Sequence
atgc intronic sequence ATGC exonic sequenceTCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgtaaatgctaatagtaacaagtagattttaaaaatatagcttctcatcccccgagtctttcttgggttatgttatttctttaattaattttggtgtcata...
Basic information
species | Glycine max |
transcript | GLYMA13G29180.1 |
intron # | 24 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G29180.1 (Glycine max), 5'ss of exon 24
lower sequence: LOC_Os04g52900.1 (Oryza sativa), 5'ss of exon 24
TCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgtaaatgctaatagtaacaagtagatt-ttaaaaatatagcttctcatcccccgagtctttcttgggttatgttatttctttaattaattttggt--gtcata
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TCCTTTTAATGAGCACAATGATGCGGATCTCTGGGAAGCGCTTGAAAGGGCTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtttgtttatcctttatttagttcagaccattatttcactttttttaagatgatgtatgcctgtatagacttgtcagtttttttttgtcagtc---
upper sequence: GLYMA13G29180.1 (Glycine max), 5'ss of exon 24
lower sequence: GRMZM2G084181_T01 (Zea mays), 5'ss of exon 24
TCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgta---aatgctaatagt---aacaagtagattttaaaaatatagcttctcatcccccgagtctttcttgggttatgttatttctttaattaattttggtgtcata
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TCCCTTTAATGAGCACAATGATGCGGACCTCTGGGAGGCTCTGGAAAGGGCTCATCTAAAAGATGTTATAAGGAGGAATTCTTTAGGATTGGATGCTGAGgtatgcaattttcatgattttattcatggaagtttacgactattgattctcggctgtca--ttttattttacaaatgacacacacacaagta-ttccactttt---
upper sequence: GLYMA13G29180.1 (Glycine max), 5'ss of exon 24
lower sequence: AT2G34660.2 (Arabidopsis thaliana), 5'ss of exon 24
TCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgtaaatgctaatagtaacaagtagattttaaaaatatagcttctcatcccccgagtctttcttgggttatgttatttctttaattaattttggtgtcata
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TCCATTTGGTGAACACAATGATGCTGATCTTTGGGAATCTCTAGAGAGGGCACACTTGAAGGATACCATCCGCAGAAATCCTCTTGGTCTTGATGCTGAGgta---ttcagttgctgc-------ctatattgatatgaagtctcattttt--aagtggtaataactgattttcaatctttgttcag-------------
upper sequence: GLYMA13G29180.1 (Glycine max), 5'ss of exon 24
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 5'ss of exon 24
TCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgtaaatgctaatagtaaca--agtagattttaaaaatatagcttctcatcccccgagtctttcttgggttatgttatttctttaattaattttggtgtcata---
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TCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAATTCTCTTGGTCTTGATGCTGAGgtacatgctcaaatttgctttagtagatcatta---ttttttttctcactctctttttctttttctctttttcaaacagcatggat--attaaattgtcaattgaMapped 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|13480707|gb|BG510050.1|BG510050EST: CACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAG GTATCTGAGGCAGGCGAGAACTTCAGTGTTGGACAAAGACAACTGTTGAGT
genomic: CACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgtaaatgcta ... tggtatccagGTATCTGAGGCAGGCGAGAACTTCAGTGTTGGACAAAGACAACTGTTGAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAATTCTCTGGGGCTGGACGCTGAGgtaaatgctaatagtaacaagtagattttaaaaatatagcttctcatcccccgagtctttcttgggttatgttatttctttaattaattttggtgtcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atccccc