AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055499


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055499.t1 MTR_3g099180 98.901 182 0 2 1 181 36 216 4.33e-131 366
MS.gene055499.t1 MTR_3g099180 98.901 182 0 2 1 181 36 216 4.74e-131 366
MS.gene055499.t1 MTR_7g113680 66.456 158 41 4 2 149 134 289 1.49e-65 204
MS.gene055499.t1 MTR_1g082660 69.718 142 32 3 2 132 83 224 1.03e-62 194
MS.gene055499.t1 MTR_2g023340 48.889 180 72 4 2 163 67 244 8.24e-50 161
MS.gene055499.t1 MTR_2g081600 62.069 87 32 1 19 104 21 107 6.39e-32 112
MS.gene055499.t1 MTR_2g081630 63.855 83 29 1 19 100 21 103 2.55e-31 110
MS.gene055499.t1 MTR_3g012030 35.514 107 69 0 20 126 8 114 6.35e-12 63.2
MS.gene055499.t1 MTR_8g041420 37.975 79 49 0 20 98 8 86 1.41e-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.gene055499.t1 AT3G48590 86.391 169 16 3 2 164 47 214 1.36e-101 293
MS.gene055499.t1 AT5G63470 84.393 173 17 3 1 164 59 230 7.91e-101 291
MS.gene055499.t1 AT5G63470 84.393 173 17 3 1 164 59 230 7.91e-101 291
MS.gene055499.t1 AT1G56170 70.896 134 34 2 1 132 57 187 8.26e-66 201
MS.gene055499.t1 AT1G56170 70.896 134 34 2 1 132 57 187 8.26e-66 201
MS.gene055499.t1 AT1G54830 65.000 160 44 6 2 154 52 206 2.58e-64 197
MS.gene055499.t1 AT1G54830 65.000 160 44 6 2 154 52 206 2.58e-64 197
MS.gene055499.t1 AT1G54830 65.000 160 44 6 2 154 52 206 2.58e-64 197
MS.gene055499.t1 AT1G08970 68.750 144 35 4 2 136 62 204 6.22e-63 194
MS.gene055499.t1 AT1G08970 68.750 144 35 4 2 136 62 204 6.22e-63 194
MS.gene055499.t1 AT1G08970 68.750 144 35 4 2 136 62 204 6.22e-63 194
MS.gene055499.t1 AT1G08970 68.750 144 35 4 2 136 62 204 6.22e-63 194
MS.gene055499.t1 AT5G50480 54.545 165 61 6 4 164 38 192 1.50e-51 164
MS.gene055499.t1 AT5G27910 47.778 180 77 6 2 177 21 187 3.78e-44 145
MS.gene055499.t1 AT5G50490 47.143 140 66 3 2 138 21 155 6.00e-35 122
MS.gene055499.t1 AT5G50470 40.449 178 83 6 4 172 47 210 2.13e-34 121
MS.gene055499.t1 AT5G38140 43.878 98 51 2 1 97 50 144 6.42e-25 96.3
MS.gene055499.t1 AT3G12480 37.975 79 49 0 20 98 8 86 1.41e-11 62.0

Find 45 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAGGCTTGGCAGTCTGTT+TGG 0.288988 3.2:+82526096 MS.gene055499:CDS
TTGAACTCACCATTCGTTCT+TGG 0.290380 3.2:+82525814 MS.gene055499:CDS
TCCTTATTATTATCCTCCTA+TGG 0.322109 3.2:+82526001 MS.gene055499:CDS
CCCATAGGAGGATAATAATA+AGG 0.322822 3.2:-82526002 None:intergenic
CAAGCTTTGGCAAAGAGAAT+TGG 0.395526 3.2:-82525777 None:intergenic
GGTGCTGCTGCTGCTATTGT+TGG 0.404432 3.2:+82525960 MS.gene055499:CDS
TTATGTTCAGCCGCCTTCTC+AGG 0.407879 3.2:+82526079 MS.gene055499:CDS
AATGAAAAGCTCACAAGCTT+TGG 0.414215 3.2:-82525790 None:intergenic
TGGTCGTCCCGCTGTTGATC+CGG 0.430949 3.2:+82526046 MS.gene055499:CDS
CCTCCTATGGGACAACCTGC+TGG 0.443243 3.2:+82526014 MS.gene055499:CDS
TTCAGCCGCCTTCTCAGGCT+TGG 0.445274 3.2:+82526084 MS.gene055499:CDS
ATATTGCTGCTGCTATTACT+AGG 0.451638 3.2:+82525880 MS.gene055499:CDS
TGGCAGACGGGAGCGGATGA+TGG 0.454235 3.2:+82526116 MS.gene055499:CDS
AACAACAGCTTCAAATGTTC+TGG 0.455902 3.2:+82525634 None:intergenic
TGGCAGTCTGTTTGGCAGAC+GGG 0.457754 3.2:+82526104 MS.gene055499:CDS
TCTTATGCTGGTGGTGGTGT+TGG 0.460055 3.2:+82526140 MS.gene055499:CDS
TTGGCAGTCTGTTTGGCAGA+CGG 0.463047 3.2:+82526103 MS.gene055499:CDS
GTCTGTTTGGCAGACGGGAG+CGG 0.463208 3.2:+82526109 MS.gene055499:CDS
CCCGCTGTTGATCCGGCTAC+CGG 0.469158 3.2:+82526053 MS.gene055499:CDS
CCTTATTATTATCCTCCTAT+GGG 0.475192 3.2:+82526002 MS.gene055499:CDS
GCGGATGATGGTTCTTATGC+TGG 0.494268 3.2:+82526128 MS.gene055499:CDS
ATCGAACAAAATGATACCTC+TGG 0.517463 3.2:-82526187 None:intergenic
ATTCCAGCAGGTTGTCCCAT+AGG 0.521379 3.2:-82526017 None:intergenic
GCTGGTGGTGGTGTTGGCAG+TGG 0.530864 3.2:+82526146 MS.gene055499:CDS
CAACCTGCTGGAATGATGAT+TGG 0.531059 3.2:+82526026 MS.gene055499:CDS
TTCAATTTCTTGACGTTGGT+AGG 0.532955 3.2:-82525658 None:intergenic
TCATCTTTAATCTCGTCTCT+CGG 0.549440 3.2:-82525936 None:intergenic
TGAACATAAACACCGGTAGC+CGG 0.556443 3.2:-82526065 None:intergenic
ATTGTTGGTGCTGCTGCTAG+TGG 0.559151 3.2:+82525975 MS.gene055499:CDS
CGACCAATCATCATTCCAGC+AGG 0.560161 3.2:-82526029 None:intergenic
TGCGTGCTAATGGAAGTTGA+TGG 0.566195 3.2:-82525701 None:intergenic
CCGGTAGCCGGATCAACAGC+GGG 0.566961 3.2:-82526053 None:intergenic
AGTGGTCAGCACAATGGCGA+TGG 0.568390 3.2:+82526164 MS.gene055499:CDS
CGTGTTCAATTTCTTGACGT+TGG 0.574575 3.2:-82525662 None:intergenic
GATGGTTCTTATGCTGGTGG+TGG 0.575597 3.2:+82526134 MS.gene055499:CDS
GACTGCCAAGCCTGAGAAGG+CGG 0.581694 3.2:-82526089 None:intergenic
AGCATGAAGCCAAGAACGAA+TGG 0.590029 3.2:-82525823 None:intergenic
AGAGACGAGATTAAAGATGA+AGG 0.596434 3.2:+82525939 MS.gene055499:CDS
CCAGCAGGTTGTCCCATAGG+AGG 0.597127 3.2:-82526014 None:intergenic
ACAGACTGCCAAGCCTGAGA+AGG 0.599594 3.2:-82526092 None:intergenic
AGCACAATGGCGATGGCCAG+AGG 0.601116 3.2:+82526171 MS.gene055499:CDS
ACCGGTAGCCGGATCAACAG+CGG 0.640253 3.2:-82526054 None:intergenic
GTTGGCAGTGGTCAGCACAA+TGG 0.663712 3.2:+82526158 MS.gene055499:CDS
GATGATGGTTCTTATGCTGG+TGG 0.665141 3.2:+82526131 MS.gene055499:CDS
AGGCGGCTGAACATAAACAC+CGG 0.726448 3.2:-82526072 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GACTGATATTTTTGATTTTT+TGG + chr3.2:82525902-82525921 MS.gene055499:CDS 20.0%
CCTTATTATTATCCTCCTAT+GGG + chr3.2:82526002-82526021 MS.gene055499:CDS 30.0%
TCCTTATTATTATCCTCCTA+TGG + chr3.2:82526001-82526020 MS.gene055499:CDS 30.0%
! ATTTTCTTAATGCGTGCTAA+TGG - chr3.2:82525714-82525733 None:intergenic 30.0%
AATGAAAAGCTCACAAGCTT+TGG - chr3.2:82525793-82525812 None:intergenic 35.0%
AGAGACGAGATTAAAGATGA+AGG + chr3.2:82525939-82525958 MS.gene055499:CDS 35.0%
ATATTGCTGCTGCTATTACT+AGG + chr3.2:82525880-82525899 MS.gene055499:CDS 35.0%
ATCGAACAAAATGATACCTC+TGG - chr3.2:82526190-82526209 None:intergenic 35.0%
CCCATAGGAGGATAATAATA+AGG - chr3.2:82526005-82526024 None:intergenic 35.0%
TCATCTTTAATCTCGTCTCT+CGG - chr3.2:82525939-82525958 None:intergenic 35.0%
TTCAATTTCTTGACGTTGGT+AGG - chr3.2:82525661-82525680 None:intergenic 35.0%
CGTGTTCAATTTCTTGACGT+TGG - chr3.2:82525665-82525684 None:intergenic 40.0%
TTGAACTCACCATTCGTTCT+TGG + chr3.2:82525814-82525833 MS.gene055499:CDS 40.0%
! CAAGCTTTGGCAAAGAGAAT+TGG - chr3.2:82525780-82525799 None:intergenic 40.0%
AGCATGAAGCCAAGAACGAA+TGG - chr3.2:82525826-82525845 None:intergenic 45.0%
CAACCTGCTGGAATGATGAT+TGG + chr3.2:82526026-82526045 MS.gene055499:CDS 45.0%
TGAACATAAACACCGGTAGC+CGG - chr3.2:82526068-82526087 None:intergenic 45.0%
TGCGTGCTAATGGAAGTTGA+TGG - chr3.2:82525704-82525723 None:intergenic 45.0%
! GATGATGGTTCTTATGCTGG+TGG + chr3.2:82526131-82526150 MS.gene055499:CDS 45.0%
AGGCGGCTGAACATAAACAC+CGG - chr3.2:82526075-82526094 None:intergenic 50.0%
ATTCCAGCAGGTTGTCCCAT+AGG - chr3.2:82526020-82526039 None:intergenic 50.0%
CGACCAATCATCATTCCAGC+AGG - chr3.2:82526032-82526051 None:intergenic 50.0%
GATGGTTCTTATGCTGGTGG+TGG + chr3.2:82526134-82526153 MS.gene055499:CDS 50.0%
TTATGTTCAGCCGCCTTCTC+AGG + chr3.2:82526079-82526098 MS.gene055499:CDS 50.0%
TTGGCAGTCTGTTTGGCAGA+CGG + chr3.2:82526103-82526122 MS.gene055499:CDS 50.0%
! GCGGATGATGGTTCTTATGC+TGG + chr3.2:82526128-82526147 MS.gene055499:CDS 50.0%
!! ATTGTTGGTGCTGCTGCTAG+TGG + chr3.2:82525975-82525994 MS.gene055499:CDS 50.0%
!! TCTTATGCTGGTGGTGGTGT+TGG + chr3.2:82526140-82526159 MS.gene055499:CDS 50.0%
ACAGACTGCCAAGCCTGAGA+AGG - chr3.2:82526095-82526114 None:intergenic 55.0%
AGTGGTCAGCACAATGGCGA+TGG + chr3.2:82526164-82526183 MS.gene055499:CDS 55.0%
CTCAGGCTTGGCAGTCTGTT+TGG + chr3.2:82526096-82526115 MS.gene055499:CDS 55.0%
GTTGGCAGTGGTCAGCACAA+TGG + chr3.2:82526158-82526177 MS.gene055499:CDS 55.0%
TGGCAGTCTGTTTGGCAGAC+GGG + chr3.2:82526104-82526123 MS.gene055499:CDS 55.0%
!! GGTGCTGCTGCTGCTATTGT+TGG + chr3.2:82525960-82525979 MS.gene055499:CDS 55.0%
ACCGGTAGCCGGATCAACAG+CGG - chr3.2:82526057-82526076 None:intergenic 60.0%
AGCACAATGGCGATGGCCAG+AGG + chr3.2:82526171-82526190 MS.gene055499:CDS 60.0%
CCAGCAGGTTGTCCCATAGG+AGG - chr3.2:82526017-82526036 None:intergenic 60.0%
CCTCCTATGGGACAACCTGC+TGG + chr3.2:82526014-82526033 MS.gene055499:CDS 60.0%
GACTGCCAAGCCTGAGAAGG+CGG - chr3.2:82526092-82526111 None:intergenic 60.0%
GTCTGTTTGGCAGACGGGAG+CGG + chr3.2:82526109-82526128 MS.gene055499:CDS 60.0%
TGGTCGTCCCGCTGTTGATC+CGG + chr3.2:82526046-82526065 MS.gene055499:CDS 60.0%
TTCAGCCGCCTTCTCAGGCT+TGG + chr3.2:82526084-82526103 MS.gene055499:CDS 60.0%
CCCGCTGTTGATCCGGCTAC+CGG + chr3.2:82526053-82526072 MS.gene055499:CDS 65.0%
CCGGTAGCCGGATCAACAGC+GGG - chr3.2:82526056-82526075 None:intergenic 65.0%
TGGCAGACGGGAGCGGATGA+TGG + chr3.2:82526116-82526135 MS.gene055499:CDS 65.0%
!! GCTGGTGGTGGTGTTGGCAG+TGG + chr3.2:82526146-82526165 MS.gene055499:CDS 65.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 82525648 82526217 82525648 ID=MS.gene055499
chr3.2 mRNA 82525648 82526217 82525648 ID=MS.gene055499.t1;Parent=MS.gene055499
chr3.2 exon 82525648 82526217 82525648 ID=MS.gene055499.t1.exon1;Parent=MS.gene055499.t1
chr3.2 CDS 82525648 82526217 82525648 ID=cds.MS.gene055499.t1;Parent=MS.gene055499.t1
Gene Sequence

>MS.gene055499

ATGTTCTGGTCCTACCAACGTCAAGAAATTGAACACGTCAACGATTTCAAAAACCATCAACTTCCATTAGCACGCATTAAGAAAATCATGAAAGCTGATGAAGACGTTCGAATGATTTCTGCAGAAGCACCAATTCTCTTTGCCAAAGCTTGTGAGCTTTTCATTCTTGAACTCACCATTCGTTCTTGGCTTCATGCTGAAGAGAATAAACGACGAACTCTTCAGAAAAATGATATTGCTGCTGCTATTACTAGGACTGATATTTTTGATTTTTTGGTTGATATTGTTCCGAGAGACGAGATTAAAGATGAAGGTGCTGCTGCTGCTATTGTTGGTGCTGCTGCTAGTGGTGTTCCTTATTATTATCCTCCTATGGGACAACCTGCTGGAATGATGATTGGTCGTCCCGCTGTTGATCCGGCTACCGGTGTTTATGTTCAGCCGCCTTCTCAGGCTTGGCAGTCTGTTTGGCAGACGGGAGCGGATGATGGTTCTTATGCTGGTGGTGGTGTTGGCAGTGGTCAGCACAATGGCGATGGCCAGAGGTATCATTTTGTTCGATTTTCTTAA

Protein sequence

>MS.gene055499.t1

MFWSYQRQEIEHVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDIVPRDEIKDEGAAAAIVGAAASGVPYYYPPMGQPAGMMIGRPAVDPATGVYVQPPSQAWQSVWQTGADDGSYAGGGVGSGQHNGDGQRYHFVRFS