Sequence
atgc intronic sequence ATGC exonic sequence...aagtagcattaaaaatgtgtatgtacattgaaaaggacaaatcctaatactctacaattgttgacgaaatgataattgtgctacctgaacatttatctagATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAACCAAAATACATATGAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g44200.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G092112_T01 (Zea mays), 3'ss of exon 7
------------------------------------------------aagtagcattaaaaatgtgtatgtacattgaaaaggacaaatcctaatactctacaattgttgacgaaatgataattgtgcta----cctgaacatttatctagATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAACCAAAATACATATGAACT
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gtatccttttgttttctctctgcagctataacgttcattctaagtgcatattgctacttacaattt-taaat-tattgaagtgcctaaattgtaaattttaagaattattattaaaagaaatgttgcaatgagttcctgaaaattttcctagATACCGGATCAAGATTCACCCTATGGGAAGCTATCCAAGAGTCACAGACATCCAGAATAACACATATGAACT
upper sequence: LOC_Os03g44200.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G027857_T01 (Zea mays), 3'ss of exon 7
---------------------------------------------------------------aagtagcattaaaaatgtgtatgtacattgaaaaggacaaatcctaatactctacaattgtt------gacgaaatgata-attgtgctacctgaacatttatctagATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAACCAAAATACATATGAACT
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gtatccttttgttttctcgcagcagctatagtgctcattctaagtgcatggtgttacttacaattctaactctattgaagtgcataaactgtgataattttaatagtaagcacaaaagaatttttttcttagaagaaatgttgcaatgcatttcttgaacattttcctagATACCGGATCAAGATTCACCCTATGGGAAGCTATCCAAGAGTCACAGACATCCACAATCATACATATGAACTMapped 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|33807311|gb|CF329536.1|CF329536EST: GCTGCTCTTCTGTTGCATACCATGGCTCAGTACTTCTTCCCAAAATTTGA ATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACAT
genomic: GCTGCTCTTCTGTTGCATACCATGGCTCAGTACTTCTTCCCAAAATTTGAgtatccttta ... atttatctagATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatactctacaattgttgacgaaatgataattgtgctacctgaacatttatctagATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAACCAAAATACATATGAACT
tacctgaac putative branch site
tttatct putative PPT
aaatgataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtagcattaaaaatgtgtatgtacattgaaaaggacaaatcctaatactctacaattgttgacgaaatgataattgtgctacctgaacatttatctagATACCGGATCAAAATTCACCCTATGGGAAGCTATCCAAAAGTTACAGACATCAACCAAAATACATATGAACT
- - - - - - - - gtgtatg
- - - - - - - - - - - - - - - - - ggacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctacc