Sequence
atgc intronic sequence ATGC exonic sequence...tgaaatgagggagttttgtttattttattttctttgcagctgaagaccagaattttctgttctgactagtttttcttttttaaattttcttgtgatttagGTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTCATTGAGTATCTGCATACAAGAGACATGAAAG
Basic information
species | Glycine max |
transcript | GLYMA01G38120.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G38120.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G113592_T02 (Zea mays), 3'ss of exon 6
--tgaaatgagggagttttgttta---ttttattttctttgcagctgaagaccagaattttctgttctgactagtttttcttttttaaattttcttgtgatttagGTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTCATTGAGTATCTGCATACAAGAGACATGAAAG
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aaagaacaaacacaattacaactaaaaatataacatattcttaacttcagg--ggaactttct-tattgaatattgtttcattactaaatttgatctt--tccagGTTCGTCTTGTAACTGAGAAAGATACAAGTAAACCTAGAGGATATGCATTCATTGAGTATGTGCACACACGAGACATGAAAA
upper sequence: GLYMA01G38120.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G113592_T01 (Zea mays), 3'ss of exon 6
------------------------------------------------------------------tgaaatgagggagttttgtttat---tttattttctttgcagctgaagaccagaattttctgttctgactagtttttcttttttaaattttcttgtgatttagGTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTCATTGAGTATCTGCATACAAGAGACATGAAAG
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gttagcacggctgttttaggctttatgcctgtctgtcgtgcagcataaaatatgctaaaaattaaaagaacaaacacaattacaactaaaaatataacatattcttaacttcagg--ggaactttct-tattgaatattgtttcattactaaatttgatctt--tccagGTTCGTCTTGTAACTGAGAAAGATACAAGTAAACCTAGAGGATATGCATTCATTGAGTATGTGCACACACGAGACATGAAAAMapped 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|208152647|gb|GD950466.1|GD950466EST: TCATATGGTCCAATCAAACGG GTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTC
genomic: TCATATGGTCCAATCAAACGGgtaggtattt ... tgtgatttagGTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accagaattttctgttctgactagtttttcttttttaaattttcttgtgatttagGTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTCATTGAGTATCTGCATACAAGAGACATGAAAG
ttctgac putative branch site (score: 2)
tttttcttttttaaat putative PPT
tttttcttttttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaatgagggagttttgtttattttattttctttgcagctgaagaccagaattttctgttctgactagtttttcttttttaaattttcttgtgatttagGTTCGATTAGTTGCTGACAAAGATACAAATAAGCCCAGGGGTTATGCTTTCATTGAGTATCTGCATACAAGAGACATGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - gagggag
- - - - - - - - - - - - - - - - - - cagctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgac