Sequence
atgc intronic sequence ATGC exonic sequence...tttcacgtttaatagtggaactcttttcatgatgacaatctttgcaaagttttaagccagacttgggtttggtgtttgacatgtttattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AC218972.3_FGT001 (Zea mays), 3'ss of exon 5
-tttcacgtttaatagtggaact-cttttcatgatgacaatctttgcaaagttttaagccagacttgggtttggtgtttgacatgtttattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
| | | | || | | || | |||| | | | ||| | || | | | || |||| || ||| | ||| || || |||||| ||||||| | ||||| |||| ||||| ||||||||| || |||||| || ||||| |||| || ||||| || |||||||||||||||||||
gaaaagagatggactatataattacattccttgataaataaagtaataaaatgttta-ctttatctgaatttgttgccatgtgtgtgt-tttctttttgcagCAATTTGAATGGTTAGTTGGAACACAGTACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCCCCATGGGCCATTGATTCTT
upper sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 5
----tttcacgtttaatagtggaactcttttcatgatgacaatctttgcaaagtttt-aagccagacttgggtttggtgtttgacatgtttattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
| | | | || ||| ||||| | | | || | | | || ||| | ||| | || |||| || | || ||||||||| |||||||||||| |||||||||||||||||||||||| ||| || ||||||| ||||| | ||| ||||| |||||||||||||||||||
cccttgtaatgatttgatctgggcttctttattttaaaataaaggatatggaatagggaaaccaaaattgtcctcacaagttttcatgcttcctgttc-----agCAATATGCATGGCTTGTTGGATCACAATACAAACCAATGGAGTTGGCAAAATCAGACTGGGATGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTT
upper sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G47590.1 (Glycine max), 3'ss of exon 5
---tttcacg-tttaat---agtggaactcttttcatgatgacaatctttgcaaagttttaagccagacttgggtttggtgtttgacatgtttattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
| | | | ||| || | | | ||| | || | | | | || || ||| | ||| | || |||| || | || ||||||||| |||||||||||| |||||||||||||||||||||||| ||| || ||||||| ||||| | ||| ||||| ||||||||||| |||||||
ccttgtaatgatttgatctgggctaagttaattttaaaataaaggatatggaatagga--aaaccaaaattgtcctcacaagttttcatgcttcctgttc-----agCAATATGCATGGCTTGTTGGATCACAATACAAACCAATGGAGTTGGCAAAATCAGACTGGGATGCAATTAAGAAGTCTCCTCCATGGGCCATAGATTCTT
upper sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G36180.1 (Glycine max), 3'ss of exon 5
--tttcacgtttaatagtggaactcttttcatgatgacaatctttgcaaagttttaagccagacttgggtttggtgtttgacatgtttattttttct-tctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
| | | | ||| | |||| || | || | || || ||| | | | | | | || |||||| | ||||||||| ||||||||||| |||||||||||||||||||| || ||| ||||||||||| ||||| | ||| ||||| |||||||||||||||||||
gaccttgcaaggatttgtgaggcatttttattgttttaaaaaataaaaagaattcaagt---agtgaaacctaatatatattcctcacatgttttctattcagCAATATGCTTGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTT
upper sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 3'ss of exon 5
---tttcacgtttaatagtggaactcttttcatgatgacaatctttgcaaagttttaagccagacttgggtttggtgtttgacatgtt-tattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
| | | | || | | |||| | | ||| || | |||| ||| ||| | |||| || | ||| || || |||| |||||||||||| || || |||| ||||| |||||||| || | |||||||| |||| || || ||||||||||||||||||||||||||||| |
atgtagtatcatagaccttgttcatatgttcagggtaggaatacctgtcagtatttatt----gcttttttttcatctttgcttccttatttttcttgttttagCCATATGAATGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTMapped 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|161720124|gb|FC066744.1|FC066744EST: TTCTATCTGAGTTTGATGGCCATAGCGAAGCTGCTACTGGGCCCTTGTTG CAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAG
genomic: TTCTATCTGAGTTTGATGGCCATAGCGAAGCTGCTACTGGGCCCTTGTTGgtaatcaatt ... tttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAG
EST:
gi|122688567|gb|EC921023.1|EC921023EST: TTCTATCTGAGTTTGATGGCCATAGCGAAGCTGCTACTGGGCCCTTGTTG CAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAG
genomic: TTCTATCTGAGTTTGATGGCCATAGCGAAGCTGCTACTGGGCCCTTGTTGgtaatcaatt ... tttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagttttaagccagacttgggtttggtgtttgacatgtttattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
gtttgac putative branch site (score: 4)
tgtttattttttcttc CT-rich tract
atgtttattttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcacgtttaatagtggaactcttttcatgatgacaatctttgcaaagttttaagccagacttgggtttggtgtttgacatgtttattttttcttctagCAATATGAATGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTT
- - - - - - - - - - - - - -catgatg
- - - - - - - - - - - - - - - - - - - -ctttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - taagcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacatg