Sequence
atgc intronic sequence ATGC exonic sequenceGGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcacttaagtttaccttgcttctttttttttttccgcaattgcatccggaactgtaacagcattttcattgaatgtcttgtctatctat...
Basic information
species | Glycine max |
transcript | GLYMA04G00250.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G00250.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G088737_T01 (Zea mays), 5'ss of exon 7
GGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcact-taagtttaccttgcttctttt--tttttttccgcaattgcatccggaactgtaacagcattttcattgaatgtcttgtctatctat--------------------------------------------------------
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AGCAATTGCACTGCTCTTCAACTGGGGTTCGTTGAGAGGCCCTATTGCTCAAGAATTGCAGTTCAAGTCAAGTATCCAAGACTTTATTATCTGCATAGAGgtggttaactactattatacgttttcagtatattattcagcatttgtctgtatgggaacctttgctgttagtagtttgaagagggcatgttctgtaggtcaatatttatgcatgcttgcatttgaagtgtacactaacagtcttctgtactgtgtgcag
upper sequence: GLYMA04G00250.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G373717_T01 (Zea mays), 5'ss of exon 6
GGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcacttaagtttaccttgcttcttttttt----ttttccgcaattgcatccggaactgt-aacagcattttcattgaatgtcttgtctatctat----------------------------------------
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AGCAATCGCATTGCTCTTCAACTGGGGTTTGTTGAGAGGTCCTATCGCTCAAGAACTGCAGTTCAAGTCAAGTATCCAAGACTTCATTATCTGCATAGAGgtggttaagtcataatataccttttttcaatacattatttagcattcgttcatatgggaacctctgctgttagtagttggaagagggcatgttcttcatgctcatttgaggtaaaccgtaacagtcttgtgtactatatgtacag
upper sequence: GLYMA04G00250.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G38360.2 (Arabidopsis thaliana), 5'ss of exon 6
GGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcacttaagtttac-cttgc------ttctttttttttttccgcaattgcatccggaactgtaacagcattttcattgaatgtc-ttgtctatctat----------------------------------------------------------------------
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TGCCATTGCTCTCCTCTCTTCCCTCGGCTTGTTCAAAAGTTCAATTGCACAAAGCTTGCAGTTGAAGACTAGCGTGCAAGATTTCATCATTTGCATAGAGgtaaatgtcttctgttgttaccaattcctgcaaaaggttaaacattatgtgtgatctttgtttacgagtgcaaaactttttcttcattgcttcctattaacaagcagtctatggagtcgtctgttttcctttctttaaataaattaaagctcttaacacttgtgctggtccagtgcag
upper sequence: GLYMA04G00250.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G38360.1 (Arabidopsis thaliana), 5'ss of exon 6
GGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcacttaagtttac-cttgc------ttctttttttttttccgcaattgcatccggaactgtaacagcattttcattgaatgtc-ttgtctatctat-----------------------------------------------------------------
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TGCCATTGCTCTCCTCTCTTCCCTCGGCTTGTTCAAAAGTTCAATTGCACAAAGCTTGCAGTTGAAGACTAGCGTGCAAGATTTCATCATTTGCATAGAGgtaaatgtcttctgttgttaccaattcctgcaaaaggttaaacattatgtgtgatctttgtttacgagtgcaaaactttttcttcattgcttcctattaacaagcagtctatggagtcgtctgttttcctttctttaaataaattaaagctcttaacacttgtgctggtccag
upper sequence: GLYMA04G00250.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0038g03670.t01 (Vitis vinifera), 5'ss of exon 7
GGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcacttaagtttaccttgcttctttttttttttccgca--attgcatccggaactgtaacagcattttcattga-atgtcttgtctatctat---
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GGCGATTGCTCTTCTTTATGACCTTGGTTTATTTAAGAGTGCTATTGCTCAAGGCTTACAGTCGAAATCCAGTGTCCAAGACTTCATCATTTGTATAGAGgta---gtttttctctttggctggatctggtttttctttcgctgatgcatgattgtat---gtattatatcagcacattggttgatattccttgaatttttattacMapped 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|21887467|gb|BQ740680.1|BQ740680EST: AAGGCTTGCAGTTCAAGTCAAGTGTCCGAGATTTCATCATTTGCATTGAG ATGGGCATTGCTTCCATAGTTCACCTGTATGTGATTCCAGCAAAGCCTTAT
genomic: AAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtcc ... tcaagcacagATGGGCATTGCTTCCATAGTTCACCTGTATGTGTTTCCAGCAAAGCCTTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCAATTGCTCTCCTATCCACCTTTGGTTTGTTCAAGAGTCCCATTGCTCAAGGCTTGCAGTTCAAGTCAAGTGTCCAAGATTTCATCATTTGCATTGAGgtagatgtccttcacttaagtttaccttgcttctttttttttttccgcaattgcatccggaactgtaacagcattttcattgaatgtcttgtctatctat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccttcac