Sequence
atgc intronic sequence ATGC exonic sequence...ttttggttggattgcttgatgagaaattttagtatctgtctttggttgtccctttctgctccccctttataatgtgaattataatattggccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
Basic information
species | Glycine max |
transcript | GLYMA02G03160.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G03160.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os09g22440.1 (Oryza sativa), 3'ss of exon 1
-ttttggttggattgcttgatgagaaattttagtatctgtctttggttgtccctttctgctccccctttataatgtgaattataatat-tggccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
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atgcaaagtgcat-atcaaattatcagcattggcagttaagat-gattgttgttattatgagtttgttcttaacatattttattttttgttgttatatgcagACTGCTTCAGCTAAGAGTTGGACATGCATGGATCTCTATGTGTTTGCAACACCATATAGGATAACATGGGATTACTATTTTGCTGCTCGAGAACACACTT
upper sequence: GLYMA02G03160.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os08g32910.1 (Oryza sativa), 3'ss of exon 1
ttttggttggattgcttgat-gagaaattttagtatc----tgtctttggttgtccctttctgctccccctttataatgtgaattataatattggccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
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-----actgtactgtatgaaagtgcgttctttgtactgaatcatatatagtccttcatacttagttttgtctcagcagcaaaatgtttgttgtggggttatgtagACTGCTTCAGCTCAGAGCTGGACATGCATGGATCTGTATGTGTTTGCAACGCCGTACAGGATAGGATGGGATTACTACATTACAGCACAGGAGCACACCT
upper sequence: GLYMA02G03160.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G031824_T01 (Zea mays), 3'ss of exon 1
ttttggttggattgcttgatgaga--aattttagtatctgtctttggttgtccctttctgctccccctttataatgtgaattataatattggcctttta--cagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
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---ggacaggaccatttactaagattggtcgttttatatatgatcagg-gtcacttattattttctttacgtaagtgaagttgttttttcctttgtttatgcagACTGCTTCAGCTCATAGTTGGGCATGCATGGATCTCTACGTTTTTGCAACACCATATAGGATAACATGGGACTATTATTTTGCTGCTCGGGAGCACACTT
upper sequence: GLYMA02G03160.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G70160.1 (Arabidopsis thaliana), 3'ss of exon 1
---ttttggttggattgcttgatgagaaattttagtatctgtctttggttgtccctttctgctccccctttataatgtga-attataatattggccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
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aaaattagg--agactgttgtgtagttgctgctaattcgaaattgtatgttattctggatgaaattgagttgtttgataacatttgggaactaa--ttttgcagACATCCAAGGCACATAGCTTGACATGTATGGATCTTTATGTGTTTGCAACGCCATACAGGATCACTTGGGACTACTATTTCTCTGCTAGAGATCATACTT
upper sequence: GLYMA02G03160.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 1
ttttggttggattgcttgatgagaaatttt-agtatctgtct----ttggttgtccctttctgctccccctttataat-gtgaattataatattggccttttac--agACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
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--------ggataattttttctccagttctcaatctttgtctcatatttatattctttttatgatacagtttcaaggttgataatctcatttttgttctcttcctcagACAGCTGAAGCTCACAGTTGGACCTGTATGGATCTATATGTTTTTGCAACACCATATCGTGTTACGTGGGACTACTACTTTTCTGCTCGAGAGCATAAATMapped 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|10847300|gb|BF070005.1|BF070005EST: CCGGCCACGACGACGCCGACGGCTTGGGCGGTGCCGTGCTCCGTCTCAAG ACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACG
genomic: CCGGCCACGACGACGCCGACGGCTTGGGCGGTGCCGTGCTCCGTCTCAAGgtttcacttt ... ccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtccctttctgctccccctttataatgtgaattataatattggccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
ccttttac CT-rich tract
tttataatgtgaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttggttggattgcttgatgagaaattttagtatctgtctttggttgtccctttctgctccccctttataatgtgaattataatattggccttttacagACAGAAGCTGCTCACAGTTGGACCTGCATGGATCTGTATGTATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTT
- -tggttgg
- - - - - - tgcttga
- - - - - - - - - - - - - - - -gtatctg