Sequence
atgc intronic sequence ATGC exonic sequencegttagtacgttctcatgtcctcctccccttagttacccttaatagtttgaatgtatattcttttgaattttatttttattttttccatcttttattttattgctttgttgatatggtttctttgttgtctgctagGGTAATGCTTGTGGGGTGGGGGGGAAACAATGGCTCAACCCTCACTGGTGGTGTTATTGCTAACCGAGA
Basic information
species | Glycine max |
transcript | GLYMA08G14670.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14670.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 3'ss of exon 1
gttagtacgttctcatgtcctcctccccttagttacccttaatagtttgaatgtatattcttttgaattttatttttattttttccatcttttattttattgctttgttgatatggtttctttgttgtctgctagGGTAATGCTTGTGGGGTGGGGGGGAAACAATGGCTCAACCCTCACTGGTGGTGTTATTGCTAACCGAGA
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--------------------------------------------gtaaaaaccactcttttccaaagtttca----taattcctcgatttctccgt------cgttgatgaatcaattttgattttgtcgtaaagGGTTATGCTTGTGGGTTTGGGAGGAAACAATGGATCAACTCTCACCGCTGGTGTGATTGCGAACAAAGA
upper sequence: GLYMA08G14670.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G22240.1 (Arabidopsis thaliana), 3'ss of exon 1
gttagtacgttctcatgtcctcctccccttagttacccttaatagtttgaatgtata--ttcttttgaattttatttttattttttccatcttttattttattgctttgttgatatggtttctttgttgtctgctagGGTAATGCTTGTGGGGTGGGGGGGAAACAATGGCTCAACCCTCACTGGTGGTGTTATTGCTAACCGAGA
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----------------------------------gtaaataa-aatccaaatctttcacttcttttggaattttaaatcacgaattc-atctgggtcggtgttaacattcacattttgaaactttttgcgtggatagGGTTATGCTTGTTGGTTGGGGAGGAAACAATGGATCAACACTAACCGCTGGTGTCATTGCTAACAAAGA
upper sequence: GLYMA08G14670.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 1
gttagtacgttctcatgtcctcctccccttagttacccttaatagtttgaatgtatattcttttgaattttatttttattttttccatcttttattttattgctttgttgatatggtttctttgttgtctgctagGGTAATGCTTGTGGGGTGGGGGGGAAACAATGGCTCAACCCTCACTGGTGGTGTTATTGCTAACCGAGA
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--------------------------------------------gttggcatcttaacaactgtg---tttctttccaattttcct---ttttgattttccatgtttccgaattgatttct--gtttttgactagGGTTATGCTTGTGGGTTGGGGAGGAAACAACGGCTCATCTCTCACTGGTGGTGTAATTGCCAATCGGGAMapped 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|208120789|gb|GD917532.1|GD917532EST: AAAACTGTCAAATATGAATTTAAAACCAACACCCATGTCCCTAAACTAGG GGTAATGCTTGT
genomic: AAAACTGTCAAATATGAATTTAAAACCAACACCCATGTCCCTAAACTAGGgttagtacgt ... tgtctgctagGGTAATGCTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttccatcttttattttattgctttgttgatatggtttctttgttgtctgctagGGTAATGCTTGTGGGGTGGGGGGGAAACAATGGCTCAACCCTCACTGGTGGTGTTATTGCTAACCGAGA
tgttgat putative branch site (score: 4)
tttctttgttgtct putative PPT
ttttattttattgctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtacgttctcatgtcctcctccccttagttacccttaatagtttgaatgtatattcttttgaattttatttttattttttccatcttttattttattgctttgttgatatggtttctttgttgtctgctagGGTAATGCTTGTGGGGTGGGGGGGAAACAATGGCTCAACCCTCACTGGTGGTGTTATTGCTAACCGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG