Sequence
atgc intronic sequence ATGC exonic sequence...tataatagcaaatgtctccctttgtctaaaatggattattttatgaatagttcacaaagtggattcttttcattgttaaatagcattctgttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
Basic information
species | Glycine max |
transcript | GLYMA19G31030.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 11
tataatagcaaatgtctccctttgtctaaaatggattattttatgaatagttcacaaagtggattcttttcatt-gttaaatagcattctgttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
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-tttttagcatacttattcatctgatcaaatggtatttttaattaactgtattggtaatttttttagtgggatttatcttaacatataatgctttttatagGATAAAGATATTAGCTTGAGTGGGGAGCATGTAAGAGAGGGAATGACCTGCATTATTGCAGTGAAGGTCCCTAATCCAGAGTTTGAAGGGCAAACAAAG
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G04130.2 (Arabidopsis thaliana), 3'ss of exon 11
----tataatagcaaatgtctccctttgtctaaaatgga-ttattttatgaatagttcacaaagtggattcttttcattgttaaatagcattctgttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
| | | | || | | | ||| | || || || | || | ||| |||| | || | || | |||| | |||||||| ||||||| ||||||| || ||||| |||||||| | || ||| | |||||||||||||| || ||||||||||||||||| |||||||||
gtaaaacgttcttgattcataccttcaataaataatatacttccttcatttcttttttgtatttataattattttatatttttgttggc--tgtgtttt---cagGAGAAAGATATTAGCTTAAGTGGGGAACATGTTAGAGAGGGATTGACCTGTATCGTCTCAGTCAAGGTTCCTAATCCTGAGTTTGAAGGTCAAACAAAG
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G10270.1 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------tataatagcaaatgtctccctttgtctaaaatggattattt--tatgaatagttc--acaaagtggattcttttcattgttaaatagcatt-ctgttc---tttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
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gtactaccatgattgaactgtgaaacatgccagttatagaggttgttttttgcttacatttaagcatttatcttgacctgttctgaaaaggttgctaactcatagtgtaacttattgttgttggttatgttttcagGAAAAGGATATTAGCTTAAGTGGGGAACATGTTAGGGAAGGATTGACCTGCATTGTCTCAGTCAAGGTTCCGAACCCTGAGTTTGAAGGTCAAACAAAG
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 11
---tataatagcaaatgtctccctttgtctaaaatggattattttatgaatagttcacaaagtggattcttttcattgttaaatagcattctgttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
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tattttattagacttgatgaactcgtagttaaatttgaataaaaaatgagtgg---aagcagtagtaactttcagcagtaaaagtttgttttgtttcattcagGAGAAGGATATTACTTTAAGTGGCGAACATGTAAGAGAGGGATTAACATGTGTTATCTCAGTAAAAGTTCCAAATCCAGAATTTGAAGGACAGACGAAGMapped 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|17153837|gb|BM143770.1|BM143770EST: CTATAACAAGAACACTTAATAGTCTTGGAAAGAAGTCAAAAGTTATTAAG GAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAAGGTCTAACATGT
genomic: CTATAACAAGAACTCTTAATAGTCTTGGAAAGAAGTCCAAAGTTATTAAGgtattcctta ... ttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatagttcacaaagtggattcttttcattgttaaatagcattctgttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
ttctgttcttt CT-rich tract
ttttcattgttaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataatagcaaatgtctccctttgtctaaaatggattattttatgaatagttcacaaagtggattcttttcattgttaaatagcattctgttctttgcagGAGAAGGATATTACTCTAAGTGGCGAGCATGTGAGAGAGGGTCTAACATGTGTTGTCTCAGTCAAGGTCCCAAATCCTGAGTTTGAAGGACAAACAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - -ctccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcattct