Sequence
atgc intronic sequence ATGC exonic sequence...gtttacacgtcccagatgatcagagaatacttagaagtatagaaatcaaaatatgtcacacataacataatggtgcgtcatatattcattcacattgcagATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAGATGGTGGAACTGAGGGCTTCAAGGGACACGCTAGAGTCATTATACCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G007915_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g16540.1 (Oryza sativa), 3'ss of exon 3
-gtttacacgtcccagatg-atcagagaatacttagaagtatagaaatcaaaatatgtcacacataacataatggtgcgtcatatattcattcacattgcagATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAGATGGTGGAACTGAGGGCTTCAAGGGACACGCTAGAGTCATTATACCTGG
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tgatgcccaaacagaggtatattgttattcactatgtactgtaccaaactcagtatattcagtgcagtgctatagtgc-taatatgtaattgca-attgcagAGTATGACTCAGATGACAAGCCAATCCCTGAGACGCTTAAACCTATGGTCGATGGTGGGACTGAAGGTTTCAAAGGTCATGCTAGAGTCATCATACCTGG
upper sequence: GRMZM2G007915_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0020g02820.t01 (Vitis vinifera), 3'ss of exon 3
gtttacacgtcccagatgatcagagaatacttag-aagtatagaaatcaaaata-tgtcacacataacataatggtgcgtcatatattcattcacattgcagATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAGATGGTGGAACTGAGGGCTTCAAGGGACACGCTAGAGTCATTATACCTGG
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gcttttgagaatcaaatgtgtgtcattttcatagtgagtagatttttctacattctgcctcatcttatctagtcgt-ctcattgtgtttttggaaatt-tagAGTATGATTCTGATGATAAACCACTGGAAGAAACAATTAAACCTATGGTGGATGGTGGAACTGAAGGCTTCAAGGGTCATGCCAGGGTTATCATTCCAGG
upper sequence: GRMZM2G007915_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ23801 (Selaginella moellendorffii), 3'ss of exon 2
gtttacacgtcccagatgatcagagaatacttagaagtatagaaatcaaaatatgtcacacataacataatggtgcgtcatatattcattcacattgca--gATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAGATGGTGGAACTGAGGGCTTCAAGGGACACGCTAGAGTCATTATACCTGG
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---------------------------------------------gtaaaacttcgtgtttattgtttcaggtcgtgacttttatttctacttttcgcacagAGTACAACGAAGATGGCGAGCTCGACATGTCAACTATCAAACCAATGGTTGATGGTGGAACGGAGGGCTTCAAGGGCCATGCCCGAGTGATACTGCCGGGMapped 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|148931184|gb|EC873916.2|EC873916EST: TTCAATTGAAGCTCGAAGCTACATCAATTCTGTGGCTTGTGGTTTCTTAG ATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAG
genomic: TTCAATTGAAGCTCGAAGCTACATCAATTCTGTGGCTTGTGGTTTCTTAGgtatgctttt ... cacattgcagATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaaatatgtcacacataacataatggtgcgtcatatattcattcacattgcagATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAGATGGTGGAACTGAGGGCTTCAAGGGACACGCTAGAGTCATTATACCTGG
acataac putative branch site (score: 3)
ttcattc putative PPT
atatattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttacacgtcccagatgatcagagaatacttagaagtatagaaatcaaaatatgtcacacataacataatggtgcgtcatatattcattcacattgcagATTATGACTCAAGTGACAATCCACTCCAAGAGACGGTTAAACCTATGGTAGATGGTGGAACTGAGGGCTTCAAGGGACACGCTAGAGTCATTATACCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA