Sequence
atgc intronic sequence ATGC exonic sequencegtacggtaacccaaaatccttgctaatcttctcattttctccgcataatacagaattttctgggtaattgctacatgttgcttattttcttctctgggtaagttctgacatagattatcatggtttcttttgtttttcctttttgaattttcccagCAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGTGCTGCAAGGTGTTAAGATTAGAAATGATGAAGCTAAAACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G30990.1 (Glycine max), 3'ss of exon 2
gtacggtaacccaaaatccttgctaatcttctcattttctccgcataatacagaattttctgggtaattgctacatgttgcttattttcttc-tctgggtaagttctgacatagattatcatggtttcttttgtttttcctttttgaattttcccagCAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGTGCTGCAAGGTGTTAAGATTAGAAATGATGAAGCTAAAACTT
|||| | || | |||| | |||| | || | || || | ||| || || | | | || || | ||| | || || || | | || | | | ||||||||| |||| |||||||||| ||||||| |||||||||||||||||||| ||||||||||| ||||| || |||||| |||||||||||| | ||| | |
-----gtaatt---attcttcaataatagtatcatctcctaatcctatta----acttttcaggctctta--agaaggaactaatatgcttggtttgtgttgattttaatttaaactgtt--------ttttgttttg-----------tttcttagCAATCAAG---GATCTGCTTTTGATTTTGGGGAGCTGGAGGAAGCAATTGTTCTGCATGGAGTTAAGGGTAGAAATGATGAGGGCAAAGCAT
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G09430.3 (Glycine max), 3'ss of exon 2
gtacggtaacccaaaatccttgcta-atcttctcattttctccgcata---atacagaattttct-----gggtaattgctacatgttgcttattttcttctctgggtaagttctgacatagattatcatggtttcttttgtttttcctttttgaattttcccagCAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGTGCTGCAAGGTGTTAAGATTAGAAATGATGAAGCTAAAACTT
||| | ||| || || |||| | || | | || | || || || | | | || | || || || || || | || | || || | | ||| || ||||| | |||| |||| |||||||||| | ||||| ||||||||||||||| ||||||| |||||||| |||||||| ||||||| |||||||||||||| ||| | |
-----gtattcttcaatgttttctctatctcagggctatcaacacttagaaaaactgagttccttacaaggaatttttattgtatagtgtttcttcatttttatgaattagccttg----------ttttaattttcattttttttacgctttg---tttcttagCAATCAAG---GGTCTGCTTTTGATTTTGGGGAGTTGGAAGAGGCAATTGTTCTGCAAGGAATTAAGATAAGAAATGATGAAGCCAAAGCAT
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G08320.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacggtaacccaaaatccttgctaatcttctcattttctccgcataatacagaattttctgggtaattgctacatgttgcttattttcttctctgggtaagttctgacatagattatcatggtttc--ttttgtttttcctttttgaattttcccagCAATCAAGAAGGATCTGCC---TTTGATTTTGGGGAGCTGGAAGAAGCAATTGTGCTGCAAGGTGTTAAGATTAGAAATGATGAAGCTAAAACTT
| | | |||| | ||| || ||| | | | |||| ||| | ||| || | || || | | || || | ||| || ||||| ||||| || || |||||||| ||||| |||||||||||||| ||||||||||| ||| ||| || || ||||| || |
-----------------------------------------------------ggtctcc-----aatttttcttggtttctgattgtatagttgtagtaacacatgatgaatattctctttgtactaattaaacaatactattaataaatgaaacagTAACCAAGATGGATCGTCCAGTTTCGATTTTGGAGAGCTAGAAGAAGCAATTGTTCTGCAAGGTGTCAAGTATAGGAACGAGGAAGCCAAGCCACMapped 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|161715403|gb|FC065830.1|FC065830EST: CTTCCATATGCAGTTCTTCATGGCATCAGCCCTCCTGCTGCAACTTTCAT CAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGT
genomic: CTTCCATATGCAGTTCTTCATGGCATCAGCCCTCCTGCTGCAACTTTCATgtacggtaac ... attttcccagCAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctgacatagattatcatggtttcttttgtttttcctttttgaattttcccagCAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGTGCTGCAAGGTGTTAAGATTAGAAATGATGAAGCTAAAACTT
ttctgac putative branch site (score: 2)
tttcttttgtttttcc putative PPT
tttcttttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacggtaacccaaaatccttgctaatcttctcattttctccgcataatacagaattttctgggtaattgctacatgttgcttattttcttctctgggtaagttctgacatagattatcatggtttcttttgtttttcctttttgaattttcccagCAATCAAGAAGGATCTGCCTTTGATTTTGGGGAGCTGGAAGAAGCAATTGTGCTGCAAGGTGTTAAGATTAGAAATGATGAAGCTAAAACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC