Sequence
atgc intronic sequence ATGC exonic sequencegtttgcttgagttgtcctattaaaattctagcattgtacttctacatacgcagctactgaatattcggatttccattcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG
Basic information
species | Glycine max |
transcript | GLYMA01G02760.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 6
-----------------gtttgcttgagttgtcctattaaaattctagcattgtacttctacatacgcagctactgaatattcggatttccattcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG-------------------------------------------------
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gtaagtccaaaagcaaaaactctttaaa--atcttatcaatggttttatattatgtttctttgatggtaacca--gagtttaaaaactgatataac-acagGAAGAGTAGCGGTTTCTCTAGAGGAGCTTCGATATACCGAGGTGTTACAAGGCATCATCAACAAGGACGTTGGCAAGCAAGGATTGGCCGAGTTGCTGGG
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgcttgagttgtcctattaaaattctagcattgtacttctacatacgcagctactgaatattcggat--ttccattcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG-------------------------------------------------
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gtgagaatcaaat-taagatttacatatatgttcttgatttcaaaattggaatatttccaacttttggttaatgtaaatgtttcagGAAAAGTAGCGGTTTTTCGAGAGGAGCTTCAATATATAGAGGTGTCACAAGGCATCATCAACAAGGTCGCTGGCAAGCAAGAATCGGCCGTGTCGCAGGA
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 5
gtttgcttgagttgtcctattaaaattcta--gcattg--tacttc-tacatacgcagctactgaatattcggatttcc--attcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG
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gtataccataacccacctatctgtagtctgttgtatttgttatctcatccataaataaaaattgaacttttatttcttccaaaattttcagGAAAAGTAGTGGCTTTTCAAGGGGAGCTTCCATTTACAGGGGTGTCACAAGMapped 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|17964787|gb|BM271516.1|BM271516EST: GAGGAGATGAAACATGTAACAAAGCAAGAATTTATTGCATCATTGCGGAG GAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG
genomic: GAGGAGATGAAACATGTAACAAAGCAAGAATTTATTGCATCATTGCGGAGgtttgcttga ... attcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcattgtacttctacatacgcagctactgaatattcggatttccattcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG
tttccattctt CT-rich tract
tgaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcttgagttgtcctattaaaattctagcattgtacttctacatacgcagctactgaatattcggatttccattcttgcagGAAAAGTAGTGGTTTCTCCAGGGGAGCTTCCATATACAGAGGTGTTACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT