Sequence
atgc intronic sequence ATGC exonic sequence...tttaggatttacacaatgtggttaatcactactatgactaggtaccattgtatatgcagttcgtataaatcacatgcctttgccaacaaatattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G015289_T02 (Zea mays), 3'ss of exon 9
-----tttaggatttacacaatgtggttaat-cactactatgactaggtaccattgtatatgcagttcgtataaatcacatgcctttgccaacaaatattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
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aatcattaggtagattttcagcgtacctagtatagaaaaatagcc--gtgttaagataactatagcatttttaa-tgaagggc--ttattgttatatttt-tccagATTCAAAGGGATATTTGTTAGATGAAGATGGGTTTGATTATATGAAATATTCACTTCTAAGGGATATTAAGGCTCAGCAAAAGAGCCTCAA
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G01510.2 (Glycine max), 3'ss of exon 10
----------------------------------------------------------------------------------tttaggatttacacaatgtggttaatcactactatgactaggtaccattgtatatgcagttcgtat----aaatcacatgcctttgccaacaaa--tattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
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gtaattttggtttttatgctgtgtgtattcttttattctatctagaatgaaaacttgtgctttgtacacgagatttttcatatatggtactaattgaatataagattctcatatcatt-ttgagtaccgttgtgtatcctggtcctttcaaagagtttttttttttttttaacaaaagcatctgacagATTCTAGAGGATATTTGGTTGATGAGGATGGATTTGACTACATGAAAATATCATTTTTGAGAGACATCAAAGCTCAACAAAGAAGTTTACG
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G20930.2 (Glycine max), 3'ss of exon 10
----------------------------------------------------tttaggatttacacaatgtggttaatcactactatgactagg-taccattgtatatgcagttcgtataaatcacatgcctttgccaacaaa--tattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
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gtaattttggtttttatgaattgggtgtgtgtgtgggggtgtgggggaggttctgctaagatgcagaatagttctaattgaatctaggattctcctatcatttttaacctggtcctttcaaggagtcttgtttttttaacaaaagcatttgacagATTCTAGAGGATATTTGGTTGATGAGGATGGATTTGACTACATGAAAATATCATTTTTGCGAGACATCAAAGCTCAACAAAGAAGTTTACG
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G28010.1 (Glycine max), 3'ss of exon 1
tttaggatttacacaatgtggttaatcactactatgactaggtaccattgtatatgcagttcgtataaatcacatgcctttgccaacaaa--tattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
||| | | || ||| | | || || || |||||||||| ||| | | || | | || | || ||| ||||||| ||| |||||||| | || |||||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||| |||||||||||
aatagtactaactgaatctaggattctcatatcatt-ctgagtaccattgtgtatcctggtcctttcaagga-gtgtttttttcaacaaaagcatttgacagATTCTAGAGGATATTTGGTTGATGAGGATGGATTTGACTACATGAAAATATCATTTTTGAGAGACATCAAAGCTCAACAAAGAA-------
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G32870.1 (Glycine max), 3'ss of exon 1
tttaggatttacacaatgtggttaatcactactatgactaggtaccattgtatatgcagttcgt----ataaatcacatgcctttgccaacaaatattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
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--tactaattgaatctaggattcttatatcattctt-ctgagtaccgttgtgtatcccggtcctttcaaggagttttttgtttttaacaa-aagcatttgacagATTCTATAGGATATTTGGTTAATGAGGATGGATTTGACTACATGAAAATATCATTTTTGAGAGGCATCAAAGCTCAACAAAGAAGTTTACG
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 10
tttaggatttacacaatgtggttaatcactactatgactaggtacc---attgtatatgcagttcgtataaatcacatgcctttgccaa--caaatattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
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-----gctgctcaaggattagctttctgtgaaaatgatttggttttcggtttgcaatttgattccatagaaagcaaacttttttgctgatgcaaacttcctgcagATTCAAAAGGATATTTGGTGGACGATGATGGATTTGATTATATGAAACTTGCATTCTTGAGAGATATAAAATCTCAACAGAGAAGTCTGAGMapped 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|110374522|gb|EC939340.1|EC939340EST: TGTTACAGAGAAGCTTCTTGCATATGGTGCTCTTCCTATCACGGTATCAG ATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATAT
genomic: TGTTACAGAGAAGCTTCTTGCATATGGTGCTCTTCCTATCACGGTATCAGgtaaattttc ... tattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgtatatgcagttcgtataaatcacatgcctttgccaacaaatattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
aacaaatatt 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
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tttaggatttacacaatgtggttaatcactactatgactaggtaccattgtatatgcagttcgtataaatcacatgcctttgccaacaaatattgtacagATTCAAAGGGTTATTTGGTGGATGAGGATGGATTTGATTACATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - -cacaatg
- - - - - - - - - - - - - - - - - - - - ggtacca
- - - - - - - - - - - - - - - - - - - - - - - - - - tatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcacatg