Sequence
atgc intronic sequence ATGC exonic sequencegtaactatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G030299_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g02640.1 (Oryza sativa), 3'ss of exon 4
gtaactatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
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gtaaagttatgcaaatatagttcggattgc----taccttttcctaaaatcctttgaggttaacaaaccatttgttttcagTCAGCTTTGGGAAGGAAACTAGCTGAAATGCATAAAGCTGCCAAATCTGACAAGGGCTATGGTTTCTATGTTGACAATACAATTGGAAG
upper sequence: GRMZM2G030299_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G08570.1 (Glycine max), 3'ss of exon 5
gtaa-ctatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
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gtgagttacctagaaattgcttctga---ttaggaaaa--tttgtgcatcctaattgtgatt----tattgcttcc---cagTCTGATTTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGTAAAGGGTTTGGTTTCGATGTTGATAACACCATTGGGAG
upper sequence: GRMZM2G030299_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G01960.1 (Glycine max), 3'ss of exon 4
gtaactatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
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---gtgagatacctagcaattgc---ttctgattaggaaaatgtatgcaccttaattg--taatctattgcttcc---cagTCTGATCTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTAGTAAAGGCTTTGGTTTCGATGTTGATAACACCATTGGCAG
upper sequence: GRMZM2G030299_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv15s0048g01810.t01 (Vitis vinifera), 3'ss of exon 4
gtaactatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
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---gtgaggttcgacaaattttc-----ttgacattattatggtgataacaatttgctataactgttattggtt--atcagGCTGTTTTAGGGAGGAAGCTTGCTGAAATGCATAAAGCTGGAAAATCTGAAAAAGGATTTGGGTTTGATGTTGATAATACCATAGGCAGMapped 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|60348350|gb|DN215323.1|DN215323EST: TTTTATCATCATGGAGTTTATTGAATTTGGTCGTTCAAGGGGAGACCAG TCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGAT
genomic: TTTTATCATCATGGAGTTTATTGAATTTGGTCGTTCAAGGGGAGACCAGgtaactatat ... tttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGAT
EST:
gi|78544199|gb|DV621697.1|DV621697EST: GTCGTTCAA-GGGAGACCAG TCAGA-TTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGAT
genomic: GTCGTTCAAGGGGAGACCAGgtaactatat ... tttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
ctctttctgtc CT-rich tract
tttttgttattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactatatacgaaaggttttcaagctttaattcaccctttttgttattcttttgtaattaacataactctttctgtcagTCAGATTTGGGAAGGAAGCTTGCTGAAATGCATAAGGCTGCTAAATCTGATAAAGGATATGGTTTCCCGGTTGACAATACTATTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG