Sequence
atgc intronic sequence ATGC exonic sequencegtcagcattcctttgacattttctgtttcttgtggatgtaaagaaataaatttttaagtaaaactaccttaatgaggttaatttgttaaagttgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACTAATCGGTCAGATGTCTTGGATCCTGCACTTCGCCGGCCAGGAAGATTTG
Basic information
species | Glycine max |
transcript | GLYMA18G07280.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 6
gtcagcattcctttgacattttctgtttcttgtggatgtaaagaaataaatttttaagtaaaactaccttaatgaggttaatttgttaaagttgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACTAATCGGTCAGATGTCTTGGATCCTGCACTTCGCCGGCCAGGAAGATTTG
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---gtaagtctgctgtcaagcacc-tttcctgtgtaagtagcattcttgatcttt-----------ccatgacccattcacatgttggaaacttttctgcagGAGATGGATGGTTTTGACAGCAATTCTGCGGTTATCGTTCTTGGAGCTACAAATCGTGCCGATGTCTTAGATCCGGCCCTGCGTCGTCCTGGGAGATTTG
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 6
gtcagcattcctttgacattttctgtttcttgtggatgtaaagaaataaatttttaagtaaaactaccttaatgaggttaatttgttaa-agttgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACTAATCGGTCAGATGTCTTGGATCCTGCACTTCGCCGGCCAGGAAGATTTG
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------gtaagtttgtaattatgcacttttcctgcc-----agagttgctttcttgatc---tttgcattatcca--tttatatgttgggaactggtttacagGAGATGGATGGTTTTGACAGTAGCTCTGCAGTTATTGTTCTTGGAGCTACCAATCGAGCTGATGTCTTAGACCCTGCCCTGCGTCGGCCTGGGAGATTTG
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 6
gtcagcattcctttgacattttctgtttcttgtggatgtaaagaaataaatttttaagtaa---aactaccttaatg--aggttaatttg-ttaaagttgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACTAATCGGTCAGATGTCTTGGATCCTGCACTTCGCCGGCCAGGAAGATTTG
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--------------------gtaggtttctcctggaagttatctttcagcttctgaaatgttttaaccatttccttgttagtttaatgtgattgaaattgggctgcagGAAATGGATGGATTTGATAGCAACTCTGCTGTTATTGTTCTTGGAGCAACTAATCGTTCAGATGTCTTAGATCCTGCACTTCGCCGCCCTGGGAGATTTGMapped 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|192305728|gb|FG995698.1|FG995698EST: GCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT GAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACT
genomic: GCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACTgtcagcattc ... tgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttttaagtaaaactaccttaatgaggttaatttgttaaagttgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACTAATCGGTCAGATGTCTTGGATCCTGCACTTCGCCGGCCAGGAAGATTTG
ggttaat putative branch site (score: 4)
ttaatttgttaaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagcattcctttgacattttctgtttcttgtggatgtaaagaaataaatttttaagtaaaactaccttaatgaggttaatttgttaaagttgcattgcagGAGATGGATGGGTTTGATAGCAATTCTTCAGTGATTGTTCTTGGAGCTACTAATCGGTCAGATGTCTTGGATCCTGCACTTCGCCGGCCAGGAAGATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA