Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgattgcaataatactttttaaattaaatcatgtttgctctaagttgactgaacatccattattgttatcttattagGTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAGAAGGCGCGTGAAAGGCCGGTTTGTCAAAGCTGGTGACGTCTACGATTAT
Basic information
species | Glycine max |
transcript | GLYMA13G11590.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G11590.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g19444.2 (Oryza sativa), 3'ss of exon 4
----------gtaagtgattgca-ataatactttttaaat-taaatcatgtttgctctaa--gttgactgaacatccattattgt----tatcttattagGTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAGAAGGCGCGTGAAAGGCCGGTTTGTCAAAGCTGGTGACGTCTACGATTAT
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atgtcagtccactgatgctaacatgctatatttctagcataccaattgcctcctttttgacagctagctgattatcttttctcatggcttctcttgacagATTTGACAAGAAAATCAGGTATGCATCTCGCAAGGCTAGGGCAGATGTGAGAAAAAGAGTCAAGGGCCGGTTTGTTAAGGCTGGTGAAGCATACGACTAC
upper sequence: GLYMA13G11590.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0057g01350.t01 (Vitis vinifera), 3'ss of exon 3
-------------gtaagtgattgcaataatactttttaaattaaatcatgtt----tgctctaagttgactgaacatccattattgttatctt-attagGTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAGAAGGCGCGTGAAAGGCCGGTTTGTCAAAGCTGGTGACGTCTACGATTAT
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attaattttttgaactcttgttttgatttatagccctttgggttccttgttttgcaacactattcatttatttaatcatcattttaaacatttttaacagATTTGATAAAAGAGTGAGGTATGCTTCACGGAAGGCAAGGGCTGATGTTAGACAGCGTGTGAAGGGGCGCTTTGTCAAGGCTGGTGAAGCTTATGACTATMapped 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|10843059|gb|BF066388.1|BF066388EST: AACCGTAGTAATGCTGTCATGCGGTACAAGGAAAAGAAGAAGACACGGAT GTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAG
genomic: AACCGTAGTAATGCTGTCATGCGGTACAAGGAAAAGAAGAAGACACGGATgtaagtgatt ... atcttattagGTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaaatcatgtttgctctaagttgactgaacatccattattgttatcttattagGTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAGAAGGCGCGTGAAAGGCCGGTTTGTCAAAGCTGGTGACGTCTACGATTAT
agttgac putative branch site (score: 4)
ttatctt putative PPT
attattgttatcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgattgcaataatactttttaaattaaatcatgtttgctctaagttgactgaacatccattattgttatcttattagGTTTGACAAAAAAGTGAGGTATGCCTCTCGCAAGGCAAGGGCTGATGTCAGAAGGCGCGTGAAAGGCCGGTTTGTCAAAGCTGGTGACGTCTACGATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG