Sequence
atgc intronic sequence ATGC exonic sequence...ccttgatatttttataattttatattatattctacgaatgtgtctgtatagaggaggggcaatcacatttatttgtgatgttctatataattacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
Basic information
species | Glycine max |
transcript | GLYMA17G20610.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G20610.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 2
---ccttgatatttttataat-tttatattatattctacgaatgtgtctgtatagaggaggggcaatcacatttatttgtgatgttctatataat-tacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
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gtaagtcaggatcttcatgacgctcattctctagttcaccattcaatattt-tccagcaaaaataa-----------------gttctctatcatgtatctacagGTTATTTTAACCCCAACTCATCTTGCTATTGTCATGGAATATGCCTCTGGTGGTGAGCTTTTCGAGAGAATTTGTAAGAATGTACGGTTCAGTGAAGATG
upper sequence: GLYMA17G20610.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
ccttgatatttttataattttatattatattctacgaatgtgtctgtatagaggaggggcaatca-catttatttgtgatgttctatataattacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
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-------------gtgagttgggattgtgatgc-----tgtttctccccagaattccattgttaaacatttttttattcttctttgtatgtcta------gGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
upper sequence: GLYMA17G20610.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G171435_T01 (Zea mays), 3'ss of exon 2
ccttgatatttttataattttatattatattctacgaatgtgtctgtatagaggaggggcaatcacatttatttgtgatgttctatataattacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
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-------------gtgagttgggattgtgatgc-----tgtttctcccccagaattcatttgttaaacacttttgaaat-ttctttgta----tatctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATG
upper sequence: GLYMA17G20610.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 2
ccttgatatttttataatttta-tattatattctacgaatgtgtctgtatagaggagg--ggcaatcacatttatttgtgatgttctatataattacacgc-agGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
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---tgatgagtcagcttttgtagcatcactctttgttattgtacctctttcaaagtggatgatagctaaatttgctattactttcctgga-aatcacactttagGTCATATTAACACCAACCCATCTAGCTATTGTGATGGAATATGCTGCTGGTGGAGAGCTTTTTGAACGTATATGCAAGGCAGGGCGCTTCATTGAGGATGMapped 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|17152867|gb|BM142800.1|BM142800EST: TCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAG GTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGG
genomic: TCATTAATCACAGGTCTCTGAGGCATCCTAACATTGTTAGATTTAAAGAGgttggttatg ... ttacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatagaggaggggcaatcacatttatttgtgatgttctatataattacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
atttatttgtgatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttgatatttttataattttatattatattctacgaatgtgtctgtatagaggaggggcaatcacatttatttgtgatgttctatataattacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG