Sequence
atgc intronic sequence ATGC exonic sequence...aaccgtaactattccccagatggtcaggtgatcagttttctccctgtttaatgttgcaagggaatctcacatttgccagttgatattttcgactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G088060_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g46430.2 (Oryza sativa), 3'ss of exon 1
aaccgtaactattccccag--atggtcaggtg-atcagtt--ttctccctgtttaatgtt-gcaagggaatctcacatttgccagttgatattttcgactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
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---ggcaaatgttgcgttataataatcatatatatgggtcactttttcctgctgatcattagttacaggatcttacagtag---gttgttggttttggttatgtagGCGAAGCGAAATGGCGACGGTTCCGGAGCCTTTGATCTGGGAGATTGTCAAGAAGAACAACTGCTTCCTGGTGAAGCAGTTCGGGAATAGCAATGCCAAG
upper sequence: GRMZM2G088060_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g57540.1 (Oryza sativa), 3'ss of exon 1
-aaccgtaactattccccagatggtcaggtg-atcagttttctccctgtttaatgttgcaagggaatctcacatttgccagttgatattttcgactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
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ttgctgccagcgttgtgta-atgtttttgcgtgttaatggtcacttagtggtctgatggtcatttgctatg-gtgtaatggtcgatctgtttggtgatgtagCTACAGCGAAATGGCGACGGTTCCGGAGCCTTTGTTCTGGGAGATTGTGAAGAAGAACAACTGCTTCCTCGTGAAGCAGTTTGGAAACAGCAATGCCAAG
upper sequence: GRMZM2G088060_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT2G19730.2 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------------------------------------------aaccgtaactattcc---ccagatggtcaggtgatcagttttctccctgtttaatgttgcaagggaatctcacatttgccagt--tgatattttcgactatttagGCGAAGG-----GAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG-
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gtgagcttagtattactctcaattgttctcagttcagtatgtcttgattttcgtagcttagatgatctgattttgtgtagatattttgattcagcgagctctatagt-agtagcctttaggaatcgatctgttaatgtatgtgttgttgattggtagtatcatttttggtgtggtgaaggtagGTATTTGAAATGGCGACAGTTCCAGGACAATTGATCTGGGAGATCGTGAAGAACAACAACTGTTTCTTGGTGAAGCAGTTCGGTAGAGGAAACTCTAAGG
upper sequence: GRMZM2G088060_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT2G19730.3 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------------aaccgtaactattcc---ccagatggtcaggtgatcagttttctccctgtttaatgttgcaagggaatctcacatttgccagt--tgatattttcgactatttagGCGAAGG-----GAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
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gttcagtatgtcttgattttcgtagcttagatgatctgattttgtgtagatattttgattcagcgagctctatagt-agtagcctttaggaatcgatctgttaatgtatgtgttgttgattggtagtatcatttttggtgtggtgaagGTAGGTATTTGAAATGGCGACAGTTCCAGGACAATTGATCTGGGAGATCGTGAAGAACAACAACTGTTTCTTGGTGAAGCAGTTCGGTAGAGGAAACTCT---
upper sequence: GRMZM2G088060_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT2G19730.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------------------------------------------aaccgtaactattcc---ccagatggtcaggtgatcagttttctccctgtttaatgttgcaagggaatctcacatttgccagt--tgatattttcgactatttagGCGAAGG-----GAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
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gtgagcttagtattactctcaattgttctcagttcagtatgtcttgattttcgtagcttagatgatctgattttgtgtagatattttgattcagcgagctctatagt-agtagcctttaggaatcgatctgttaatgtatgtgttgttgattggtagtatcatttttggtgtggtgaagGTAGGTATTTGAAATGGCGACAGTTCCAGGACAATTGATCTGGGAGATCGTGAAGAACAACAACTGTTTCTTGGTGAAGCAGTTCGGTAGAGGAAACTCT---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|78116676|gb|DV535063.1|DV535063EST: TTCGACTGGTGATTTGCGGGGCGTACTCCGCATGATTCGTCGTTGGTTAG GCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAG
genomic: TTCGACTGGTGATTTGCGGGGCGTACTCCGCATGATTCGTCGTTGGTTAGgtagctgtgg ... gactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAG
EST:
gi|78116677|gb|DV535064.1|DV535064EST: TTCGACTGGTGATTTGCGGGGCGTACTCCGCATGATTCGTCGTTGGTTAG GCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAG
genomic: TTCGACTGGTGATTTGCGGGGCGTACTCCGCATGATTCGTCGTTGGTTAGgtagctgtgg ... gactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttaatgttgcaagggaatctcacatttgccagttgatattttcgactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
ttgatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaccgtaactattccccagatggtcaggtgatcagttttctccctgtttaatgttgcaagggaatctcacatttgccagttgatattttcgactatttagGCGAAGGGAAATGGCGACCGTTCCAGGGGATCTGATCTGGCAGATTGTGAGGAAGAACAACTCCTTCCTGGTGAAGCAGTTTGGCAACGGCAATGCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - -tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catttgc