Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagaaaaagaatccattttctgagaatgctagatactttgtgctgactaaatttgcaatattttgtgtgtttgggtcatatctctacaattaacatcataattgtttcagcaaattggtttctcttggtgcagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTATGAAAAGTTCCAACTGGGGAAGGTCTATTACATATCAAAAGGAGCTCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G08020.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagcagaaaaagaatccattttctgagaatgctagatactttgtgctgactaaatttgcaatattt-tgtgtgtttgggtcatatctctacaattaacatcataattgtttcagcaaattggtttctcttggtgcagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTATGAAAAGTTCCAACTGGGGAAGGTCTATTACATATCAAAAGGAGCTCTAA
|| |||||| | || ||| | || | ||| | || || | || | | | |||| || ||| || | | ||||| ||||| || || |||||||||||||||| ||||||||||||||| ||||| | ||| | |||| ||||| || || ||||| | ||| | || |
--------------------------------------------gtaa-gactaatctgatgatttttctatggttctggattattgtcttagactttatgtggttattgattttt---atttacttatggaaatccagGGAACACAGATTCAGGCAACAATGTTTAACGCAGCTGCAAGGAAGTTTTATGACAGATTCGAGATGGGAAAGGTGTACTATATATCCAGGGGATCACTTA
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G61000.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagcagaaaaagaatccattttctgagaatgctagatactttgtgctgactaaatttgcaatattttgtgtgtttgggtcatatctctacaattaacatcataattgtttcagcaaattggtttctcttggtgcagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTATGAAAAGTTCCAACTGGGGAAGGTCTATTACATATCAAAAGGAGCTCTAA
| | | | ||| | |||| | | | || ||| | | ||| | |||| | | | ||||| |||||||| |||||||| |||||||| || |||||||||||||| | ||| | ||||| |||| ||||| ||||| ||||||| || | ||||
----------------------------------------------gtaagaaagctccttactatctctcaaacttggtataga---caacctttatgcggtttctcattttgtttatttggctgttatc----cagGGAACACAAATTCAAGCAACGATGTTTAATGATGCTGCAAGGAAGTTTTTTGACAGATTCCAGTTGGGAAAGGTTTATTATATATCAAGGGGGTCACTAA
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S257_1V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaagcagaaaaagaatccattttctgagaatgctagatactttgtgctgactaaatttgcaatattttgtgtgtttgggtcatatctctacaattaacatcataattgtttcagcaaattgg-tttctcttggtg-cagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTATGAAAAGTTCCAACTGGGGAAGGTCTATTACATATCAAAAGGAGCTCTAA
| | | | |||| | | || | | |||| | || | | | | | || | | | | || |||||| || |||||||||||||| ||||| ||||||||||| || ||||| || |||||||| | ||||||| |||
----------------------------gtacgttct-cgtcctgtgtttcccctcttcactcaggggagaaggtttaag-cacaatattgttcgaatggttgaatttacctaacgttgtcgaattcctcttgttggcagGGTACACAAATTCAAGCCACAATGTTTAAGGAGGCTGCTGACAAATTCTATGACGTTCTGCAACTGGACAAG----------------------------Mapped 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|33408705|gb|CF214332.1|CF214332EST: ATGCTAGAGGAGAAGGTTGTGTCTTCAATGTAGAGTTAACAGATGAGGAT GGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTAT
genomic: ATGCTAGAGGAGAAGGTTGTGTCTTCAATGTAGAGTTAACAGATGAGGATgtaagcagaa ... cttggtgcagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctctacaattaacatcataattgtttcagcaaattggtttctcttggtgcagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTATGAAAAGTTCCAACTGGGGAAGGTCTATTACATATCAAAAGGAGCTCTAA
aattaac putative branch site (score: 2)
tttctctt putative PPT
aattaacatcataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagaaaaagaatccattttctgagaatgctagatactttgtgctgactaaatttgcaatattttgtgtgtttgggtcatatctctacaattaacatcataattgtttcagcaaattggtttctcttggtgcagGGTACACAAATCCAAGCAACAATGTTTAACGAAGCTGCAAGGAAGTTCTATGAAAAGTTCCAACTGGGGAAGGTCTATTACATATCAAAAGGAGCTCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT