!! TATGATATTCATGTTGATAT+AGG - chr1.1:70512613-70512632 MS.gene97614:CDS 20.0%
!! TTCTGTATTCAATAATACAA+TGG - chr1.1:70512892-70512911 MS.gene97614:intron 20.0%
!!! AAATGACTGATTTATAAAAG+TGG + chr1.1:70511810-70511829 None:intergenic 20.0%
!!! AATAATATAATGGATGTATG+TGG - chr1.1:70512959-70512978 MS.gene97614:CDS 20.0%
!!! AATGACTGATTTATAAAAGT+GGG + chr1.1:70511809-70511828 None:intergenic 20.0%
!!! CAATAAAATTTTAGACTGTT+TGG - chr1.1:70512664-70512683 MS.gene97614:CDS 20.0%
!!! TTTGTTGTTGGATTTTTTTA+GGG - chr1.1:70511918-70511937 MS.gene97614:intron 20.0%
!!! TTTTGTTGTTGGATTTTTTT+AGG - chr1.1:70511917-70511936 MS.gene97614:intron 20.0%
! AATAATACAATGGATGTATG+TGG - chr1.1:70512902-70512921 MS.gene97614:CDS 25.0%
! ACAGTTTAATTAAGCACTTA+TGG - chr1.1:70512691-70512710 MS.gene97614:CDS 25.0%
! GAAAACAAAATACAAGTCAT+TGG + chr1.1:70512526-70512545 None:intergenic 25.0%
! TTAACATTTCAACACTATGT+AGG - chr1.1:70512223-70512242 MS.gene97614:intron 25.0%
! TTAGAACGAGAATTAACTAT+TGG - chr1.1:70512305-70512324 MS.gene97614:intron 25.0%
!!! ACTTGTATTTTGTTTTCTCT+TGG - chr1.1:70512529-70512548 MS.gene97614:intron 25.0%
AATCAAATGTTTCCCATAAG+CGG - chr1.1:70512456-70512475 MS.gene97614:intron 30.0%
AGATGTAGTAGTAAGATGAT+AGG - chr1.1:70512259-70512278 MS.gene97614:intron 30.0%
AGTGTTTGAAAATAGAACAG+TGG - chr1.1:70512409-70512428 MS.gene97614:intron 30.0%
ATGAAAACAGTTTATGGACA+TGG - chr1.1:70512766-70512785 MS.gene97614:intron 30.0%
ATTTGCATAAGCAAACTGTT+TGG + chr1.1:70512815-70512834 None:intergenic 30.0%
CATAATATTATCCAACTCTG+CGG + chr1.1:70511959-70511978 None:intergenic 30.0%
GTGTTTGAAAATAGAACAGT+GGG - chr1.1:70512410-70512429 MS.gene97614:intron 30.0%
GTTGGATAATATTATGACAG+TGG - chr1.1:70511963-70511982 MS.gene97614:intron 30.0%
TTGTGATGTGTTATAGTCTT+TGG - chr1.1:70511608-70511627 MS.gene97614:CDS 30.0%
TTTCTGTTCAAAAACCAATC+TGG + chr1.1:70512015-70512034 None:intergenic 30.0%
TTTGCATAAGCAAACTGTTT+GGG + chr1.1:70512814-70512833 None:intergenic 30.0%
!! TTGGTTTTTGAACAGAAAGA+AGG - chr1.1:70512017-70512036 MS.gene97614:intron 30.0%
!!! AAATGGGTTGTTTTTGTTGT+TGG - chr1.1:70511906-70511925 MS.gene97614:intron 30.0%
!!! CTCAGTTGGTTTTTTAGTAT+AGG - chr1.1:70512194-70512213 MS.gene97614:intron 30.0%
AAAGATGATTCTCACTCAGT+TGG - chr1.1:70512180-70512199 MS.gene97614:intron 35.0%
ACAATGAAGTAGCATCTTAC+CGG + chr1.1:70512128-70512147 None:intergenic 35.0%
AGAAAGAAGGATTACAAGGA+TGG - chr1.1:70512030-70512049 MS.gene97614:intron 35.0%
ATGGATGTATGTGGAGAAAT+TGG - chr1.1:70512968-70512987 MS.gene97614:CDS 35.0%
CATGAAGTTGAGAGATGATT+TGG - chr1.1:70512086-70512105 MS.gene97614:intron 35.0%
GAACAGAAAGAAGGATTACA+AGG - chr1.1:70512026-70512045 MS.gene97614:intron 35.0%
GTGATTACTGCATAACAGAA+AGG + chr1.1:70513026-70513045 None:intergenic 35.0%
GTGTTGAACACAAATGTTGA+TGG - chr1.1:70511663-70511682 MS.gene97614:intron 35.0%
TGATGTGTTATAGTCTTTGG+TGG - chr1.1:70511611-70511630 MS.gene97614:CDS 35.0%
TGGATGTATGTGGAGAAATT+GGG - chr1.1:70512969-70512988 MS.gene97614:CDS 35.0%
TTCTGTTATGCAGTAATCAC+CGG - chr1.1:70513026-70513045 MS.gene97614:CDS 35.0%
TTGCATAAGCAAACTGTTTG+GGG + chr1.1:70512813-70512832 None:intergenic 35.0%
!!! TTGTTGGATTTTTTTAGGGC+TGG - chr1.1:70511922-70511941 MS.gene97614:intron 35.0%
ATAATGGCATATGCCCAGAT+AGG + chr1.1:70512856-70512875 None:intergenic 40.0%
CCTCTTGTTCATGTCAACAT+CGG + chr1.1:70511766-70511785 None:intergenic 40.0%
GAATTGGACCAAATAGTAGC+TGG - chr1.1:70512493-70512512 MS.gene97614:intron 40.0%
GATAAGAGCCAGCTACTATT+TGG + chr1.1:70512504-70512523 None:intergenic 40.0%
GGAAATACGGGCAATAGAAT+TGG - chr1.1:70512477-70512496 MS.gene97614:intron 40.0%
GTCAATTCAAGGTTCCAGAT+TGG - chr1.1:70511998-70512017 MS.gene97614:intron 40.0%
GTTTCCCATAAGCGGAAATA+CGG - chr1.1:70512464-70512483 MS.gene97614:intron 40.0%
TATGTGGAGAAATTGGGCAT+TGG - chr1.1:70512975-70512994 MS.gene97614:CDS 40.0%
TCTGTTATGCAGTAATCACC+GGG - chr1.1:70513027-70513046 MS.gene97614:CDS 40.0%
TTCGCAATGACCTCAATCAA+GGG - chr1.1:70511702-70511721 MS.gene97614:intron 40.0%
TTTCCCATAAGCGGAAATAC+GGG - chr1.1:70512465-70512484 MS.gene97614:intron 40.0%
! ATGACCTCAATCAAGGGTAT+TGG - chr1.1:70511708-70511727 MS.gene97614:intron 40.0%
!! CAACTTCATGTCGAGTTGAT+TGG + chr1.1:70512076-70512095 None:intergenic 40.0%
!! CGTTCTAAAGCATCAAGCAA+TGG + chr1.1:70512293-70512312 None:intergenic 40.0%
ACACGATCAAAGCAATGCAG+TGG + chr1.1:70512367-70512386 None:intergenic 45.0%
ATTGCCCGTATTTCCGCTTA+TGG + chr1.1:70512472-70512491 None:intergenic 45.0%
CAAGGATGGCAAATTCTCTC+AGG - chr1.1:70512044-70512063 MS.gene97614:intron 45.0%
CCGATGTTGACATGAACAAG+AGG - chr1.1:70511763-70511782 MS.gene97614:intron 45.0%
CCTACCAATACCCTTGATTG+AGG + chr1.1:70511715-70511734 None:intergenic 45.0%
CGCTAACATCTGCTGTAAGA+AGG - chr1.1:70511740-70511759 MS.gene97614:intron 45.0%
CTGTTATGCAGTAATCACCG+GGG - chr1.1:70513028-70513047 MS.gene97614:CDS 45.0%
GTTCGCAATGACCTCAATCA+AGG - chr1.1:70511701-70511720 MS.gene97614:intron 45.0%
TGATTGAGGTCATTGCGAAC+TGG + chr1.1:70511701-70511720 None:intergenic 45.0%
TGCGAATCCTCGTCAATTCA+AGG - chr1.1:70511987-70512006 MS.gene97614:intron 45.0%
TGGAGAGACTCAAGAAGATC+CGG - chr1.1:70512106-70512125 MS.gene97614:intron 45.0%
TTGCCCGTATTTCCGCTTAT+GGG + chr1.1:70512471-70512490 None:intergenic 45.0%
! TCTGGAACCTTGAATTGACG+AGG + chr1.1:70511997-70512016 None:intergenic 45.0%
!! CCTCAATCAAGGGTATTGGT+AGG - chr1.1:70511712-70511731 MS.gene97614:intron 45.0%
CGATCAAAGCAATGCAGTGG+TGG + chr1.1:70512364-70512383 None:intergenic 50.0%
GGTCAGCATACCAAGACTAC+AGG - chr1.1:70513082-70513101 MS.gene97614:intron 50.0%
TATGCTGACCACGAACACGA+AGG + chr1.1:70513072-70513091 None:intergenic 50.0%
! TGAATTGAGTGCCGCAGAGT+TGG - chr1.1:70511945-70511964 MS.gene97614:intron 50.0%
!! TGGAGAAATTGGGCATTGGC+TGG - chr1.1:70512979-70512998 MS.gene97614:CDS 50.0%
ATACCAAGACTACAGGCCGC+AGG - chr1.1:70513089-70513108 MS.gene97614:intron 55.0%
CACCAACAGTCTTTCCCCTG+CGG + chr1.1:70513108-70513127 None:intergenic 55.0%
GCAGTAATCACCGGGGTTTG+AGG - chr1.1:70513035-70513054 MS.gene97614:CDS 55.0%
TACCAAGACTACAGGCCGCA+GGG - chr1.1:70513090-70513109 MS.gene97614:intron 55.0%
! ATGCAGTGGTGGTGCATCAG+CGG + chr1.1:70512353-70512372 None:intergenic 55.0%
ACCAAGACTACAGGCCGCAG+GGG - chr1.1:70513091-70513110 MS.gene97614:intron 60.0%
CCCAGTAGTGCCTCAAACCC+CGG + chr1.1:70513048-70513067 None:intergenic 60.0%
TACTGGGGCCTTCGTGTTCG+TGG - chr1.1:70513061-70513080 MS.gene97614:intron 60.0%
! ACCGGGGTTTGAGGCACTAC+TGG - chr1.1:70513044-70513063 MS.gene97614:intron 60.0%
! CCGGGGTTTGAGGCACTACT+GGG - chr1.1:70513045-70513064 MS.gene97614:intron 60.0%
! CGGGGTTTGAGGCACTACTG+GGG - chr1.1:70513046-70513065 MS.gene97614:intron 60.0%
GGCCGCAGGGGAAAGACTGT+TGG - chr1.1:70513103-70513122 MS.gene97614:intron 65.0%
TCCCCTGCGGCCTGTAGTCT+TGG + chr1.1:70513095-70513114 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 70511542 70513144 70511542 ID=MS.gene97614
chr1.1 mRNA 70511542 70513144 70511542 ID=MS.gene97614.t1;Parent=MS.gene97614
chr1.1 exon 70513142 70513144 70513142 ID=MS.gene97614.t1.exon1;Parent=MS.gene97614.t1
chr1.1 CDS 70513142 70513144 70513142 ID=cds.MS.gene97614.t1;Parent=MS.gene97614.t1
chr1.1 exon 70512902 70513062 70512902 ID=MS.gene97614.t1.exon2;Parent=MS.gene97614.t1
chr1.1 CDS 70512902 70513062 70512902 ID=cds.MS.gene97614.t1;Parent=MS.gene97614.t1
chr1.1 exon 70512559 70512747 70512559 ID=MS.gene97614.t1.exon3;Parent=MS.gene97614.t1
chr1.1 CDS 70512559 70512747 70512559 ID=cds.MS.gene97614.t1;Parent=MS.gene97614.t1
chr1.1 exon 70511542 70511647 70511542 ID=MS.gene97614.t1.exon4;Parent=MS.gene97614.t1
chr1.1 CDS 70511542 70511647 70511542 ID=cds.MS.gene97614.t1;Parent=MS.gene97614.t1
Gene Sequence

>MS.gene97614

ATGGTATGTTTTCGATCTCGATTTCATCTCGATGTAGCTGCTTAATCGCTGATTCTGTTTTTTTTTTTGTGATGTGTTATAGTCTTTGGTGGCGAACGAAGAATTTCAGCACATTCTGCGTGTGTTGAACACAAATGTTGATGGAAAGCAGAAGATCCAGTTCGCAATGACCTCAATCAAGGGTATTGGTAGGAGATTCGCTAACATCTGCTGTAAGAAGGCCGATGTTGACATGAACAAGAGGTTCGTTGTTCTGATTTTGCTCCCACTTTTATAAATCAGTCATTTTTGTTGTTAAAATTAATGGGTTTCTTGAGTTTAATTGATCTCACATTTAAAAATCAAATTTTTGATATTATTGTTGAAATGGGTTGTTTTTGTTGTTGGATTTTTTTAGGGCTGGTGAATTGAGTGCCGCAGAGTTGGATAATATTATGACAGTGGTTGCGAATCCTCGTCAATTCAAGGTTCCAGATTGGTTTTTGAACAGAAAGAAGGATTACAAGGATGGCAAATTCTCTCAGGTTGTCTCCAATCAACTCGACATGAAGTTGAGAGATGATTTGGAGAGACTCAAGAAGATCCGGTAAGATGCTACTTCATTGTTTTTTGTGTGATTGTTTGCCTTTGTTAACTATAAAGATGATTCTCACTCAGTTGGTTTTTTAGTATAGGTTTAAATTAACATTTCAACACTATGTAGGAATATCAAAATTGAGATGTAGTAGTAAGATGATAGGACTAATAACCATTGCTTGATGCTTTAGAACGAGAATTAACTATTGGAGAATCTAAAGCTCATGCACTACCGCTGATGCACCACCACTGCATTGCTTTGATCGTGTGTGATGCTTTAGCTTTCTCAATAGTGTTTGAAAATAGAACAGTGGGAAGTGTTATTAGTTTACTTGAATAATCAAATGTTTCCCATAAGCGGAAATACGGGCAATAGAATTGGACCAAATAGTAGCTGGCTCTTATCCAATGACTTGTATTTTGTTTTCTCTTGGCTAGATAGTTTTACGTTGTCTTCCTTGCATTTTTTACTATGTATTTGCATTTTTTACTATGTATGATATTCATGTTGATATAGGGACAAATGTGTCGCGAGATGAAGTAACACAATAAAATTTTAGACTGTTTGGATAAACAGTTTAATTAAGCACTTATGGCGTAAGAAATAATCATACAAGTGCTTATTTGTCAGCTGTTTTTTATAATAAGATGAAAACAGTTTATGGACATGGCATAAACTGATTCTATAAGTTCCCCAAACAGTTTGCTTATGCAAATTGATTAGTTTAAATAAATCCTATCTGGGCATATGCCATTATTTTTTTACTACTCAAATTCTGTATTCAATAATACAATGGATGTATGTGGAGTTTTTTTACTACTCAAATTTTGAATTCAATTCAATAATATAATGGATGTATGTGGAGAAATTGGGCATTGGCTGGTTAATAAAATTTTACTAACATCCTTTCTGTTATGCAGTAATCACCGGGGTTTGAGGCACTACTGGGGCCTTCGTGTTCGTGGTCAGCATACCAAGACTACAGGCCGCAGGGGAAAGACTGTTGGTGTCTCAAAGAAGCGTTAA

Protein sequence

>MS.gene97614.t1

MSLVANEEFQHILRVLNTNVDGKQKIQFAMTSIKGIGRRFANICCKKADVDMNKRAGELSAAELDNIMTVVANPRQFKVPDWFLNRKKDYKDGKFSQVVSNQLDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR