Sequence
atgc intronic sequence ATGC exonic sequence...tatttattgttcttggatctttgcatgacacgtagtgaatcctagtgtgtgatgttgtaacgattgcatattaagtttatttgtataaatttgtatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTGGCTGCGCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATT
Basic information
species | Glycine max |
transcript | GLYMA16G09430.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G09430.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G079452_T02 (Zea mays), 3'ss of exon 1
------tatttattgttcttggatctttgcatgacacgtagtgaatcctagtgtgtgatgttg-taacgattgcatattaagtttatttgtataaatttgtatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTGGCTGCGCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATT
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agaatataaccgttattcatgtggtctgactaaatgcctc-taccttataat-tgtattactgatattgttcttgtatgtgattt-tctattggtgtttgta----gATGGAGGACATGGAGATGGATGGTGCATTTGAGCAGGTTGCTGTGGAGCTGGTGGCACAAGGAGTTATTGGGAAGAGGGTGGATGAGATGGAGTCAGGTT
upper sequence: GLYMA16G09430.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G48470.1 (Arabidopsis thaliana), 3'ss of exon 1
tatttattgttcttggatctttgcatgacacgtagtgaatcctagtgtgtgatgttgtaacgattgcatattaagtttatttgtataaatttg-tatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTGGCTGCGCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATT
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-ttttggggcatattgttcactttttaatacatagaatcgttacttgtttattaagggaattattggttccgtaatggcttgatatgtctctgatgtgtagTTGGAAGATATGAAGATGAATGAAGCATCTGAGAATGTTGCTGTAGAATTGGCTGCACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGT
upper sequence: GLYMA16G09430.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 1
tatttattgttct-tggatctttgcatgacacgtagtgaatcctagtgtgtgatgttgtaacgattgcatattaagtttatttgtataaatttgtatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTGGCTGCGCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATT
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-attcaagaacctgttgcttcttttgttataagttgtttatacatcgacatgcaatttgtgtacaagccagtaatcctttgatatgtaagtttgggtacagTTGGAAGATATGAACATGGATGAAGCATCCGAGGAAGTGGCAGTTGAGTTGGCCGCACAAGGAGTCATTGGGAAGAGAGTTGATCAAATGGAGTCGGGGTMapped 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|192298751|gb|FG991002.1|FG991002EST: TTAAAGGAGGGGACCAAGTCATCTCTGTTTTGGAGGAAATGATTACCCTT TTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTG
genomic: TTAAAGGAGGGGACCAAGTCATCTCTGTTTTGGAGGAAATGATTACCCTTgtaagttact ... ttgtatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtgatgttgtaacgattgcatattaagtttatttgtataaatttgtatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTGGCTGCGCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATT
ttgtaac putative branch site (score: 2)
attgcatattaagttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttattgttcttggatctttgcatgacacgtagtgaatcctagtgtgtgatgttgtaacgattgcatattaagtttatttgtataaatttgtatccagTTGGAAGACATGAATATGGACGAGGAATCTGAGAAAGTGGCAGTGGAGTTGGCTGCGCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - gttcttg
- - - - - - - - - - - gcatgac
- - - - - - - - - - - - - - - - - - - - - - gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatat