Sequence
atgc intronic sequence ATGC exonic sequence...ttataggatccaattcctttttgataacctcatttttgtatccttgatggcatggaaattcaagaatcctagatcttaatgtctgtcattggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAAGCGGGACAAACCATGTCCTTCCTACTTATGGCTATGCAAGAATGTATGG
Basic information
species | Glycine max |
transcript | GLYMA15G13910.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G13910.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 3'ss of exon 12
ttataggatccaattcctttttgataacctcatttttgtatccttgatggcatggaaattcaagaatcctagatcttaatgtctgtcattggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAAGCGGGACAAACCATGTCCTTCCTACTTATGGCTATGCAAGAATGTATGG
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gtatagg--------catacctgtcagcgtcttaatcttgacctgaacattttcatacttcaatggt----aatctcaggcgatcgttttttcatcacagGGTCGGTCTTCTTGGGACAATGGACCCCGGAGAGCGTGGGCGACTATGCAAGCGGCACAAACCATGTCCTTCCAACCTATGGTTACGCAAGGATGTATAG
upper sequence: GLYMA15G13910.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 14
------------ttataggatccaattcctttttgataacctcatttttgtatccttgatgg-----catggaaattcaa----gaatcctagatcttaatgtctgtcattggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAAGCGGGACAAACCATGTCCTTCCTACTTATGGCTATGCAAGAATGTATGG
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gtaggcatattttttttgtcattagctttggtgtggtcacattgttcttcaagca--gatggttccccttggggcatcaatcttgaattcttgatcgaaatatttggtttctttacctcagGGTCAGTTTTCTTGGGCCAATGGACCCCAGAGAGCGTGGGCGATTATGCGAGCGGGACGAACCATGTCCTTCCGACCTATGGTTACGCAAGGATGTACAG
upper sequence: GLYMA15G13910.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv18s0166g00300.t01 (Vitis vinifera), 3'ss of exon 14
---ttataggatccaatt--cctttttgataacctcatttttgtatccttgatggcatggaaattcaagaatcctagatcttaatgtctgtcattggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAAGCGGGACAAACCATGTCCTTCCTACTTATGGCTATGCAAGAATGTATGG
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tgattaagaaaaacaagagaccatgcagcccagtcaataactatgtttatcac----tggtgtttttataatccagcctcatatcatttacttctc-ctctgcagGTTCTGTGTTTTTAGGGCAGTGGACACCGGAAAGTGTGGGGGATTATGCAAGTGGAACAAACCATGTCCTTCCAACATATGGCTATGCACGGATGTATGGMapped 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|254340469|gb|GR850771.1|GR850771EST: TATCAATGTGAAAGATGCAGAGAAGTGGGAGAGTTTCATTGAGAATGCAG GTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAA
genomic: TATCAATGTGAAAGATGCAGAGAAGTGGGAGAGTTTCATTGAGAATGCAGgtgctcctat ... ggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAA
EST:
gi|31311594|gb|CD396797.1|CD396797EST: AATGTGAAAGATGCAGAGAAGTGGGAGAGTTTCATTGAGAATGCAG GTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAA
genomic: AATGTGAAAGATGCAGAGAAGTGGGAGAGTTTCATTGAGAATGCAGgtgctcctat ... ggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatggcatggaaattcaagaatcctagatcttaatgtctgtcattggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAAGCGGGACAAACCATGTCCTTCCTACTTATGGCTATGCAAGAATGTATGG
tcttaat putative branch site (score: 3)
aaattcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttataggatccaattcctttttgataacctcatttttgtatccttgatggcatggaaattcaagaatcctagatcttaatgtctgtcattggctctgcagGTTCTGTGTTTTTAGGGCCTTGGACACCTGAGAGTGTTGGTGATTATGCAAGCGGGACAAACCATGTCCTTCCTACTTATGGCTATGCAAGAATGTATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA