Sequence
atgc intronic sequence ATGC exonic sequencegcaacttccaactctcgctgcactctaattttcttttctttcctcactctcttgcccattttcctttctttctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGTACAATTTTGGTTCATGGTTTTTCCAGAGTCGTCTTTGAAGTCCTGAAAC
Basic information
species | Glycine max |
transcript | GLYMA19G45180.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G45180.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G72340.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------gcaacttcc--aactctcgctgcactctaattttcttttctttcctcactctcttgcccattttcctttctttctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGTACAATTTTGGTTCATGGTTTTTCCAGAGTCGTCTTTGAAGTCCTGAAAC
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gtacttccttttatggcttctggctcatatttagtagtttttgtacatatatcaatgaagtagatcaattagtatttgatagaagagggtttataaaggtttggttattgc-gcagGCTCGTAGGATTATCGCAATGCTTAGTCAAGATTTTATATTCGATGGTTGTACCATATTGGTTCATGGACTCTCTAGAGTTGTTCTGGAAATACTTAAGA
upper sequence: GLYMA19G45180.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G53880.1 (Arabidopsis thaliana), 3'ss of exon 4
gcaacttccaactctcgctgcactctaattttcttttctttcctcactctctt--gcccattttcctttctttct-----ttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGTACAATTTTGGTTCATGGTTTTTCCAGAGTCGTCTTTGAAGTCCTGAAAC
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------gtcagtgttctcttcgaacgggaattgtttacataaatagttagtagaagaagagtttgaacagtaactggaaattttgcagGCCCGAACGATAATTGCAATGCTTAGTCAAGATTTCATATTTGATGGGTGTACTATTCTGGTCCATGGTTTCTCCAGAGTTGTGTTTGAAATACTAAAGA
upper sequence: GLYMA19G45180.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g00390.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------------------gcaacttccaactctcgctgcactctaattttcttttctttcctcactctcttgcccattttcctttctttctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGTACAATTTTGGTTCATGGTTTTTCCAGAGTCGTCTTTGAAGTCCTGAAAC
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gtatattgattatatatttatttttttccctttttccatggtaataattgtttcactattgtgtcatgttgcaattatccc--caatgcaaatattcaaattaagcacaaaaacctttcaacttacc---ccttatattgacagGCACGCAGAATCATTGCAATGCTTGGTCAAGATTTTATATTTGATGGTTGTACCATTTTGGTGCATGGTTTCTCTAGAGTTGTCTTGGAAGTTCTGAAGAMapped 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|298192424|gb|HO036506.1|HO036506EST: AGTCTCGCTTGATCGAACGTGCTGAGAAGTTTGGGGAAATCTCCTACAAG GCCCGCAAAGTTAT
genomic: AGTCTCGCTTGATCGAACGTGCTGAGAAGTTTGGGGAAATCTCCTACAAGgcaacttcca ... ctttttgcagGCCCGCAAAGTTAT
EST:
gi|10847206|gb|BF071500.1|BF071500EST: AGTCTCGCTTGATCGAACGTGCTGAGAAGTNTGGGGAAATCTCCTACAAG GCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGT
genomic: AGTCTCGCTTGATCGAACGTGCTGAGAAGTTTGGGGAAATCTCCTACAAGgcaacttcca ... ctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGT
EST:
gi|6135022|gb|AW133415.1|AW133415EST: AGTCTCGCTTGATCGAACGTGCTGAGAAGTTTGGGGAAATCTCCTACAAG GCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATGTGATGGCTGT
genomic: AGTCTCGCTTGATCGAACGTGCTGAGAAGTTTGGGGAAATCTCCTACAAGgcaacttcca ... ctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttcttttctttcctcactctcttgcccattttcctttctttctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGTACAATTTTGGTTCATGGTTTTTCCAGAGTCGTCTTTGAAGTCCTGAAAC
tcctcac putative branch site (score: 2)
ttttctttcctcactc CT-rich tract
tttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaacttccaactctcgctgcactctaattttcttttctttcctcactctcttgcccattttcctttctttctttttgcagGCCCGCAAAGTTATTGCAATGTTGAGTCAGGATTTTATATTTGATGGCTGTACAATTTTGGTTCATGGTTTTTCCAGAGTCGTCTTTGAAGTCCTGAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG