Sequence
atgc intronic sequence ATGC exonic sequence...atatctcgcaagggaccatttctagatatactgctctagcgcctgttttcggtaaaaaaaaaacagtaacggaaacggtagagaggttccctactttcagGTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGCCGACATGAAGAAGCTCAAGTCACACCTGCTGAAGCGGAAGCAGCCCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G319187_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g72330.1 (Oryza sativa), 3'ss of exon 4
atatctcgcaagggaccatttctagatatactgctctagcgcctgttttcggtaaaaaaaaaaca---gtaacggaaacggtagagaggttccctactttcagGTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGCCGACATGAAGAAGCTCAAGTCACACCTGCTGAAGCGGAAGCAGCCCAAC--
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--atctctgacatgttc-tttgagtgtttgtccttgcaagatcctcttctgttcccaatgcttcctgtatattgctaaagatttgtgcttcacaaaatttcagGTGCTTGGAAGATGGTGCAGAGGAGTTCTTCCTGAAACCTGTCAAGCTCGCTGACATGAAGAAGCTCAAGTCTCACCTGCTCAAAAGGAAACAGC--AGCTGMapped 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|71326982|gb|DR800142.1|DR800142EST: ATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAG GTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGC
genomic: ATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGgtgagctccc ... ctactttcagGTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGC
EST:
gi|76932664|gb|DV173107.1|DV173107EST: ATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAG GTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGC
genomic: ATTCCGGTGGTGATCATGTCGTCTGAGAACGTGCCTGCCCGGATCAGCAGgtgagctccc ... ctactttcagGTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcggtaaaaaaaaaacagtaacggaaacggtagagaggttccctactttcagGTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGCCGACATGAAGAAGCTCAAGTCACACCTGCTGAAGCGGAAGCAGCCCAAC
cagtaac putative branch site (score: 2)
ttccctactttc putative PPT
taaaaaaaaaacagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatctcgcaagggaccatttctagatatactgctctagcgcctgttttcggtaaaaaaaaaacagtaacggaaacggtagagaggttccctactttcagGTGCTTGCAGGATGGCGCGGAGGAGTTCTTCCTGAAGCCCGTGAAGCCGGCCGACATGAAGAAGCTCAAGTCACACCTGCTGAAGCGGAAGCAGCCCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - tactgct
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa