Sequence
atgc intronic sequence ATGC exonic sequence...tacgaatgcaatccatttcttttatgtggtcaagtctgttacttgataagttagtaatgtgttttatctttaattattgagaatttcttccatgttacagATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATTTACTGTGGTCATGAATATACCTTG
Basic information
species | Glycine max |
transcript | GLYMA12G05470.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G05470.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G31350.2 (Arabidopsis thaliana), 3'ss of exon 5
---tacga-atgcaatccatttcttttatgtggtcaagtctgttactt-----gataagttagtaatgtgttttatctttaattattgagaatttcttccatgtt--acagATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATTTACTGTGGTCATGAATATACCTTG
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gtaaacagcacatatccctctccatctttctgcttatgtacatttcctttggaaccaaactctcagaatcaattcatgtatatttttaaatcctctgcacatgttctgcagATGCTTGCTTCTCTCCAAAAGATCACATCTTTACCAGATGACACAAGCATATACTGTGGTCATGAATATACACTG
upper sequence: GLYMA12G05470.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0102g01180.t01 (Vitis vinifera), 3'ss of exon 7
---tacgaatgcaatccatttcttttatgtggtcaagtctgttacttgataagttagtaatgtgttttatctttaattattgagaatttcttccatgttacagATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATTTACTGTGGTCATGAATATACCTTG
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caatatggagcatgaagatcggttatttgtaatctg--ccattaactcttttgtgattgacatgattcacatattat-agcactgacctcctctgtgttccagATGCATTCTTCCCTTAGTAAGATTATGTCTTTGCCAGACGAAACAAATATCTATTGTGGTCATGAATATACATTGMapped 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|18710446|gb|BM522497.1|BM522497EST: CCTTGTTCAGCTTATCATGTGGCAAGCTCTTAGAAGGAACCCCCGAACAG ATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATT
genomic: CCTTGTTCAGCTTATCATGTGGCAAGCTCTTAGAAGGAACCCCCGAACAGgttgatttga ... catgttacagATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataagttagtaatgtgttttatctttaattattgagaatttcttccatgttacagATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATTTACTGTGGTCATGAATATACCTTG
ctttaat putative branch site (score: 4)
tttcttccat putative PPT
ttagtaatgtgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacgaatgcaatccatttcttttatgtggtcaagtctgttacttgataagttagtaatgtgttttatctttaattattgagaatttcttccatgttacagATGCTATCTTCTCTTAAAAGGATCATGTCTTTGCCAGATGATACAAGTATTTACTGTGGTCATGAATATACCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG