Sequence
atgc intronic sequence ATGC exonic sequencegtatgacacttatcttgttcacttgcatacagtatcacccaggatcgttgtaatataaattttcctcttcagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACATGTGTGCTCATGCAGGGATGCTT
Basic information
species | Glycine max |
transcript | GLYMA13G26240.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G26240.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G432075_T01 (Zea mays), 3'ss of exon 6
gtatg-acacttatcttgttcact-----tgcatacagtatcacccaggatcgtt---gtaatataaattttcctctt----cagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACATGTGTGCTCATGCAGGGATGCTT
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gtaagtacccttgtcccacttaatactgttaaagattcttcccctttaaacggcttgagcaacttacactttttctttgcatcagGGACTGTTGTGGACTCCGGCATAGTTCATCCAAGACAGTATGATTTCTACATGTGTGCTCATGCCGGACCAATT
upper sequence: GLYMA13G26240.1 (Glycine max), 3'ss of exon 18
lower sequence: AT2G32940.1 (Arabidopsis thaliana), 3'ss of exon 19
-----------gtatgacacttatcttgttcacttgcatacagtatcacccagga------tcgttgtaatataaa---ttttcctcttcagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACATGTGTGCTCATGCAGGGATGCTT
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gtaaaaaatactttttattcttcacccgt-cactaggattccatttctttccgtaactatttcatcataaaaaaaacaatgtcgtttgtcagGAACTGTCGTGGACACCAAGATCGTACACCCGACAAACTACGATTTTTACATGTGTGCTCATGCAGGAAAAATA
upper sequence: GLYMA13G26240.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv12s0059g01430.t01 (Vitis vinifera), 3'ss of exon 19
gtatgacacttatc--ttgttcacttgcatacagtatcacccaggatcgttgtaatata---aattttcctcttc-----agGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACATGTGTGCTCATGCAGGGATGCTT
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gtatgcaacttgctaattttatatttagatttttctgaatgctggatgttcttggcttatctgatctctctctctcttatagGGACAGTAGTGGATACAAAAATTGTGCATCCAAGAAATTATGATTTCTACATGTGCGCTCATGCAGGGATGATTMapped 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|58014225|gb|CX700967.1|CX700967EST: GCATCATATTAAGCTGTTTCTGCCTAATGGCCCAGAAAATGTTCCTCCTG GGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACA
genomic: GCATCATATTAAGCTGTTTCTGCCTAATGGCCCAGAAAATGTTCCTCCTGgtatgacact ... tcctcttcagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACA
EST:
gi|22930961|gb|BU548100.1|BU548100EST: GCATCATATTAAGCTGTTTCTGCCTAATGGCCCAGAAAATGTTCCTCCTG GGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACA
genomic: GCATCATATTAAGCTGTTTCTGCCTAATGGCCCAGAAAATGTTCCTCCTGgtatgacact ... tcctcttcagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcacttgcatacagtatcacccaggatcgttgtaatataaattttcctcttcagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACATGTGTGCTCATGCAGGGATGCTT
ttttcctcttc CT-rich tract
ttgtaatataaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgacacttatcttgttcacttgcatacagtatcacccaggatcgttgtaatataaattttcctcttcagGGACGGTTGTGGATACAACAATTACGCATCCAAGAAATTATGATTTTTACATGTGTGCTCATGCAGGGATGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA