Sequence
atgc intronic sequence ATGC exonic sequencegtaatcttttctcatcttttgttatttgtatgcttgcttcttctttaataaatttaatttaacagggacaatttaggtcatagctagagactgactagacatggttaattcttctgtttgctaattgcaaacatgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGCTAATATCTGTTTATCAACAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G069758_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g40830.3 (Oryza sativa), 3'ss of exon 5
gtaatcttttctcatcttttgttatttgtatgcttgcttcttctttaataa--atttaatttaacagggacaatttaggtcatagctagagactgactagacatggttaattcttctgtttgctaattgcaaacatgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGCTAATATCTGTTTATCAACAGAAG
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gtaatcttttctcatctttcattatctattcttctctatggtgttttgtctctaccaaattttataggg-caatt-gtgtcatagctcaagactgattacgaatgactgata--tctgtttgctaat-------gttctgcagTTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATTTAATATCTGTTTATCAACAGAAG
upper sequence: GRMZM2G069758_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G33970.1 (Glycine max), 3'ss of exon 5
gtaatcttttctcatcttttgttatttgtatgcttgcttcttctttaataaatttaatttaacagggacaatttaggtcatagctagagactgactagacatggttaattcttctgtttgctaattgcaaacatgctg--cagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGCTAATATCTGTTTATCAACAGAAG
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------------------------------------------tttgggtgttgggcacttgagcctaaagcttttttttctttttagagaataaatctatacatgta-tatttgtatttaataaaattatgcttccttgtcagTATGTGATCCAGTGATGGGTGATGAAGGAAAGCTTTATGTTCCTCAAGAGCTAGTATCAGTCTATCGTGAGAAG
upper sequence: GRMZM2G069758_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G04360.1 (Glycine max), 3'ss of exon 5
gtaatcttttctcatcttttgttatttgtatgctt-gcttcttctttaataaatttaatttaacagggacaatttaggtcatagctagagactgactagacatggttaattcttctgtttgctaattgcaaacatgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGCTAATATCTGTTTATCAACAGAAG-
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--------------------gacacttgaacctcaagcttgtttttttctttttttctttttagaaaataaatc-----catatatgtatatttac---atttaatcaaat--tgtgcttccttgt-------------cagtATGTGATCCAGTGATGGGTGATGAAGGAAAGCTTTATGTTCCTCAAGAGCTAGTATCAGTCTATCGTGAGAAGGMapped 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|211278750|gb|FL388232.1|FL388232EST: GCTACAAGTTGTTGAGAAATTGCGATCAGTTAATCCTGATCTTGTATATG TTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGC
genomic: GCTACAAGTTGTTGAGAAATTGCGATCAGTTAATCCTGATCTTGTATATGgtaatctttt ... catgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGC
EST:
gi|60397480|gb|DN230296.1|DN230296EST: GCTACAAGTTGTTGAGAAATTGCGATCAGTTAATCCTGATCTTGTATATG TTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGC
genomic: GCTACAAGTTGTTGAGAAATTGCGATCAGTTAATCCTGATCTTGTATATGgtaatctttt ... catgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagactgactagacatggttaattcttctgtttgctaattgcaaacatgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGCTAATATCTGTTTATCAACAGAAG
tgctaat putative branch site (score: 2)
ttaattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcttttctcatcttttgttatttgtatgcttgcttcttctttaataaatttaatttaacagggacaatttaggtcatagctagagactgactagacatggttaattcttctgtttgctaattgcaaacatgctgcagTTTGTGACCCAGTTCTAGGTGATGAAGGAAAACTATATGTTCCTCAGGAGCTAATATCTGTTTATCAACAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT