Sequence
atgc intronic sequence ATGC exonic sequence...agctactgtaaatcatacagaagtttttgctacctttttgtctcaggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g12390.2 (Oryza sativa), 3'ss of exon 5
agctactgtaaatcatacagaagtttttgctacctttttgtctcaggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgca-gCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
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attgttccctttttttgccggcaccagttgtgctagtttgaattagggtacccttcttcag-agttaacacatctaccccttttcctgccattgttaaaagCATAAAAATGAGGTGGTGAATGAGGAACTTTGGAATGAAGCACGAACATATGGAGACATCCAATTGATGCCCTTTGTTGATTATTATAGCCTGATTCTAT
upper sequence: Vv14s0108g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G042607_T01 (Zea mays), 3'ss of exon 3
---agctactgtaaatcatacagaagtttttgctacctttttgtctcaggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
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agtcacttttctatatgttatacttctgccctttactagattgaattagatctcaatttagagtcaat--actcaactgaccctactttgcattgt-taaaagCACAAAAATGAGTTGGTCAATGAGGAACTCTGGAATGAAGCACGAACATATGGAGACATCCAGTTGATGCCATTTGTGGATTACTATAGCCTGATTCTTT
upper sequence: Vv14s0108g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G12030.1 (Glycine max), 3'ss of exon 3
----agctactgtaaatcatacagaagtttttgctacctttttgtctcaggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
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cttttcattctgataaagatcaagatggacatgatattttgctacatttcgaaacatgtaaatttttgctgaat--ttggtcttctgtttgagctta--tgcagCATAAAAGCACTGTAGTTAATGAAGAGTTGTGGAGAGAAGCACAAACTTATGGAGACGTGCAGCTGATGCCATTTGTTGACTACTACAGCCTCATCACTT
upper sequence: Vv14s0108g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G05860.1 (Glycine max), 3'ss of exon 4
----agctactgtaaatcatacagaagtttttgctacctttttgtctcaggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
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cttttcattctgataaagatcaagatggacacaatattttgctacattttgaaacacgtagatgttttctgaat--ttggtcttttatttgagctta--tgcagCATAAAAGCACTGTAGTTAATGAAGAGTTGTGGAGAGAAGCACGGACTTATGGAGACGTGCAGCTGATGCCATTTGTTGACTACTACAGCCTCATCACCTMapped 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|71859857|gb|DT008912.1|DT008912EST: CAGGGGCAGTTGCCGTGCGCTTTTTTGTTGGTCTG CATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATAT
genomic: CAGGGGCAGTTGCCGTGCGCTTTTTTGTTGGTCTGgtaggtttcg ... tttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
ctttgct CT-rich tract
aatattagttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agctactgtaaatcatacagaagtttttgctacctttttgtctcaggtttctcctgaatattagttgaaacatttgtctgaaatttgcactttgctgcagCATAAAAATCAGATGGTGAATGAGGAACTCTGGAAGGAGGTGCAGACATATGGAGACATTCAGCTGATGCCTTTTGTTGACTATTACAGTCTTATAACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- ctactgt
- - - - -aaatcat
- - - - - - - - - - - - - ttgctac
- - - - - - - - - - - - - - - - - - - tgtctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtctga