Sequence
atgc intronic sequence ATGC exonic sequence...tagcagtgattagcctttgaatcgaaagattatatttcacttagatattctttctcaatcatttaatttttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
Basic information
species | Glycine max |
transcript | GLYMA03G35020.2 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 13
------------------------------------------tagcagtgattagcctttgaatcgaaagattatatttcacttagatattctttctcaatcatttaatt-tttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
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gtatattgcttcgttttcattactttatcttcactaccttcttaattatgatgggg--tcaaacctagcagttgc-tatctgttacaatttcatatttatttgcgtcataacctttatcttatgattccaccctctattttagGTAGCATTTACGGGGAACTACAGTGAATACTTTGGATTTGCCACTGATGCTGATGCAGTAGTTTACTTGATGCTGGTAAATGATTTAATTCATGGACTTT
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G032628_T01 (Zea mays), 3'ss of exon 13
----------------------------------------------tagcagtgattagcctttgaatcgaaagattatatttcacttag----atattctttctcaatcatttaatttttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
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gtaatttaagctttatgcctgttagtttatcttcacttgctaagtctgactggaatactggattatgcctgggaacta-gttttgtttagtatcatatttgttatatatcattccttcttctaatctaaagtcat-gcattttactttagGTAACATTTACGGGGAACTTCAATGAGTATTTTGGCTTTGCCACCGATGTAGATGCAGTGGTTTACTTGATGCTGGTAAATGATCTAATTCATGGACTTT
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 13
---tagcagtgattagcctttgaatcgaaagattatatttcacttagatattctttctcaatcatttaatttttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
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atgtctccttgtccaactaccaagtccgaga--tagctttc-cttagttgtacatgatgaaagcgataattgatttttctaaaatttctgttatttactgtagGTGACATTCACTGGGAACTATGGCGAGTATTTTGGATTTGCCACTGATGTTGATGCAGTAGTTTACCTAATGCTGGTAAACGATCTTATTCGTGGGCTTT
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 13
--------------tagcagtgatt--agcctttgaatcgaaagattatatttcact-tagatattctttctcaatcatttaatttttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
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gtggtatttttgtatggaattagttttgttctttatgtcactatttgatagtatcctacaaatatgcaaatgcaaaaagatggctttatggaacctaactgctagcgtttgtggcagGTCGAATTTACTGGGAATTACAATGAGTACTTTGGATATTCTACTGATGTTGACGCTGTGGTCTATCTAATGCTGGTGAACGATTTGATTCATGGGCTATMapped 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|207810208|gb|GD781066.1|GD781066EST: TTCGATTTGATGGTGTTACATCAATGATGTACACTCATCATGGATTGGAG GTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTG
genomic: TTCGATTTGATGGTGTTACATCAATGATGTACACTCATCATGGATTGGAGgtacattcta ... gtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctttctcaatcatttaatttttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
atttaat putative branch site (score: 4)
aatcatttaatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagcagtgattagcctttgaatcgaaagattatatttcacttagatattctttctcaatcatttaatttttttcttttgcattattgaatgtgactgtagGTAGCATTTACTGGAAATTACAATGAGTATTTTGGTTTTGCAACTGATGTTGATGCTGTGATTTACCTGATGCTGACTAATGATGTCATTCATGGGCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - gcctttg