Sequence
atgc intronic sequence ATGC exonic sequencegcaaattccaactctcactaactctaattttcttttctttcctcactctcgtgcccatattcctttttttttttgtccttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGCACAATTTTGGTTCATGGTTTTTCCAGAGTTGTCTTTGAAGTCCTAAAAC
Basic information
species | Glycine max |
transcript | GLYMA03G42430.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G42430.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g31380.1 (Oryza sativa), 3'ss of exon 2
gcaaattccaactctcactaactctaattttcttttctttcctcactctcgtgcccatattcctttttttttttgtc------cttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGCACAATTTTGGTTCATGGTTTTTCCAGAGTTGTCTTTGAAGTCCTAAAAC
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----------gttatctagaattataatatagttttttttatataaatgagactttccacctttagctaatttcgtggaacaatgtttgtgcagGCTCGTAAGACAATTGCAATGCTCAGCCAGGATTTTATTTCAGATGGTTGTACTATTCTGGTACATGGTTATTCCAGAGTTGTTTTGGAAGTTCTAAAGC
upper sequence: GLYMA03G42430.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G53880.1 (Arabidopsis thaliana), 3'ss of exon 4
gcaaattccaactctcactaactctaattttcttttctttcctcactctcgtgcccatattcctttttttttttgtccttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGCACAATTTTGGTTCATGGTTTTTCCAGAGTTGTCTTTGAAGTCCTAAAAC
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----gtcagtgttctcttcgaa-cgggaattgtttacataaatagttagtagaagaagagtttgaacagtaactggaaat-tttgcagGCCCGAACGATAATTGCAATGCTTAGTCAAGATTTCATATTTGATGGGTGTACTATTCTGGTCCATGGTTTCTCCAGAGTTGTGTTTGAAATACTAAAGA
upper sequence: GLYMA03G42430.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g00390.t01 (Vitis vinifera), 3'ss of exon 5
----------------------------------------------gcaaattc-caactctcactaactctaattttcttttctttcctcactc---tcgtgcccatattcctttttttttttgtccttctttg-cagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGCACAATTTTGGTTCATGGTTTTTCCAGAGTTGTCTTTGAAGTCCTAAAAC
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gtatattgattatatatttatttttttccctttttccatggtaataattgtttcactattgtgtcatgttgcaattatccccaatgcaaatattcaaattaagcacaaaaacctttcaacttaccccttatattgacagGCACGCAGAATCATTGCAATGCTTGGTCAAGATTTTATATTTGATGGTTGTACCATTTTGGTGCATGGTTTCTCTAGAGTTGTCTTGGAAGTTCTGAAGAMapped 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|254329054|gb|GR833426.1|GR833426EST: AGTCTCGCTTGATCGAGCGCGCTGAGAAGTTTGGAGAAATCTCCTACAAG GCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGC
genomic: AGTCTCGCTTGATCGAGCGCGCTGAGAAGTTTGGAGAAATCTCCTACAAGgcaaattcca ... ttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGC
EST:
gi|254329055|gb|GR833427.1|GR833427EST: GAGAAGTTTGGAGAAATCTCCTACAAG GCCCCCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGC
genomic: GAGAAGTTTGGAGAAATCTCCTACAAGgcaaattcca ... ttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctttcctcactctcgtgcccatattcctttttttttttgtccttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGCACAATTTTGGTTCATGGTTTTTCCAGAGTTGTCTTTGAAGTCCTAAAAC
tcctcac putative branch site (score: 2)
ctctcgtgcccatatt CT-rich tract
atattccttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaaattccaactctcactaactctaattttcttttctttcctcactctcgtgcccatattcctttttttttttgtccttctttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGCACAATTTTGGTTCATGGTTTTTCCAGAGTTGTCTTTGAAGTCCTAAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG