Sequence
atgc intronic sequence ATGC exonic sequence...tattgcgtttagaaaatgtttatgcacagtttgtaatttcgtatgtttatcactgcatggacactaggaattacttgctgaattttgtcaaaaaatgcagATTTAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGATGAGAATGATTCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G153928_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g39640.2 (Oryza sativa), 3'ss of exon 10
--tattg-cgtttagaaaatgtttatgcacagtttgtaatttcgtatgtttatcactgcatggacactaggaattacttgctgaattttgtcaaaaaat-gcagATT-TAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGATGAGAATGATTCCAAG
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tctgtgaataatcagaaacagcttctgttca-ttacttatcccatgcatctcttactttcggaagtctct---ctgactagtgactactgctaaaaaattgcagATTGTAACATTAGAAGATGTTGTGGAAGAAATAGTTGGAGAAATCTTCGATGAGAATGATTCAAAG
upper sequence: GRMZM2G153928_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 10
----tattgcgtttagaaaatgtttatgcacagtttgtaatttcgtatgtttatcactgcatggacactaggaattacttgctgaattttgtcaaaaaatgcagATT-TAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGATGAGAATGATTCCAAG
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atattatgagatttatgccactatccaacatcctctttgtgcacttttttatatt-ctgtgtcagaacct--tatttcttcctta-tcttttctgtatgaacagATAGTAACCCTGGAAGATGTGGTTGAGGAAATTGTCGGTGAAATCTTCGATGAGAATGATTCAAAA
upper sequence: GRMZM2G153928_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S58_81V6.1 (Physcomitrella patens), 3'ss of exon 13
-----------------------------------------------------------------------------tattgcgtttagaaaatgtttatgcacagtttgtaatttcgtatgttta-tcactgcatggacacta--ggaattacttgctgaattttgtcaaaaaatgcagATTTAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGATGAGAATGATTCCAAG
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gtaagatttgaaaagcacatgacaactaatctgatagaatatttatagtctctgttgtgagcaatttcaagggagtctatttcaactgtaagaatagggcttataattagccccctgctttcctcacttgatatttgaatactaatggaatcaatttacgtgatacgctcaccag-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|60400445|gb|DN233252.1|DN233252EST: TGCAATCACTGTGAAGGAAATCGCACATATGCCTACATACTTTGTTCCAG ATTGTAACACTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGAT
genomic: TGCAATCACTGTGAAGGAAATCGCACATATGCCTACATACTTTGTTCCAGgtaattgcta ... aaaaatgcagATT-TAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatcactgcatggacactaggaattacttgctgaattttgtcaaaaaatgcagATTTAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGATGAGAATGATTCCAAG
aattttgtcaaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgcgtttagaaaatgtttatgcacagtttgtaatttcgtatgtttatcactgcatggacactaggaattacttgctgaattttgtcaaaaaatgcagATTTAACATTAGAAGACGTAGTGGAAGAAATAGTTGGTGAAATCTTCGATGAGAATGATTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA