AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85074

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85074.t1 MTR_4g036615 77.885 104 23 0 78 181 1 104 9.10e-55 171
MS.gene85074.t1 MTR_3g408380 29.323 266 142 7 3 229 2 260 1.52e-22 93.2
MS.gene85074.t1 MTR_3g408420 25.532 282 144 6 3 232 2 269 2.89e-17 79.3
MS.gene85074.t1 MTR_3g008310 26.692 266 155 6 3 229 2 266 2.09e-16 76.6
MS.gene85074.t1 MTR_4g100860 36.585 123 69 3 113 229 149 268 4.94e-14 70.5
MS.gene85074.t1 MTR_0160s0030 41.975 81 37 1 170 240 239 319 1.23e-13 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85074.t1 AT3G60580 30.120 249 144 6 9 232 6 249 1.01e-18 83.6
MS.gene85074.t1 AT1G02030 45.570 79 30 2 171 236 160 238 2.29e-13 68.2
MS.gene85074.t1 AT5G61470 43.836 73 29 2 168 229 225 296 8.61e-13 67.0

Find 74 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAACACTTTGTTGCAATT+TGG 0.166386 4.2:-67126003 None:intergenic
TTCTGTGTTTGTTGTATTTC+GGG 0.187551 4.2:-67125574 None:intergenic
ATTCTGTGTTTGTTGTATTT+CGG 0.237824 4.2:-67125575 None:intergenic
GCCGCAATTGGATCTCTTGC+GGG 0.303465 4.2:-67125683 None:intergenic
AATTGGATCTCTTGCGGGTT+GGG 0.313326 4.2:-67125678 None:intergenic
TGAACACTTTGTTGCAATTT+GGG 0.315013 4.2:-67126002 None:intergenic
ATCCAGGTGTTCTGATGTTA+TGG 0.324938 4.2:+67125749 MS.gene85074:CDS
TGAGTATTAGTTTCAAGCTT+TGG 0.337317 4.2:-67125484 None:intergenic
CAGCCGCAGCATTAACTTCT+CGG 0.371873 4.2:-67125705 None:intergenic
GTACACTCTTCCGGTGCTAA+TGG 0.373766 4.2:+67126057 MS.gene85074:CDS
CAATTGGATCTCTTGCGGGT+TGG 0.402481 4.2:-67125679 None:intergenic
ATTAACTTCTCGGCCGCAAT+TGG 0.433182 4.2:-67125695 None:intergenic
CACAAGAGGGTACACTCTTC+CGG 0.434864 4.2:+67126048 MS.gene85074:CDS
TACTCAAGCTGTAGACAATT+CGG 0.436960 4.2:+67125501 MS.gene85074:CDS
ATTTGTGGGAAGTGGTTCTC+CGG 0.453707 4.2:+67125406 MS.gene85074:CDS
GTTTCAAGCTTTGGAGCAAT+CGG 0.454553 4.2:-67125475 None:intergenic
TTCCGATCTTATCAGGCTCT+TGG 0.457389 4.2:+67125913 MS.gene85074:CDS
TTTACAAAGATGCGCAGAAA+AGG 0.459521 4.2:+67125776 MS.gene85074:CDS
TTCTCCGGTGGGAAAGCCCT+TGG 0.463478 4.2:+67125421 MS.gene85074:CDS
TTGCAATTTGGGCAGTGAAA+AGG 0.463868 4.2:-67125991 None:intergenic
GGAAAGCCTGTGGGATTTGT+GGG 0.467351 4.2:+67125392 MS.gene85074:CDS
GGGAAAGCCTGTGGGATTTG+TGG 0.468727 4.2:+67125391 MS.gene85074:CDS
CGATCTTATCAGGCTCTTGG+TGG 0.468794 4.2:+67125916 MS.gene85074:CDS
GCCTCCAAGGGCTTTCCCAC+CGG 0.472807 4.2:-67125425 None:intergenic
CCCCATAACATCAGAACACC+TGG 0.474579 4.2:-67125751 None:intergenic
AGATCTCATGTGGCCTCCAA+GGG 0.485485 4.2:-67125437 None:intergenic
TACTGCAAAAGAGGCAATGA+TGG 0.488382 4.2:+67125949 MS.gene85074:CDS
GGCCGCAATTGGATCTCTTG+CGG 0.489489 4.2:-67125684 None:intergenic
TCCAGGTGTTCTGATGTTAT+GGG 0.494593 4.2:+67125750 MS.gene85074:CDS
TCCGGTGGGAAAGCCCTTGG+AGG 0.494800 4.2:+67125424 MS.gene85074:CDS
TTCTCTGTTTGAGCTTGCAG+AGG 0.496954 4.2:-67125629 None:intergenic
TCTGTTTGAGCTTGCAGAGG+AGG 0.498454 4.2:-67125626 None:intergenic
TTACAAAGATGCGCAGAAAA+GGG 0.499625 4.2:+67125777 MS.gene85074:CDS
TTCAAGTCTGCTCAGGCACT+CGG 0.500253 4.2:+67126021 MS.gene85074:CDS
AGCAAATTGATTTCGACGAT+GGG 0.505838 4.2:-67125533 None:intergenic
AACGATGGCGAAAGCAGTAC+AGG 0.507873 4.2:+67125829 MS.gene85074:CDS
ATTTCGACGATGGGTTGAAT+CGG 0.510947 4.2:-67125524 None:intergenic
GAGATCTCATGTGGCCTCCA+AGG 0.514030 4.2:-67125438 None:intergenic
GAAGATATGTCAAGAGATCC+AGG 0.516117 4.2:+67125733 MS.gene85074:CDS
TGTGGGAAGTGGTTCTCCGG+TGG 0.517822 4.2:+67125409 MS.gene85074:CDS
CAAAGTGTTCAAGTCTGCTC+AGG 0.524975 4.2:+67126014 MS.gene85074:CDS
GCACCTCTCACAGCTGAACC+TGG 0.526488 4.2:-67125881 None:intergenic
CACAGAGTATACTGCAAAAG+AGG 0.526500 4.2:+67125940 MS.gene85074:CDS
CACAAGCAGACTCTGAAGCC+AGG 0.539423 4.2:+67125863 MS.gene85074:CDS
GGGGACTTGAAAATTCAATA+CGG 0.545028 4.2:-67126099 None:intergenic
GTGTTTGTTGTATTTCGGGA+AGG 0.552910 4.2:-67125570 None:intergenic
AAGCAAATTGATTTCGACGA+TGG 0.556699 4.2:-67125534 None:intergenic
CCTGTGGGATTTGTGGGAAG+TGG 0.558125 4.2:+67125398 MS.gene85074:CDS
GGGACTTGAAAATTCAATAC+GGG 0.558578 4.2:-67126098 None:intergenic
TTTCGGGAAGGCAAGTCTGT+GGG 0.559255 4.2:-67125558 None:intergenic
GTGGGAAGTGGTTCTCCGGT+GGG 0.561353 4.2:+67125410 MS.gene85074:CDS
TTGAAAATTCAATACGGGTG+TGG 0.569607 4.2:-67126093 None:intergenic
GATCTTATCAGGCTCTTGGT+GGG 0.571526 4.2:+67125917 MS.gene85074:CDS
GCAACTATGGAGAAGAGCGA+TGG 0.579019 4.2:+67125370 None:intergenic
AAAGATGCGCAGAAAAGGGA+AGG 0.579501 4.2:+67125781 MS.gene85074:CDS
CACCAAGAGCCTGATAAGAT+CGG 0.582662 4.2:-67125915 None:intergenic
CCAGGTGTTCTGATGTTATG+GGG 0.595199 4.2:+67125751 MS.gene85074:CDS
AAGAGCGATGGGAAAGCCTG+TGG 0.598960 4.2:+67125382 MS.gene85074:CDS
ACTTTGAAATCCATTAGCAC+CGG 0.604222 4.2:-67126067 None:intergenic
AGGCACTCGGTGGACACAAG+AGG 0.606213 4.2:+67126034 MS.gene85074:CDS
CAACTATGGAGAAGAGCGAT+GGG 0.616240 4.2:+67125371 None:intergenic
ATTTCGGGAAGGCAAGTCTG+TGG 0.622555 4.2:-67125559 None:intergenic
AAGCCAGGTTCAGCTGTGAG+AGG 0.629864 4.2:+67125878 MS.gene85074:CDS
GGCACTCGGTGGACACAAGA+GGG 0.632635 4.2:+67126035 MS.gene85074:CDS
CCACTTCCCACAAATCCCAC+AGG 0.647858 4.2:-67125398 None:intergenic
CGGCCGAGAAGTTAATGCTG+CGG 0.653910 4.2:+67125702 MS.gene85074:CDS
AGAGCGATGGGAAAGCCTGT+GGG 0.654994 4.2:+67125383 MS.gene85074:CDS
AGGTTCAGCTGTGAGAGGTG+CGG 0.663022 4.2:+67125883 MS.gene85074:CDS
TTCGGGAAGGCAAGTCTGTG+GGG 0.666116 4.2:-67125557 None:intergenic
AAGATGCGCAGAAAAGGGAA+GGG 0.667779 4.2:+67125782 MS.gene85074:CDS
AAGTCTGCTCAGGCACTCGG+TGG 0.670340 4.2:+67126024 MS.gene85074:CDS
AGGCCACATGAGATCTCACA+TGG 0.682156 4.2:+67125444 MS.gene85074:CDS
ACCCGCAAGAGATCCAATTG+CGG 0.686880 4.2:+67125682 MS.gene85074:CDS
GAACCATGTGAGATCTCATG+TGG 0.730676 4.2:-67125447 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GATCAAGAAACAAAAAATGA+GGG + chr4.2:67125804-67125823 MS.gene85074:CDS 25.0%
!!! ATTCTGTGTTTGTTGTATTT+CGG - chr4.2:67125578-67125597 None:intergenic 25.0%
AAAAATGTTCCGATCTTATC+AGG + chr4.2:67125906-67125925 MS.gene85074:CDS 30.0%
GGATCAAGAAACAAAAAATG+AGG + chr4.2:67125803-67125822 MS.gene85074:CDS 30.0%
TGAACACTTTGTTGCAATTT+GGG - chr4.2:67126005-67126024 None:intergenic 30.0%
TTGAACACTTTGTTGCAATT+TGG - chr4.2:67126006-67126025 None:intergenic 30.0%
! TGAGTATTAGTTTCAAGCTT+TGG - chr4.2:67125487-67125506 None:intergenic 30.0%
!! TTCTGTGTTTGTTGTATTTC+GGG - chr4.2:67125577-67125596 None:intergenic 30.0%
!!! TGAAGTTTTGTTTCAAGGAT+AGG - chr4.2:67125603-67125622 None:intergenic 30.0%
CAAAAAATGAGGGAAAACGA+TGG + chr4.2:67125814-67125833 MS.gene85074:CDS 35.0%
TACTCAAGCTGTAGACAATT+CGG + chr4.2:67125501-67125520 MS.gene85074:CDS 35.0%
TTACAAAGATGCGCAGAAAA+GGG + chr4.2:67125777-67125796 MS.gene85074:CDS 35.0%
TTTACAAAGATGCGCAGAAA+AGG + chr4.2:67125776-67125795 MS.gene85074:CDS 35.0%
! AAGCAAATTGATTTCGACGA+TGG - chr4.2:67125537-67125556 None:intergenic 35.0%
! AGCAAATTGATTTCGACGAT+GGG - chr4.2:67125536-67125555 None:intergenic 35.0%
!! ACTTTGAAATCCATTAGCAC+CGG - chr4.2:67126070-67126089 None:intergenic 35.0%
ATCCAGGTGTTCTGATGTTA+TGG + chr4.2:67125749-67125768 MS.gene85074:CDS 40.0%
CACAGAGTATACTGCAAAAG+AGG + chr4.2:67125940-67125959 MS.gene85074:CDS 40.0%
GAAGATATGTCAAGAGATCC+AGG + chr4.2:67125733-67125752 MS.gene85074:CDS 40.0%
TACTGCAAAAGAGGCAATGA+TGG + chr4.2:67125949-67125968 MS.gene85074:CDS 40.0%
TCCAGGTGTTCTGATGTTAT+GGG + chr4.2:67125750-67125769 MS.gene85074:CDS 40.0%
TTGCAATTTGGGCAGTGAAA+AGG - chr4.2:67125994-67126013 None:intergenic 40.0%
!! ATTTCGACGATGGGTTGAAT+CGG - chr4.2:67125527-67125546 None:intergenic 40.0%
!! GTGTTTGTTGTATTTCGGGA+AGG - chr4.2:67125573-67125592 None:intergenic 40.0%
!! GTTTCAAGCTTTGGAGCAAT+CGG - chr4.2:67125478-67125497 None:intergenic 40.0%
!!! GGCAGTGAAGTTTTGTTTCA+AGG - chr4.2:67125608-67125627 None:intergenic 40.0%
AAAGATGCGCAGAAAAGGGA+AGG + chr4.2:67125781-67125800 MS.gene85074:CDS 45.0%
AAGATGCGCAGAAAAGGGAA+GGG + chr4.2:67125782-67125801 MS.gene85074:CDS 45.0%
AATTGGATCTCTTGCGGGTT+GGG - chr4.2:67125681-67125700 None:intergenic 45.0%
ATTAACTTCTCGGCCGCAAT+TGG - chr4.2:67125698-67125717 None:intergenic 45.0%
ATTTGTGGGAAGTGGTTCTC+CGG + chr4.2:67125406-67125425 MS.gene85074:CDS 45.0%
CACCAAGAGCCTGATAAGAT+CGG - chr4.2:67125918-67125937 None:intergenic 45.0%
CCAGGTGTTCTGATGTTATG+GGG + chr4.2:67125751-67125770 MS.gene85074:CDS 45.0%
GAACCATGTGAGATCTCATG+TGG - chr4.2:67125450-67125469 None:intergenic 45.0%
GATCTTATCAGGCTCTTGGT+GGG + chr4.2:67125917-67125936 MS.gene85074:CDS 45.0%
TTCCGATCTTATCAGGCTCT+TGG + chr4.2:67125913-67125932 MS.gene85074:CDS 45.0%
TTCTCTGTTTGAGCTTGCAG+AGG - chr4.2:67125632-67125651 None:intergenic 45.0%
! CAAAGTGTTCAAGTCTGCTC+AGG + chr4.2:67126014-67126033 MS.gene85074:CDS 45.0%
AACGATGGCGAAAGCAGTAC+AGG + chr4.2:67125829-67125848 MS.gene85074:CDS 50.0%
ACCCGCAAGAGATCCAATTG+CGG + chr4.2:67125682-67125701 MS.gene85074:CDS 50.0%
AGATCTCATGTGGCCTCCAA+GGG - chr4.2:67125440-67125459 None:intergenic 50.0%
AGGCCACATGAGATCTCACA+TGG + chr4.2:67125444-67125463 MS.gene85074:CDS 50.0%
ATTTCGGGAAGGCAAGTCTG+TGG - chr4.2:67125562-67125581 None:intergenic 50.0%
CAATTGGATCTCTTGCGGGT+TGG - chr4.2:67125682-67125701 None:intergenic 50.0%
CAGCCGCAGCATTAACTTCT+CGG - chr4.2:67125708-67125727 None:intergenic 50.0%
CCCCATAACATCAGAACACC+TGG - chr4.2:67125754-67125773 None:intergenic 50.0%
CGATCTTATCAGGCTCTTGG+TGG + chr4.2:67125916-67125935 MS.gene85074:CDS 50.0%
GGAAAGCCTGTGGGATTTGT+GGG + chr4.2:67125392-67125411 MS.gene85074:CDS 50.0%
TCTGTTTGAGCTTGCAGAGG+AGG - chr4.2:67125629-67125648 None:intergenic 50.0%
TTCAAGTCTGCTCAGGCACT+CGG + chr4.2:67126021-67126040 MS.gene85074:CDS 50.0%
TTTCGGGAAGGCAAGTCTGT+GGG - chr4.2:67125561-67125580 None:intergenic 50.0%
! CACAAGAGGGTACACTCTTC+CGG + chr4.2:67126048-67126067 MS.gene85074:CDS 50.0%
! GTACACTCTTCCGGTGCTAA+TGG + chr4.2:67126057-67126076 MS.gene85074:CDS 50.0%
!!! CTCTTGCGGGTTGGGTTTTT+CGG - chr4.2:67125673-67125692 None:intergenic 50.0%
!!! TCTTGCGGGTTGGGTTTTTC+GGG - chr4.2:67125672-67125691 None:intergenic 50.0%
AAGAGCGATGGGAAAGCCTG+TGG + chr4.2:67125382-67125401 MS.gene85074:CDS 55.0%
AAGCCAGGTTCAGCTGTGAG+AGG + chr4.2:67125878-67125897 MS.gene85074:CDS 55.0%
AGAGCGATGGGAAAGCCTGT+GGG + chr4.2:67125383-67125402 MS.gene85074:CDS 55.0%
AGGTTCAGCTGTGAGAGGTG+CGG + chr4.2:67125883-67125902 MS.gene85074:CDS 55.0%
CCACTTCCCACAAATCCCAC+AGG - chr4.2:67125401-67125420 None:intergenic 55.0%
CCTGTGGGATTTGTGGGAAG+TGG + chr4.2:67125398-67125417 MS.gene85074:CDS 55.0%
CGGCCGAGAAGTTAATGCTG+CGG + chr4.2:67125702-67125721 MS.gene85074:CDS 55.0%
GAGATCTCATGTGGCCTCCA+AGG - chr4.2:67125441-67125460 None:intergenic 55.0%
GCCGCAATTGGATCTCTTGC+GGG - chr4.2:67125686-67125705 None:intergenic 55.0%
GGCCGCAATTGGATCTCTTG+CGG - chr4.2:67125687-67125706 None:intergenic 55.0%
GGGAAAGCCTGTGGGATTTG+TGG + chr4.2:67125391-67125410 MS.gene85074:CDS 55.0%
TTCGGGAAGGCAAGTCTGTG+GGG - chr4.2:67125560-67125579 None:intergenic 55.0%
!! CACAAGCAGACTCTGAAGCC+AGG + chr4.2:67125863-67125882 MS.gene85074:CDS 55.0%
AAGTCTGCTCAGGCACTCGG+TGG + chr4.2:67126024-67126043 MS.gene85074:CDS 60.0%
GCACCTCTCACAGCTGAACC+TGG - chr4.2:67125884-67125903 None:intergenic 60.0%
GTGGGAAGTGGTTCTCCGGT+GGG + chr4.2:67125410-67125429 MS.gene85074:CDS 60.0%
TGTGGGAAGTGGTTCTCCGG+TGG + chr4.2:67125409-67125428 MS.gene85074:CDS 60.0%
TTCTCCGGTGGGAAAGCCCT+TGG + chr4.2:67125421-67125440 MS.gene85074:CDS 60.0%
! AGGCACTCGGTGGACACAAG+AGG + chr4.2:67126034-67126053 MS.gene85074:CDS 60.0%
! GGCACTCGGTGGACACAAGA+GGG + chr4.2:67126035-67126054 MS.gene85074:CDS 60.0%
!!! GCGGGTTGGGTTTTTCGGGT+TGG - chr4.2:67125668-67125687 None:intergenic 60.0%
GCCTCCAAGGGCTTTCCCAC+CGG - chr4.2:67125428-67125447 None:intergenic 65.0%
TCCGGTGGGAAAGCCCTTGG+AGG + chr4.2:67125424-67125443 MS.gene85074:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 67125376 67126107 67125376 ID=MS.gene85074
chr4.2 mRNA 67125376 67126107 67125376 ID=MS.gene85074.t1;Parent=MS.gene85074
chr4.2 exon 67125376 67126107 67125376 ID=MS.gene85074.t1.exon1;Parent=MS.gene85074.t1
chr4.2 CDS 67125376 67126107 67125376 ID=cds.MS.gene85074.t1;Parent=MS.gene85074.t1
Gene Sequence

>MS.gene85074

ATGGAGAAGAGCGATGGGAAAGCCTGTGGGATTTGTGGGAAGTGGTTCTCCGGTGGGAAAGCCCTTGGAGGCCACATGAGATCTCACATGGTTCATTTGCCGATTGCTCCAAAGCTTGAAACTAATACTCAAGCTGTAGACAATTCGGCCGATTCAACCCATCGTCGAAATCAATTTGCTTCCCCACAGACTTGCCTTCCCGAAATACAACAAACACAGAATTTCCTATCCTTGAAACAAAACTTCACTGCCTCCTCTGCAAGCTCAAACAGAGAAAATGAATCTGTGTCCAACCCGAAAAACCCAACCCGCAAGAGATCCAATTGCGGCCGAGAAGTTAATGCTGCGGCTGATACAGAAGATATGTCAAGAGATCCAGGTGTTCTGATGTTATGGGGATTTTACAAAGATGCGCAGAAAAGGGAAGGGATCAAGAAACAAAAAATGAGGGAAAACGATGGCGAAAGCAGTACAGGTGACTCGCTTGCACAAGCAGACTCTGAAGCCAGGTTCAGCTGTGAGAGGTGCGGAAAAATGTTCCGATCTTATCAGGCTCTTGGTGGGCACAGAGTATACTGCAAAAGAGGCAATGATGGTGATTCAATAGATCAGAAACCTTTTCACTGCCCAAATTGCAACAAAGTGTTCAAGTCTGCTCAGGCACTCGGTGGACACAAGAGGGTACACTCTTCCGGTGCTAATGGATTTCAAAGTGTGCCACACCCGTATTGA
Protein sequence

>MS.gene85074.t1

MEKSDGKACGICGKWFSGGKALGGHMRSHMVHLPIAPKLETNTQAVDNSADSTHRRNQFASPQTCLPEIQQTQNFLSLKQNFTASSASSNRENESVSNPKNPTRKRSNCGREVNAAADTEDMSRDPGVLMLWGFYKDAQKREGIKKQKMRENDGESSTGDSLAQADSEARFSCERCGKMFRSYQALGGHRVYCKRGNDGDSIDQKPFHCPNCNKVFKSAQALGGHKRVHSSGANGFQSVPHPY