Sequence
atgc intronic sequence ATGC exonic sequencegtaaacactccgatcctgcctgcccatttccggcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAGCTCCGCGAGATCACCGCCAAGCACCCATGGTATGTTCCGCTTTCCCGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G127948_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g06980.2 (Oryza sativa), 3'ss of exon 1
gtaaacactccgatcctgcctgcccatttccg-------gcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAGCTCCGCGAGATCACCGCCAAGCACCCATGGTATGTTCCGCTTTCCCGGG
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gtaacccgccgtctccggccatcccctcctcgccggaaaacctccgccgccgtggctgaccttgcctgactgg---ctgactcggtgct---tcgtttccgc-agTACATCCTGGAGACGAGCGTGTACCCGCGCGAGCACGAGTGCATGAAGGAGCTCCGCGAGGTCACCGCCAACCACCCATG--------------------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|149089156|gb|EE178343.2|EE178343EST: ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAG TACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAG
genomic: ACTCCGAGGTCGGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactc ... cttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAGCTCCGCGAGATCACCGCCAAGCACCCATGGTATGTTCCGCTTTCCCGGG
atctgac putative branch site (score: 3)
tcacttcc putative PPT
ttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacactccgatcctgcctgcccatttccggcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccagTACATCCTGGACACGAGCGTGTACCCGCGGGAGCCGGAGAGCATGAAGGAGCTCCGCGAGATCACCGCCAAGCACCCATGGTATGTTCCGCTTTCCCGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA