Sequence
atgc intronic sequence ATGC exonic sequenceCCCAACTGCAAGGGACTACTCAAGATCACCTACAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccattacgcacaaggacacatatattgtaacataataggtccaatattgtaacatatattgttaatcatgtatag
Basic information
species | Glycine max |
transcript | GLYMA02G42560.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 3
CCCAACTGCAAGGGACTACTCAAGATCACCTACAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccattacgcacaaggacacatatattgtaacataataggtccaatat------tgtaacatata--ttgttaatcatgtatag-------------------------------
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CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCCAAAGCAAAGTTGAAATCACATCAGATGCCTGAGCAGgtgagtgttg-atgcaaatatatttgaactccattatcgttcctgctatacacttcgtataactctgaatttttcagtcgggtttttttttggataataatgtttcatgtttttacag
upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 3
CCCAACTGCAAGGGACTACTCAAGATCACCTACAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccatt-acgcacaaggacacatatattgtaacataataggtc-caatattgtaacatatattgttaatcatgtatag-------------------
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CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttgaagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtctgaattttttggatattatag
upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 3
CCCAACTGCAAGGGACTACTCAAGATCACCTACAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccattacgcacaaggacacatatattgtaacataataggtccaatattgtaacatatattgttaatcatg-tatag-----------------------------------
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CTCAACTTCCGGGAACCACCCAGGATCACTTGCAAATATTTAATATTGAGATGAAAGCCAAAATGAAATCATATCAAATGCCTGAGCAGgtgagaactttgttctttagcatttctgttacatttc--ttgagctattttgacatcctacattgttaacattgctattacagttagcttaactatgccttgttgtttaaaatagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|209718770|gb|BW671971.1|BW671971EST: TTAACATTGAGATGAAAGCAAAGATGATATCATATCAGATGCCTGAGCAG GTAGTTTTTTGGAAGTGGATTAGCTCCAAAATGTTGGGTCTCGTAACACAG
genomic: TTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccatta ... tcatgtatagGTAGTTTTTTGGAAGTGGATTAGCCCCAAAATGTTGGGTCTCGTAACTCAG
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCAACTGCAAGGGACTACTCAAGATCACCTACAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccattacgcacaaggacacatatattgtaacataataggtccaatattgtaacatatattgttaatcatgtatag
- - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG