Sequence
atgc intronic sequence ATGC exonic sequencegtaatgagcaatagcttctaatctattttcctgtttgtgtaaacaagtgtagtcaccgtgcttgagaattattattatttgtctataatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os06g49430.2 (Oryza sativa), 3'ss of exon 6
gtaatgagcaatagcttctaatctattttcctg-tttgtgtaaacaagtgtagtcaccgtgcttgagaattattattatttgtctataatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG
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gtacaaagcaatagct------caagtttcctgctttgtgttaataataaaattttcagcttttcaagattgataat-------tatgaaatgcaaacagATTTTGGAGTATCACCCACAGATGCTGCAAGAGTATATGAAAGGTGGAGAGCAGATTAGCTTCCTCTATCCAAG
upper sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G01450.3 (Arabidopsis thaliana), 3'ss of exon 7
gtaatgagcaatagcttctaatctattttcctgtttgtgtaaac-aagtgtagtcaccgtgcttgagaattattattatttgtctat---aatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG------
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gtaaataaagacatcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctggatatg-aaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
upper sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 7
-----------------------gtaatgagcaatagcttctaatctattttcctgtttgtgtaaacaagtgtagtcaccgtgcttgagaattattattatttgtctataatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG
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gtatgtagcttcagtggaattcgtcattgatttatggactggagagttcattttaattatcggtgtgatattcagttattatgatggacatctctgatatagaagttttgttgtgtg-gcagATTTTGGAATATCATCCACAAATGCTGAAGGAGTATCTCAACGGTTCAGATAATGCTACTTTCCTGTACCCCAGMapped 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|67016391|gb|CO445140.1|CO445140EST: AAGAANAGA-GCTGGCCAAAGATGATGTTAGAGAACTGATCTATCGAGAG ATTTTGGAGTATCATCCACAGATGCTGG
genomic: AAGAA-AGAAGCTGGCCAAAGATGATGTTAGAGAACTGATCTATCGAGAGgtaatgagca ... acgcgagcagATTTTGGAGTATCATCCACAGATGCTGG
EST:
gi|61118794|gb|DN559755.1|DN559755EST: AAAGAAAGAAGCTGGCCAAAGATGATGTTAGAGAACTGATCTATCGAGAG ATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAA
genomic: AAAGAAAGAAGCTGGCCAAAGATGATGTTAGAGAACTGATCTATCGAGAGgtaatgagca ... acgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtgtagtcaccgtgcttgagaattattattatttgtctataatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG
ttgagaattattatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgagcaatagcttctaatctattttcctgtttgtgtaaacaagtgtagtcaccgtgcttgagaattattattatttgtctataatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA