Sequence
atgc intronic sequence ATGC exonic sequence...gtgaaggatagtttttaaggctttaataacttatcataaactttgttatatgtatagttcacagtttaccagcatagctaatttcccttttgatccacagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g39300.1 (Oryza sativa), 3'ss of exon 9
gtgaaggatagtttttaaggctttaataacttatcataaactt--------tgttatatgtatagttcacagtttaccagcatagctaat--ttcccttttgatccacagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
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------tatcttgttaagaattctaataaattatcacaatcttttacataatagcatgcgtgttgtttacaattaat-atcttagcttacaattttcttccaa---acagTGACCGGCGTTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTGATACGTGAGAAGTTATCCGAACTGCAG
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 3'ss of exon 9
gtgaaggatagtttttaaggctttaataacttatcataaactttgttatatgtatagttcacagtt-taccagcatagctaa---tttcccttttgatcca----cagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
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------agaaaattatggggctaccatactatat-gtggattctatc-tgtgaagaacttttggttatttcaagggagtgaactgttttccttttcatgtgatttcagTGACCGTCGCTTAGCAGATCATTTTGGAGGAAAGCTTCATTTGGGCTATATGCAAATCCGTGAAAAGCTGGCAGAGCTTCAG
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 9
lower sequence: PP1S402_41V6.1 (Physcomitrella patens), 3'ss of exon 9
gtgaaggatagtttttaaggctttaata--acttatcat--aaactttgttatatgtatagttcacagtttaccagcatagctaat---ttcccttttgatcca--cagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
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---------tcttctaatgggttcagaaggacttatcttttagatgctgcacttaatgctgccaagtggtgggtttcatgattagtgccttgctgcttaatactttcagTGACCGTCGCTTGGCGGACCATTTTGGAGGGAAGCTGCATTTGGGTTATATGCAGATTCGTGAGAAGCTCGTTGACTTGCGG
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 9
lower sequence: PP1S88_36V6.1 (Physcomitrella patens), 3'ss of exon 9
gtgaaggatagtttttaaggctttaataacttatcataaacttt----gttatatgtatagttcacagtttaccagcatagc--taatttcccttttgatcca------cagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
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------------ttttctggctttcaaaagacgatattttcttttactgccccacgtgttgctgccaagtagtgggtttcatgatgagttcttttttgcttaatactttcagTGACCGTCGCCTGGCGGACCATTTTGGAGGGAAGCTACATTTGGGTTACATGCAGATTCGGGAGAAGCTTGTTGACTTGCGAMapped 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|50324674|gb|CO519800.1|CO519800EST: AAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG TGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATAT
genomic: AAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAGgtaaattctt ... tgatccacagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATAT
EST:
gi|60347441|gb|DN214414.1|DN214414EST: AAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG TGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATAT
genomic: AAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAGgtaaattctt ... tgatccacagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatatgtatagttcacagtttaccagcatagctaatttcccttttgatccacagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
tttcccttttgatcc CT-rich tract
taattt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaggatagtttttaaggctttaataacttatcataaactttgttatatgtatagttcacagtttaccagcatagctaatttcccttttgatccacagTGACCGTCGCTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTTATACGTGAGAGATTGTCTGAACTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG