Sequence
atgc intronic sequence ATGC exonic sequencegtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaa--ttgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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--------------------------------------------------------------------------------------------------gtatgagtacaatattgaagatgatattgtcttcatgtcgaatataat-tcgatatttcctatttaagtgacaccatctattttttgagcagGCAGAGAGTGCAATAGATCAAATGGATTGGATTGAAAAGATTACTGGTGTCATTGCATCTTTGCTTAGCTCACAATCCCCAGAACAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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-----------------------------------------------gtacaaatattt---accagaaatc---tgttgcatctattttatttagatagatttatattacaggaatttttgaatagctgcca--gatttcttccttcctaatgaca--------tgcacctctatttgg----gcagGCAGAGAGTGCGATGGATCAGATGGATTGGATTGAAAAAATAACTGGTGTCATCGCTTCTTTGCTGAGCTCCCAATCGCCCGAACGG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM5G872204_T02 (Zea mays), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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--------------------------------------------------------------------------------------------------------gtatagcacaagtttatggtctgtcatattgaatatgatcaagacttccatac-ttcatga-acatatctgctattta-tacagGCAGAGAGTGCAGTAGATCAGATGGACTGGATTGAAAAGATAACTGGTGTTATTGCCTCTTTACTGAGCTCACAATCGCCAGAACAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G093670_T01 (Zea mays), 3'ss of exon 4
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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---------------------------------------------------------------------------------------------gtacaccacatgttta-tggtgcagtctgccttattgattctgattaagatttcaatact--ccatgaac-----acatctgctattta-tgcagGCAGAGAGTGCAGTAGATCAGATGGATTGGATTGAAAAGATAACTGGTGTTATTGCCCCTTTGCTGAACTCACAATCCCCAGAACAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G059225_T02 (Zea mays), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaa-atactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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-------------------------------------------------------gtatgaagcttaaatgcatatgttgatatc-tgtttctttatacaggatgatgttatatgaagctgttcaatagacatacttgtgatattg-----atttctgtctagtgatgtgcattggaaatt--gtgcagGCAGAGAGTGCAATGGATCAGATGGATTGGATTGAAAAAATTACCGGCGTCATTGCTTCTTTGCTGAGCTCCCAGTCTCCTGAACGA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatg-gttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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-----------------------------------------------------------------------------gttatttaatgtgttttttggatttttttttaattcata------caaggatggtgattaaagctttat--agtttcattccttaat--------tatgcttgtcagtgcagGCAGAGAGTGCGCTGGACCAAATGGATTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAGATTCCTGATAGG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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----------------------------------------------------------------------------------------gttatttaatgtgttctttagatttttttaattcatacatggatggtgattaaagcttta-tagt-----ttcattccttaattatgcttgtcagtgcagGCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G13300.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
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----------------------------------------------------------------------------gtttgattcagagt---gtttgttactgccttaaaactttattgt-atacatgtttgcccaagttt-----aatagttttcactcagtgtttacttatgtttgtcagtgcagGCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGMapped 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|110724222|gb|EE099871.1|EE099871EST: TCAGGTTTTGTTTCAGGATTATTTCTCCAACGAAGAACTATACTTTGCAG GCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTT
genomic: TCAGGTTTTGTTTCAGGATTATTTCTCCAACGAAGAACTATACTTTGCAGgtaaatctta ... gtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
attaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatcttacagcttaggttgcactcatgaagttcagtttacttctttgaaattatttgatacctgaaactgtatttttgcttgatggttctgtgaaatactgatggaatggtgaattgttaagtgttattattgatttttttctcactagtgctcattaatgttgtacatttgcttgtcagcacagGCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG