Sequence
atgc intronic sequence ATGC exonic sequence...gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g41020.1 (Oryza sativa), 3'ss of exon 4
gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgc-cttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
| ||||| | || | | | | ||| | || | || | | | || | || | || || | ||||| | ||||||||||||| ||||| |||||||| || |||||||||||||| |||||||| ||||| ||||| || ||||| || ||||||||||||||||||||||||
acaaagttcttatgtggcatataagtatataacctgtttccgagaatggtcctgt-tgttagcttagcagcttaatcatgatttttctcttttgataccagGGCTTGTGTTGTTGCTAATGATAAGCTACTTGTTATTGGTGGCCAAGAAGGAGATTTTATGGCGAAACCTGGATCACCTATATTTAAATGTGTTAGAAGA
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G06690.1 (Glycine max), 3'ss of exon 4
gggcaacatttatgcttctaggaaatgttttctatatttggttgcat-catactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
|| | || || ||| || | | || || ||| | | || | | | || || | | | | || | ||||||||| | | | |||||| ||| ||||||||||||| ||||| |||||||| |||||||| || || || |||||||| || ||| | ||
-agcctaagaagctttttgtggcaatacttgaaaagtggtgtgatattcattgtcttcaaaaggaagttgtttttcatctaacactagttatttggtgcagGGCTTGCATTGCAGTCAATGATCGACTTTTTGTTATTGGTGGACAAGAGGGTGATTTTATGGCCAAACCCGGTTCGCCTATATTCAAGTGTTCACGCAGG
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G24640.2 (Glycine max), 3'ss of exon 4
gggcaacatttatgcttctaggaaatgttttctat--atttggt-tgcatcatactttataagaagttgctgaagttataaagaaat-tgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
|| | | || | |||| || | | | || | | ||| | | | | ||||||| | || | || | | | || | ||||||||| | | | |||||| ||| ||||||||||||| |||||||||||||| |||||||| ||||| || |||||||| || ||| | |||
---taagaagc-tttttgtgggaatacttggcaagtggtgtgatattcattgtcttcaaaaggaagttgattgtttttcatctaactctagttatttggtgcagGGCTTGCATTGCAGTCAATGATCGACTTTTTGTTATTGGTGGACAAGAAGGTGATTTTATGGCCAAACCTGGTTCGCCTATATTCAAGTGTTCACGCAGA
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G23660.1 (Glycine max), 3'ss of exon 3
gggcaacatttatgcttctaggaaat-gttttctatatttggttgcatcatactttataagaagt---tgctg-----aagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
||| | ||| | | || | |||| ||| ||| | | ||||| | || |||| || |||| | | ||| | | | | |||||||||||| || | ||||| || |||| |||||||||||||||| ||||| |||||||| |||||||| ||||| || || || | |||
-------gtttggggttccaacacattataatctaggttta-ttgaaatgcattttattaagtgtatatgctaccttcaatttattac-atattaatgtcttcgttcagGGCTTGTGTTGTGGTTGATGATCGTCTTTATGTTCTTGGTGGTCAAGAAGGAGATTTTATGGCCAAACCTGGGTCACCTATTTTCAAGTGCTCACGCAGA
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT1G51540.1 (Arabidopsis thaliana), 3'ss of exon 3
gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
|||| | || |||| | | || | | || || | | | | ||| ||| | | | | | || ||||| |||||||| | |||| ||| |||| ||||||||||||||||||||||||||||| || ||||| ||||| || || ||||| | |
--------gttattatcttac--aatgatctttagaccaact---attatggataa--aacatttgacgaaatagcatcgtgttctgtgtgccattgtagGGCATGTGTAGTAGTTGATGACCGACTATTTGTAATTGGTGGTCAAGAAGGTGATTTCATGGCTAAACCTGGATCTCCAATCTTCAAATGCTCACGCCGT
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT3G27220.1 (Arabidopsis thaliana), 3'ss of exon 4
gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgcctttt--acttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
|| || | ||| || | || || | ||| | ||| || | | | || | | ||| | ||||||||||||||||| || |||||||| ||||| || ||||| ||||||||||| ||||||||||| ||| || || || || || || | |||
--------------gttttat--attgtctttagtcactgcctgttttgccttttgttttgagtcccttagggtgctaacattgcggttttacggtgtgtagGGCTTGTGTAGTTGCTAACGATAAACTACTTGTAATCGGTGGCCAAGAAGGTGACTTCATGGCCAAACCTAACTCACCCATCTTCAAGTGCTCACGTAGA
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv09s0054g00620.t01 (Vitis vinifera), 3'ss of exon 4
---gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
| | || ||| || || | | |||| || | | | |||| || | | | ||| |||| | | |||||||||| | || | ||||| | |||||||||||||||||||| || ||||| ||||| || ||||| || ||||| ||||| || | ||
ttctagggagtttcatggttatatg---catagactattgttctccataatttgttacataactagctcaaattttcacttttcaatgttatttttcatgcagGGCTTGTATTGTGGTTGATGATCGGTTACTTGTTATTGGTGGTCAAGAGGGCGATTTTATGGCAAAACCTGGATCACCTATTTTTAAGTGCTCCCGTAGG
upper sequence: GRMZM2G030598_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0171g00320.t01 (Vitis vinifera), 3'ss of exon 4
-----------gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
|| ||| ||| | || | | || || ||| ||| ||| || ||| |||| | | || | | ||| || | ||||||||||| || | ||||| || ||||||||||||||||||| |||||||| ||||| || || || || ||||| || || || | ||
atcaatatattggacaattttttttttttcatgcaa---ttcaaataaatgg----atcctatcctatctatagtttttctaatt-ttgattgtcaaacttctatt---agGGCTTGTGTTGTGGTTGATGATCGGCTTTTTGTTATTGGTGGTCAAGAGGGTGATTTTATGGCTAAACCCGGTTCACCTATTTTCAAGTGCTCACGGAGGMapped 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|74234079|gb|DT641993.1|DT641993EST: GAGAAAGAGTGGAGGAGCGAGAAACCAATACCGCGTGGAGGTCCTCATAG GGCTCGTGTAGTTGCCAATGATCAACTCCTTGTTATTGGTGGTCAA
genomic: GAGAAAGAGTGGAGGAGCGAGAAACCAATACCGCGTGGAGGTCCTCATAGgtctcgaact ... ttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAA
EST:
gi|76013568|gb|DT940738.1|DT940738EST: GAGAAAGAGTGGAGGAGCGAGAAACCAATACCGCGTGGAGGTCCTCATAG GGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGG
genomic: GAGAAAGAGTGGAGGAGCGAGAAACCAATACCGCGTGGAGGTCCTCATAGgtctcgaact ... ttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcatactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
ttgccttttacttcc CT-rich tract
aagttataaagaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggcaacatttatgcttctaggaaatgttttctatatttggttgcatcatactttataagaagttgctgaagttataaagaaattgccttttacttccagGGCTTGTGTAGTTGCAAATGATAAACTCCTTGTTATTGGTGGTCAAGAAGGTGATTTCATGGCCAAGCCTGGGTCTCCTATATTTAAATGTGTTAGAAGA
- - - - - - tgcttct
- - - - - - - - - - - - - - - - - - - tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagaaa