Sequence
atgc intronic sequence ATGC exonic sequence...tggatgaaatgatgaattctacaattggccctcctgtagaatattttgcattattatatctatactttttttttaataaaacaagtattggtctttgcagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG
Basic information
species | Glycine max |
transcript | GLYMA03G33740.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------------------------------------tggatga-aatgatgaattctacaattggccctcctgta---gaatatttt-------------gcattattatatctatacttt---ttttttaataaaacaagtattggtctttgcagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG
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gtacctgaggtttttggtagtgttttcaattttcattcgatgttgttttcgaggactgtatgtgtagctctggcaagatgagaattctcatttcttttctgtacacacctgcacatgaatattttctcagacaacgcgatgctacaatccttacatgttctattatttgtttattcccacaaatatttctgcagAGTAATCCAGTAGCGAGATGGCATATTGGGCAAGGTGCGATTAATAGCATTGCATTTTCAAATGATGGAGCGTACTTGGCAACTGTTGGAAGAGATG
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G53390.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------------------------------------------------------------------------------------tggatgaaatgatgaattctacaattggccctcctgtagaatattttgcattattatatctatactttttttttaataaaacaagtattggtctttgcagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG
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gtatgtgagtatgcaaccatttcaattgatccttatataggtgcgggaagcacatggtacatgcatatcctctactagtatcatcatttgctagtggttataagaaattattgtattacatactttcttttctatctttgagcatattttgatgtac---tattgtttattcatatgagtattcat----gcagAGTAATCCTGTTGCGAGATGGCATATATGTCAAGGTTCAATTAACAGCATTGCATTCTCAAATGATGGGGCACACTTGGCAACTGTTGGAAGAGATG
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 6
tggatgaaatgatgaattctacaattggccctcctgtag---aatattttgcattattata-tctatactttttttttaataaaacaagtattggtctttg---cagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG
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-------tcctttaacttttagagatgccatatgtagaaggaaaagtactacgcctttagaatttccacctgtcctatctttgcttacatattgtcatttgatgcagAGTAACCCAATTGCCAGATGGCATATTTGCCCAGGTTCAATTAATGGTGTTACTTTCTCAACTGATGGAGCCTATATTGCAACAGTCGGAAGAGATGMapped 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|17023019|gb|BM094053.1|BM094053EST: TTGTAAAGGATCAAACTCAATTTTCGGTTGCCCATGCACGTTACAGTAAG AGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATT
genomic: TTGTAAAGGATCAAACTCAATTTTCGGTTGCCCATGCACGTTACAGTAAGgtattgaatt ... gtctttgcagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcattattatatctatactttttttttaataaaacaagtattggtctttgcagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG
ttttaat putative branch site (score: 3)
tctttgc putative PPT
ttattatatctatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggatgaaatgatgaattctacaattggccctcctgtagaatattttgcattattatatctatactttttttttaataaaacaagtattggtctttgcagAGTAATCCTATAGCCAGATGGCATATATGCCAGGGTTCAATTAATAGTATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
tggatga
- - - - - - tgaattc
- - - - - - - - - - - - - -gccctcc
- - - - - - - - - - - - - - - - - - - - - - - tgcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa