Sequence
atgc intronic sequence ATGC exonic sequencegttacctggttctttgatttcaattctttgttttcatttatagttgatgtcgatttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG
Basic information
species | Glycine max |
transcript | GLYMA12G04210.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04210.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 2
gttacctggttctttgatttcaattctttgttttcatttatagttgatgtcgatttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG
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--------------------------gttgtttttcttaagcttttgactagtttgaagttttgattacta--ttgattttggactcat-tcgttcttcgttttcagCATTACCAAAGAGATATTGTTCGTGGTGTGGAAGGTTATATAGTTACAGGGTCAAAACAAGTTGAAATAG
upper sequence: GLYMA12G04210.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 2
gttacctggttctttgatttcaattctttgttttcatttatagttgatgtcgatttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG
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------------gtta--cacaatgcctcttacttctatgtaactgt--cctgtatatttcttct---------taacctttgt---atatccttttctctcactagCATTTCCAAAGGGATATTGTCCGTGGTGTGGAAGGTTTCATAGTTACTGGGTCCAAGCAAGTTGAAATAG
upper sequence: GLYMA12G04210.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 2
gttacctggttctttgatttcaattctttgttttcatttatagttgatgtcgatttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG
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--------gttgcttaatcc---tcctgtggtt-catttgtgac-----tcaatttgt---ttatttcctcaacttat-aaatttctatatc--att----tttcagCATTTTCAAAGGGATATTGTTCGTGGTGTAGAAGGTTTTATCGTTACTGGGTCCAAACAAGTTGAAATAGMapped 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|4290155|gb|AI441578.1|AI441578EST: CACCAGAAACTTGAGAAACTTTATATATCGACACGTGCGGGGAAG CATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGA
genomic: CACCAGAAACTTGAGAAACTTTATATATCGACACGTGCGGGGAAGgttacctggt ... gtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG
ggctgat putative branch site (score: 4)
tgttttc putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacctggttctttgatttcaattctttgttttcatttatagttgatgtcgatttatcccttctcccctaggctgatcatagctccaaatccaattgtgttttcagCATTATCAAAGGGATATTGTTCGTGGTGTAGAAGGTTATATTGTTACTGGATCCAAGCAAGTGGAAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA