Sequence
atgc intronic sequence ATGC exonic sequenceGAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtctttcttctacttttacacacacctacctgtgccttcattcagctccatcatcatttgtaattgtag
Basic information
species | Glycine max |
transcript | GLYMA07G40210.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os05g34650.1 (Oryza sativa), 5'ss of exon 2
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatcctttt---gtctttcttctacttttacacacacctacctgtgccttcattcagctccatcatcatttgtaattgtag
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GAAATAATGTCCTTCATTAGGTCATATGTTGTACCTGAAGGCTTTCCGGATAGTGTCACTCCTTCATATGTCCCATACATGACATGGAGAGCATTGAAGgtgtattttctggacatgacttggattattat-cactgttgactgtattatcttgctaaatccctactatttctctttttag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os01g66350.1 (Oryza sativa), 5'ss of exon 2
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtctttcttctacttttacacacacctacctgtgccttcattcagctccatcatcatttgtaattgtag----------------
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GAAGTTATGGCATTCATAAGATCATATGTTGTGCCTGAAGGCTTTCCGGATAGTGTTACTCCGTCATACGTCCCATACATGACCTGGAGAGCCCTGAAGgtatatttcggaacttgtgttcacttgtcgtttgtg-acttctgaatcaaat--acatcatgctaacttaaaattattatttttgtatcccttag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G081188_T01 (Zea mays), 5'ss of exon 2
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtctttcttctacttttacacacacctacctgtgccttcattcagctcc-atcatcatttgtaattgtag-----------
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GAAATAATGGCATTCATAAGATCATATGTGGTGCCTGAAGGGTTTCCAGACAGTGTTACTCCTTCATATGTACCTTACATGACCTGGAGGGCTCTGAAGgtata---ttgtcgaacttaca-ttcaacagtcagcttttactgctattctcaagaaccgaccaaagtttaatgtcctgttcactattcag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 2
lower sequence: AC218035.3_FGT004 (Zea mays), 5'ss of exon 2
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtctttcttctacttttacacacacctacctgtgccttcattcagctccatcatcatttgtaattgtag-------
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GAAATAATGTCCTTTATAAGATCATATGTTGTGCCCGAAGGCTTTCCAGATAGTGTCACACCTTCATATGTTCCATACATGACATGGAGAGCATTGAAGgtatattttt-tcattccattatatttggattccatgatctactgtatcgatgcattttatttgattttgcctttctttttctcag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM5G833124_T01 (Zea mays), 5'ss of exon 2
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtc----tttcttctacttttacacacacctacctg--tgccttcattcagctccatcatca-tttgtaattgtag-
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GAAATCATGTCCTTTATAAGATCATATGTTGTGCCCGAAGGCTTTCCAGATAGTGTCACACCTTCATATGTTCCATACATGACATGGAGAGCATTGAAGgtatattttcattacaatatatttgggttccatgatctactggatagatgcatttatttagattttcctttaattttctcttgccag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0035g01870.t01 (Vitis vinifera), 5'ss of exon 2
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtctttcttctacttttacacacacctacctgtgccttcattcagctccatc--atcatttgtaattgtag------------------------------------------------------------------------------------------------
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GAGTTGATGTCATTCATAAGATCCTATGTGGTGCCCGAGGGATTCCCGGATAGTGTTACTCCTTCATATGTGCCATACATGTCATGGAGAGCTTTAAAGgtattctcttacgtttggtgctataccataaaggcgggcttttttaggaaatgagagccatctcatatttggagaacacggatattatgaatattacaaaacattctacgtctaatttatgtgaagtggggttgctgccctaaaatacaatactgatgaatttcatgttcattgtagMapped 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|18041209|gb|BM309503.1|BM309503EST: ATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAG CACTTTTTCGGTGGAGCAATGGGCGTTTTCACCACTCAAACCCTCTTGAGT
genomic: ATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatcctttt ... gtaattgtagCACTTTTTCGGTGGAGCAATGGGCGTTTTCACCACTCAAACCCTCTTGAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGTCCTCTCTTTCGTTACATCCTATGTTGTCCCCGAAGGTTTCCCTGATAGTGTTACTCCTTCTTATGTCCCCTACATGACATGGAGGGCTCTTAAGgtatccttttgtctttcttctacttttacacacacctacctgtgccttcattcagctccatcatcatttgtaattgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG