Sequence
atgc intronic sequence ATGC exonic sequencegtgaggaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttgatgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
Basic information
species | Glycine max |
transcript | GLYMA09G06640.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G06640.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G30020.1 (Arabidopsis thaliana), 3'ss of exon 5
gt-gaggaatgacgccccccctaattg-----ttcaa-----cttctgatgaaaaccgggaagtacttgatgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
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gtagatagataattgatccagaaattggtggctttaaagacatttctgttcctgtctttcaaa-actaaatgttgtcttgt-tttagGATTGCTGTTTACAAAGCTCTCTACCGACTTTTTGGAGGCTTTGTAGCTGATGTGGTGGCTGCCATTGATCAG
upper sequence: GLYMA09G06640.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
----------gtgaggaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttga-tgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
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gtaggcagatgtgcaaaatggcagatttattgacagtttgtattct--tcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
upper sequence: GLYMA09G06640.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 5
gtgaggaatgacgccccccctaa-ttgttcaactt-ctgatgaaaacc-------------gggaagta-cttgatgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
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gtgagggttaacaatctttgtatcttattcaaattactcagtatcatcctttcctctatttaaaaactatcttcctgtttggatgtattcagGGTTGCTGTATACAAGGCACTCTACCGGCTTTTTGGAGGTTTTGTTGCAGATGTGGTAGCTGCAATTGATCAGMapped 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|22523793|gb|BU082604.1|BU082604EST: ATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAG GAATGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGA
genomic: ATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatg ... ttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgttcaacttctgatgaaaaccgggaagtacttgatgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
tgtttttttgtcttc CT-rich tract
atgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttgatgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC