Sequence
atgc intronic sequence ATGC exonic sequence...acttgtgcaacctcaggatctgttgctttcttaaaagaacatattcaaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
Basic information
species | Glycine max |
transcript | GLYMA01G41790.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
---acttgtgcaacctcaggatctgttgctttcttaaaagaacatattcaaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
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ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgt---tactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
upper sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 1
acttgtgcaacc-tcaggatctgttgctttcttaaaagaacatattcaaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
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ctttgtacctcaataaggatcccttcccctccccccttccttgcctccctctctctgctttgaattaaccttgcttaatggccttctgggtatatgg-cagAGGACCGAGTTGTATGAATACTCAAAGGTGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTG
upper sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 7
acttgtgcaacc-tcaggatctgttgctttcttaaaagaacatattcaaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
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ctttgtacctcaataagggtctcttcctctccccccttccttgcatccctctctctgctttgaattaaccttgcttaatggccttctgggtatatgg-cagAGGACCGAGTTGTATGAATACTCAAAGGTGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTGMapped 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|21888423|gb|BQ741636.1|BQ741636EST: CAGATCACTGGAAATGTCCTCGAACTTATGCTAGTCCAGAGGCTATCCAG AGGACCGAGTTATATGAATATTCAAAGGTG
genomic: CAGATCACTGGAAATGTCCTCGAACTTATGCTAGTCCAGAGGCTATCCAGgtaatttgaa ... acttggacagAGGACCGAGTTATATGAATATTCAAAGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
tttcatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttgtgcaacctcaggatctgttgctttcttaaaagaacatattcaaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
- - -tgcaacc
- - - - - - - - - -ctgttgc
- - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - aaaagaa