Sequence
atgc intronic sequence ATGC exonic sequenceGATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatttatcttctcctttcattgtcatgtgcttctgtgtactggctgttttagaaaattaacttatttactcatccatcag
Basic information
species | Glycine max |
transcript | GLYMA03G33910.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatttatct---tctcctttcattgtcatgtgcttctgtg-ta-ctggctgtt-ttagaaaattaacttatttactcatccatcag----------------
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GATGCTTCAAACTCCTGGTGCAACAAGTTACATGGGTTGCATTGGAAAGGATAAGTTTGGTGAGGAGATGAAGAAGAATGCCCAAGCTGCTGGTGTTACTgttagttctaaatctctctctctctctctctctttttcatggcatctgatgcaataatatcctacagtggcttgtcaactaactaaggtggtcttgctcttgacacacgctcggttag
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g43750.1 (Oryza sativa), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatttatcttct-----cctttcattgtcatgtgcttctgtgtactggctgttttagaaa-attaactt-atttactcatccatcag---
||||||||| |||||||||||||||||||||||||| |||| || ||||| ||||| || || ||||||||||| || || |||||||| |||| | ||| | ||| ||||| || | ||| |||| | ||| | | | || | | | | | ||| | | |||| | |
GATGCTCCAGATTCCTGGTGCAACAAGTTACATGGGTTGCATTGGGAAGGACAAGTTCGGTGAGGAGATGAAGAAAGACGCACAAACCGCTGGTGTTAATgcaagttataagttcctctttatgttttaaatttcttccatttttatgcctcttcactcagttgcaccactgcacatactgccttgaccttaccatctttaaacag
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g43750.2 (Oryza sativa), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatttatcttc-----tcctttcattgtcatgtgcttctgtgtactggctgttttaga-aaattaactt-atttactcatccatcag---
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----------ATTCCTGGTGCAACAAGTTACATGGGTTGCATTGGGAAGGACAAGTTCGGTGAGGAGATGAAGAAAGACGCACAAACCGCTGGTGTTAATgcaagttataagttcctctttatgttttaaatttcttccatttttatgcctcttcactcagttgcaccactgcacatactgccttgaccttaccatctttaaacag
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G089767_T01 (Zea mays), 5'ss of exon 3
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatttatcttctcctttcattgtcatgtgcttctgtgtactggctgttttagaaaattaacttatttactcatccatcag
|||||| ||| ||||||||||| |||||||||| ||| |||| || |||||||||||||| || |||||||| || || || ||||||| | |||||| ||| || | | | || | | | || || | | | || | || || || || |||
GATGCTTCAAATTCCTGGTGCATCAAGTTACATTGGTTGCATCGGGAAGGATAAGTTTGGTGAGGAGATGAAAAAAAATGCACAAGCTGCTGGTATTAATgtaagtt----gtaaggccccttttttttttctttatggcacattacctcatttcacaactagcaactataaccccgccatctatgcaaccag---
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G540538_T02 (Zea mays), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggtt--caatgttatgatttatcttctcctttcattgtcatgtgcttctgtgtactggctgttttagaaaattaactt--atttactcatcca-tcag
|||||| ||| |||||||||||||||||||||||| |||| |||||||| |||||||| || || |||||||| ||| | ||| || || | ||| ||| ||| | || | | | | |||| | || | | | || ||| | || | | | | | || | || | ||||
GATGCTTCAAACTCCTGGTGCAACAAGTTACATGGGATGCATTGGAAAGGACAAGTTTGGTGAGGAAATGAAGAAAAACGCTCAAGCTGCAGGAGTTACTgttagtttttaatctcattgtcttcatgttactttagacagttt-tgttgcaatttattggttaattcactcatatggccttgatgtcgtcgcatactcag
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G135132_T01 (Zea mays), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgt-aggttcaatgttatgatttatcttctcctttcattgtcatgtgcttctgtgtactggctgttttagaaaattaactt----att--tactcatcca-tcag
|||||| ||| |||||||||||||||||||||||| |||| || ||||| |||||||| || ||||||||||| || | ||| || || | ||| || || ||| | || | | | || |||| | || | | || ||||| || | || | | | || || | | | ||||
GATGCTTCAAACTCCTGGTGCAACAAGTTACATGGGATGCATTGGGAAGGACAAGTTTGGTGAGGAGATGAAGAAAAATGCTCAAGCTGCAGGAGTTACTgttagttttaatctcatcttcttcatgctactttagacagta-atgttctgatttattggctaattgactaatgtggccttgatgttggcgcttacctactcag
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv13s0019g04480.t01 (Vitis vinifera), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatt-tatcttctcc-----tttcattgtcatgtgcttctgtgt-----actggctgttttagaaaattaacttatttac--tcatccatcag
|||||| ||| | ||||| |||||||| || ||||| |||| |||||||| ||||||||||| || |||||||| ||||||| ||||||||||| |||||| ||| | | || ||||| | | || ||| || || ||| | | | | |||||| | || | || || || |||||
GATGCTTCAAATCCCTGGAGCAACAAGCTATATGGGATGCATTGGAAAGGACAAGTTTGGGGAGGAAATGAAGAAAAACTCAAAACTTGCTGGTGTTAATgtaagttttttcacttctttacatcttttgcagcttttccatggttatccatctctccattttagattagttgttttgttactgagacctcttaacaatccatgatcag
upper sequence: GLYMA03G33910.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 5'ss of exon 5
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatt-tatcttctcc-----tttcattgtcatgtgcttctgtgtactggctgt----tttagaaaattaacttatttactcatccatcag---
|||||| ||| | ||||| |||||||| || ||||| |||| |||||||| ||||||||||| || |||||||| ||||||| ||||||||||| || ||| ||| | | | || ||||| | | || ||| || || ||| | | | | | ||| | | | | ||| |||||| |
GATGCTTCAAATCCCTGGAGCAACAAGCTATATGGGATGCATTGGAAAGGACAAGTTTGGGGAGGAAATGAAGAAAAACTCAAAACTTGCTGGTGTTAACgtaagttttttcatttctttacatcttttacagcttttccatggttatccatctctccattttagatttgttgttttgttactgagacctcttaacaatccatgatcagMapped 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|26058788|gb|CA801702.1|CA801702EST: ATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAAT GTTCACTATTATGA
genomic: ATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaa ... catccatcagGTTCACTATTATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGCTCCAAGTTCCTGGTGCAACAAGTTACATGGGTGGCATAGGAAAGGATAAGTTTGGGGAAGAGATGAAGAAGAACTCAAGGCTTGCTGGTGTAAATgtaggttcaatgttatgatttatcttctcctttcattgtcatgtgcttctgtgtactggctgttttagaaaattaacttatttactcatccatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC