Sequence
atgc intronic sequence ATGC exonic sequencegtgagtcgttacttttgcttcagcaatggatacccatcatgtgtttttactcttttttgccttaacgccactggaattgattactcttgtgcctggtgtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 13
gtgagtcgttacttttgcttcagcaatggatacccatcatgtgtttttactcttttttgcc--ttaacgccactggaattgattactcttgtgcctggtgtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
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----gtaagtacttt-gattaggtgacatttagttatctgctcttttccttcttattcattgtttaatataattttgtt--attaatcttgtgtc------agAACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGCGATACATCATTCTACATTCTGAAGTACAAT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 13
gtgagtcgttacttttgcttcagcaatggatacccatcatgtgtttttactcttttttgccttaacgccactggaattgattactcttgtgcctggtgt-agAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
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----gtaagtacttt-gattaggtgacatcta---gttatctgctcttttccttcttattcgttgtttaatttaattttgttatt----tatcttgtgtcagAACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGTGATACATCATTCTACATTCTGAAGTACAAT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 14
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------gtgagtcgtt-acttt------tgcttc-agcaatggatacc--catcatgtgtttttactct------tttttgccttaacgccactggaattgattactcttgtgcctggtgt----agAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
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gtatcccagttaacttggctcagtttattgtaagaagtttacttcaagacatatttggaatagtggaaactaatatcat-tgccttcagtttgaggttttcctcgtttgtttcttctctaatttgtagtgttgctacataacgtttgcagAATCTATATTGGGCTGACAGTGGTGATTTAGTAGCCATTGCTAGTGACACATCATTCTACATCTTGAAATTCAAC
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 14
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------gtgagtcgttacttttgcttcagcaatggatacccatcatgtgtt---tttactcttttttgccttaacgccactgg-aattgattactcttgtgcctggt--gtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
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gtatccaattaccttgtctctgttgtgagaagttagcattcatcactttt-ttccaattctgtcgttacattttattttcagttgaaagttgtcccaattagtgtctttactaactctttactcccatgaaaaatttgcagAATCTTTATTGGGCTGAAAGTGGTGATTTAGTAGCCATTGCTAGTGATACGTCATTCTACATCTTGAAGTACAAT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 14
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 13
gtgagtcgttacttttgcttcagcaatggatacccatcatgtgtttttactcttttttgccttaacgccactgg-aattgattactct---tgtgcctggtgt---agAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
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------------gcatgttctcaaaaagcttacttcacaattac-----caggttttggccacagagaaactaatagttcatttctttgggtggtttcaatatttcagAATCTTTATTGGGCTGATAGTGGTGATTTAGTGGCAATTGCAAGTGATTCATCATTTTACATCTTAAAGTACAATMapped 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|160481629|gb|EY254461.1|EY254461EST: GGCAGAGTGCAGGTTGATACGTCGAATTGACGTGAATGTAAAA AATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCG
genomic: GGCAGAGTGCAGGTTGATACGTCGAATTGACGTGAATGTAAAAgtgagtcgtt ... cctggtgtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCG
EST:
gi|160481610|gb|EY254442.1|EY254442EST: ATGACTGGGCAGAGTGCAGGTTGATACGTCGAATTGACGTGAATGTAAAA AATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCG
genomic: ATGACTGGGCAGAGTGCAGGTTGATACGTCGAATTGACGTGAATGTAAAAgtgagtcgtt ... cctggtgtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactcttttttgccttaacgccactggaattgattactcttgtgcctggtgtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
aattgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtcgttacttttgcttcagcaatggatacccatcatgtgtttttactcttttttgccttaacgccactggaattgattactcttgtgcctggtgtagAATGTATATTGGGCTGACAGTGGTGATTTGGTGACAATAGCAAGCGATTCGTCATTCTACATTTTGAAGTACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG