Sequence
atgc intronic sequence ATGC exonic sequencegtttgctttttatgtgtgcgtgtttgtgtgattataggttcacttcatcgtgatttaaattttaaaatgttttctttttgttgttgtaactacaatcaaatcttgtaataagttttttccctttatttttaaatttctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAATTCCCAGTTGGAAGAAGGTGATTGGCCCCAACAG
Basic information
species | Glycine max |
transcript | GLYMA03G27620.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G27620.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 16
gtttgctttttatgtgtgcgtgtttgtgtgattataggttcacttcatcgtgatttaaattttaaaatgttttctttttgttgttgtaactacaatcaaatcttgtaataagttttttccctttatttttaaatttctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAATTCCCAGTTGGAAGAAGGTGATTGGCCCCAACAG
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---------------------------gttattttataca-gtttcatcatcact--aagcttaacttggtca-tctacattatttt---cacaat-atggcttctccccaaacatctgagtctaacctttcctttcta---acagGCTGAGAGAGACCCAACACCTCTTCACAGGGCTGCAAAGTTGTTGATTAATTCCCAAATGGAAGATGGTGATTTTCCCCAACAG
upper sequence: GLYMA03G27620.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 3'ss of exon 16
gtttgctttttatgtgtgcgtgtttgtgtgattataggttcacttcatcgtgatttaaattttaaaatgttttctttttgttgttgtaactacaatcaaatcttgtaataagttttttccctttatttttaaatttctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAATTCCCAGTTGGAAGAAGGTGATTGGCCCCAACAG
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---------------------gttagttt--ttacagttcca--tcatcaatatgcttaccttg----gtcttctac-----attactttcacaatatggcttcttcccaaatatttgagtctaacctttcc-tttcta---acagGCAGAGAGAGACCCAACACCTCTTCACAAGGCTGCAAAGCTGTTGATTAATTCCCAAATGGAAGATGGTGATTTTCCCCAACAG
upper sequence: GLYMA03G27620.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0054g01330.t01 (Vitis vinifera), 3'ss of exon 1
gtttgctttttatgtgtgcgtgtttgtgtgattataggttcacttcatcgtgatttaaattttaaaatgttttctttttgttgttgtaactacaatcaaatcttgtaataagttttttccctttatttttaaatttctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAATTCCCAGTTGGAAGAAGGTGATTGGCCCCAACAG
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-------------------------------ttacag-ttcccccatccataagctaaccttgg-------tcttctacattactttcacaacat----ggcttctccccaaacatctgagtctaacctttccttttta---acagGCTGAGAGAGACCCAACACCTCTTCATAGGGCTGCAAAGCTGTTGATTAATTCCCAAATGGAAGATGGTGATTTTCCCCAACAGMapped 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|15337778|gb|BI498434.1|BI498434EST: ACGTTGTACAAACAGCATGGGCTCTTATGGGTCTAATTTATGCTGGACAG TCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAAT
genomic: ACGTTGTACAAACAGCATGGGCTCTTATGGGTCTAATTTATGCTGGACAGgtttgctttt ... ctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaatcaaatcttgtaataagttttttccctttatttttaaatttctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAATTCCCAGTTGGAAGAAGGTGATTGGCCCCAACAG
tttctat CT-rich tract
taataagttttttccc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgctttttatgtgtgcgtgtttgtgtgattataggttcacttcatcgtgatttaaattttaaaatgttttctttttgttgttgtaactacaatcaaatcttgtaataagttttttccctttatttttaaatttctatgtacagTCAGAGAGAGACCTTACTCCTCTTCATCAAGCTGCAAAGTTGCTCATTAATTCCCAGTTGGAAGAAGGTGATTGGCCCCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG