Sequence
atgc intronic sequence ATGC exonic sequence...ccaccctacattggttcaagaaattgtgatactagacaatacttggtgatcacaataactatcttctgagttatgttcacttgctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G115757_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g32526.1 (Oryza sativa), 3'ss of exon 3
ccaccctacattggttcaagaaattgtgata----ctagacaatacttggtgatcacaataactat-cttctgagttatgt---tcacttg----ctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
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---------gtaagtttgatattctgctgtatggcctgttttgtttttatttactggcatcactttatttatgaagcctgtagttcacttggcctctgtcatccatttacagGGAAAACTTACTGATGGAACAGATTTTGATTCTAGCTATGAAAGAGGTGACCCAATCGAATTTGAGTTGGGCACTGGCCAAGTGATCAAAG
upper sequence: GRMZM2G115757_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA03G21680.1 (Glycine max), 3'ss of exon 3
-----ccaccctacattggttcaagaaattgtgatactagacaat-acttggtgatcacaataactatcttctgagttatgttcacttgctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
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tttcaaaactcatcattttgttcatatgatgaggggtcatgtattcacttagttttgttgatcatgttctagcatattatat--attcact----catgtttgcagGGAAAACTCACTGATGGAACTGTTTTCGATTCTAGCTTTGAAAGAAATAATCCAATTGAATTTGAGCTTGGTACTGGTCAAGTGATCAAAG
upper sequence: GRMZM2G115757_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G10750.1 (Glycine max), 3'ss of exon 3
------ccaccctacattggttcaagaaattgtgatactagacaat-acttggtgatcacaataactatcttctgagttatgttcacttgctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
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ttcaaatctcattttatttgttcatgtgatgagga-atcatctactcacttagttttgttgatcatgttcttgcatattatat--attcact----cgtgtttgcagGGAAAACTCACTGATGGAACTGTTTTCGATTCTAGCTTTGAAAGAAATAATCCAATTGAATTTGAGCTTGGTACTGGTCAAGTGATCAAAG
upper sequence: GRMZM2G115757_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT3G25220.1 (Arabidopsis thaliana), 3'ss of exon 3
ccaccctacattggttcaagaaattgtgatactagacaatacttggtgatcac-aataactatcttctgagttatgttcact---tgctgtgatttttt--tacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
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-----ttagtaaaaatgttgatattg-gatagcttagaacaaacaataataatgaatgaatctgatctaaaaaatgcttggcgaataacgtagttctctgttgcagGGAAAGTTAACTGATGGAACTGTCTTTGATTCAAGTTTTGAGAGAGGTGACCCTATTGAGTTTGAGCTTGGAACTGGTCAAGTCATCCCAG
upper sequence: GRMZM2G115757_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv00s0260g00060.t01 (Vitis vinifera), 3'ss of exon 3
-ccaccctacattggttcaagaaattgtgatactagacaatact-tggtgatcacaataactatcttctgagttatgttcacttgctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
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tgtgtactttagcagttcgtaattgatttttgccaaatgctcccattttggtttttcctatatttccttaactgatgtgagtttttgattatctt--ggcagGGGAAACTCACAGATGGAACTGTTTTTGATTCCAGTTTTGAAAGGGGTGACCCAATTGAGTTTGAACTTGGTAGTGGCCAAGTAATTAAAGMapped 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|211211874|gb|FL151949.1|FL151949EST: TACAAGCCGGAATCATGCAGCATTCAAGCTCACAAAGGTGACAAG GGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGAC
genomic: TACAAGCCGGAATCATGCAGCATTCAAGCTCACAAAGGTGACAAGgttaaagttc ... ttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatcacaataactatcttctgagttatgttcacttgctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
caataac putative branch site (score: 2)
tttttttac putative PPT
tgattttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaccctacattggttcaagaaattgtgatactagacaatacttggtgatcacaataactatcttctgagttatgttcacttgctgtgatttttttacagGGAAAACTTACTGATGGAACGGTTTTTGATTCAAGCTATGAAAGAGGTGACCCGATTGAATTTGAATTGGGCACTGGACAAGTGATCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG