Sequence
atgc intronic sequence ATGC exonic sequencegtttgatccttgtgtcctgcattttttaaattttttttattttgggccttatttttcgcattgcaattatgtatgtggccggaaaaattgtgatatttataagtatttgaatttgggaatttgatcagcattctttacaaccgtggagtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTGAAGATGAGGGTGTCAAAACTTTTTTAGCCAATCTAACTGCTCAGCTCTC
Basic information
species | Glycine max |
transcript | GLYMA11G37380.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G37380.3 (Glycine max), 3'ss of exon 2
lower sequence: AT3G25980.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgatccttgtgtcctgcattttttaaattttttttattttgggccttatttttcgcattgcaattatgtatgtggccggaaaaattgtgatatttataagtatttgaatttgggaatttgatcagcattctttacaaccgtggagtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTGAAGATGAGGGTGTCAAAACTTTTTTAGCCAATCTAACTGCTCAGCTCTC
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--gtgagaattggatcg-gaacttttcaa--tttcagtgtctggaa----atcttcgattctgtgattttttta-----cagtgaaattg----attcgt---tattggtttctgggta------cagTATATTGTATAATCGTGCAGTTTATCCAGAGGAAAGTTTTGTGAAAGTGAAGAAATATGGACTTCCGATGTTGCTTATTGAAGATGAATCCGTCAAATCT-----------------------------
upper sequence: GLYMA11G37380.3 (Glycine max), 3'ss of exon 2
lower sequence: AT3G25980.2 (Arabidopsis thaliana), 3'ss of exon 1
gtttgatccttgtgtcctgcattttttaaattttttttattttgggccttatttttcgcattgcaattatgtatgtggccggaaaaattgtgatatttataagtatttgaatttgggaatttgatcagcattctttacaaccgtggagtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTGAAGATGAGGGTGTCAAAACTTTTTTAGCCAATCTAACTGCTCAGCTCTC
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---tgagaattggatcg-gaacttttcaa--tttcagtgtctggaa----atcttcgattctgtgattttttta-----cagtgaaattg----attcgt---tattggtttctgggta------cagTATATTGTATAATCGTGCAGTTTATCCAGAGGAAAGTTTTGTGAAAGTGAAGAAATATGGACTTCCGATGTTGCTTATTGAAGATGAATCCGTCAAATCT-----------------------------
upper sequence: GLYMA11G37380.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 2
gtttgatccttgtgtcctgcattttttaaattttttttattttgggccttatttttcgcattgcaattatgtatgtggccggaaaaattgtgatatttataagtatttgaatttgggaatttgatcagcattctttacaaccgtggagtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTGAAGATGAGGGTGTCAAAACTTTTTTAGCCAATCTAACTGCTCAGCTCTC
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gtatgaacattaaa--ataaacggattgaattgtagtttatttaattttctgttgaatttttagatttatgtttg-ggttgggaaa---gtgattttgatgggaa----------agaaaatgttcagTATTCTATACAATCGCGGAGTTTATCCGGAAGAATCTTTTGGAAAAGTGAAGAAATATGGCCTTCCAATGCTGCTTACTCAAGATGAGGGTGTTAAATCG-----------------------------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|192309937|gb|FK001481.1|FK001481EST: AGTTCTTCGGATATGCTGCTAACAG AAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTG
genomic: AGTTCTTCGGATATGCTGCTAACAGgtttgatcct ... gtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatttgaatttgggaatttgatcagcattctttacaaccgtggagtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTGAAGATGAGGGTGTCAAAACTTTTTTAGCCAATCTAACTGCTCAGCTCTC
atttgat putative branch site (score: 5)
tttatcc putative PPT
aatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgatccttgtgtcctgcattttttaaattttttttattttgggccttatttttcgcattgcaattatgtatgtggccggaaaaattgtgatatttataagtatttgaatttgggaatttgatcagcattctttacaaccgtggagtttatccagAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTTACTGAAGATGAGGGTGTCAAAACTTTTTTAGCCAATCTAACTGCTCAGCTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC