Sequence
atgc intronic sequence ATGC exonic sequenceGGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggatgtattaatttgctttttcttatttgttttaatttgtttttgataactcgatcgatcctttctgattgcgcccccgcag
Basic information
species | Glycine max |
transcript | GLYMA04G00210.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G00210.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G17150.1 (Arabidopsis thaliana), 5'ss of exon 4
GGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggatgtattaat--ttgctttttcttatttgttttaa--tttgtttttgataa---ctcgatcgatcctttctgattgcgcccccgcag-
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GGGGAGAAAAAAAGAGCAAAAACAGAAAAGACCATTGGCTTGGAGGTTCTTCGACAATACTTTGCTGGAAGCCTCAAGGATGCAGCCAAGAGCATTGGTGgtaagagaatgttgtacactgctggtgacatagccccattctttatgaattttgattcttattgtttcttgggaaaagcataaccattacgttcat-tagt
upper sequence: GLYMA04G00210.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G35270.1 (Arabidopsis thaliana), 5'ss of exon 3
GGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggat-gtattaatttgctttttcttatttgttttaatttgtttttgataactcgatcgatcctttctgattgcgcccccgcag
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GGTGAGAAGAGAAGAACAAAAACAGAAAAGACAATTGGTTTAGAAGTTCTTCGACAATACTTTGCAGGAAGCCTCAAAGATGCAGCCAAGAGCATTGGTGgtaagaaagaaaacttatagttattatgtctatcttatcaatctc--tcagaaagtgatgattc-attcacgcagtttcattttcatgttgcag
upper sequence: GLYMA04G00210.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0038g03710.t01 (Vitis vinifera), 5'ss of exon 3
GGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggatgta---ttaatttgctttttcttatttgttttaatttgtttttgataactcgatcgatcctttctgattgcgcccccgcag-----
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CGAGAGAAGAGACGTACCAAGACAGAAAAGACTATCAGCTTGCAAGTTCTCAGCCAATACTTTGCTGGGAGCCTAAAAGATGCTGCTAAGAGTATTGGCGgtagggaaatatccattacagttaaattgcaatttcttgttt-tagtattcctcacatgaatgttttacctataaaaacaaagtatactgtagtatttgat
upper sequence: GLYMA04G00210.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S302_9V6.1 (Physcomitrella patens), 5'ss of exon 2
GGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggatgtatt---aatttgctttttcttatttgttttaatttgtttttgataactcgatcgatcctttctgattgcgcccccgcag------
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CTTGATAGAAGGCGAGGAACAACAGAAAAAACGATCGGCCTCAGCGTCCTTCAACAATACTTTGCGGGTAGCTTGAAAGATGCTGCCAAGAGCATTGGTGgtcagtttgctcaatcctcttcagatcgaatgatctatacatgttgaaagccagatcgcttaatgagtgtcagagtagatgg--gtgttttggaaacttcta
upper sequence: GLYMA04G00210.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S250_18V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggatgtattaatt-tgctttttcttatttgttttaatttgtttttg-ataact-cgatcgatcctt----tctgattgcgcccc-cgcag
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CTTGATAGAAGACGAGGAACAACGGAAAAGACTATCGGCCTTAGTGTCCTTCAACAATACTTCGCGGGTAGCCTGAAAGATGCTGCCAAGAGCATTGGTGgttagttccctgaatcctctcattgtgaattgctcgatccctctgggtgtgggagggcatagttatcaataatgtttatagtccgaccgtgccttgtgca-Mapped 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|192322719|gb|FK014410.1|FK014410EST: TCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCG TATGTCCTACCACTCTTAAAAGGATATGCCGACAACATGGGATCACAAGGT
genomic: TCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgt ... gcccccgcagTATGTCCTACCACTCTTAAAAGGATATGCCGACAACATGGGATCACAAGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCGACAAGAGACGAACCAAGGCAGAGAAGACTATCAGCTTGCCGGTTCTTCGACAATACTTTGCAGGAAGCCTGAAAGACGCTGCCAAGAGCATTGGCGgtacgtacgtaggatgtattaatttgctttttcttatttgttttaatttgtttttgataactcgatcgatcctttctgattgcgcccccgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA