Sequence
atgc intronic sequence ATGC exonic sequence...attagatcatttggcatttttatcaataccaattcttacaagtaggtgggttatcttgtactatcttttgttgctctcctaattcttttgtgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGAAGAAAACAGTGATACTTTTGTGCTGCATTCGGAGCAAGAAAGGGTATGCAAACTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G091503_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g27870.1 (Oryza sativa), 3'ss of exon 1
attagatcatttggcatttttatcaataccaattcttacaagtaggtgggttatcttgtactatcttttgttgctctcctaattcttttgtgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGAAGAAAACAGTGATACTTTTGTGCTGCATTCGGAGCAAGAAAGGGTATGCAAACTTC
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---------------------------------------------------------------------------gtgctaattttgcttttccc-ttagcttcgggatggataatcacatcaaggaactgtgatttcaatggaacaaaacaatgatacgtttgtgcttcattcagAGCTGGAGAGG-------------
upper sequence: GRMZM2G091503_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g41250.2 (Oryza sativa), 3'ss of exon 2
---attagatcatttggcatttttatcaataccaattcttacaagt--aggtgggttatcttgtactatcttttgttgctctcctaattcttttgtgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGAAGAAAACAGTGATACTTTTGTGCTGCATTCGGAGCAAGAAAGGGTATGCAAACTTC
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tgaatcgcaacatcatacatcaccactgttcccttttcatgttaatttgagttgagtatcttttgtc-tctgtggt--ctgtgctaattctccctttctc--tagCTTCGGGATGGATCAACACATCAAGGAACTGTGACTTCAATGGAACAAAACAACGATACTTTCGTGCTTCATTCTGAGCTGGAGAGG-------------
upper sequence: GRMZM2G091503_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g08600.t01 (Vitis vinifera), 3'ss of exon 4
---attaga-tcatttggcatttttatcaataccaattcttacaagtaggtgggttatcttgtactatcttttgttgctctcctaattcttttgtgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGAAGAAAACAGTGATACTTTTGTGCTGCATTCGGAGCAAGAAAGGGTATGCAAACTTC
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cctattggaatcattaggagaatccgaccatgtt--tcaaagtaaataaatttgtatatttctttcatgttatgatagttatgtcagtctttcatg--tgccagCTTCGAGATGGTTCTTCACATCAAGGAACTGTTACTTCGACGGATACAAATGAAGCCACTTTTGTGCTGCAAACTGATCCCTTTTGG-------------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|211515518|gb|FL138434.1|FL138434EST: TAGTTCTATCTGGGCTTAGTGGCAGTGGCAAAACCACTATTTACTACCAG CTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGA
genomic: TAGTTCTATCTGGGCTTAGTGGCAGTGGCAAAACCACTATTTACTACCAGgtaacttcca ... tgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgggttatcttgtactatcttttgttgctctcctaattcttttgtgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGAAGAAAACAGTGATACTTTTGTGCTGCATTCGGAGCAAGAAAGGGTATGCAAACTTC
tcctaat putative branch site (score: 2)
ttcttttgt CT-rich tract
taattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attagatcatttggcatttttatcaataccaattcttacaagtaggtgggttatcttgtactatcttttgttgctctcctaattcttttgtgcttgtcagCTTCGGGATGGATCATCACATCAAGGAACTGTTACTTCAATGGAAGAAAACAGTGATACTTTTGTGCTGCATTCGGAGCAAGAAAGGGTATGCAAACTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA