Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttgaatcatgaatgagaatgagtttgtattgatttgttacattttggttccttgttttttatgtttcacaacttcattgtactttgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
Basic information
species | Glycine max |
transcript | GLYMA14G08070.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 3'ss of exon 1
gtatgtttgaatcatgaatgagaatgagtttgtattgatttgttacatt---ttggttccttgttttttatgtttcacaacttcattgtactttgttg-tgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
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-----gttgctgcccgcttcttcttcttcttct-tcggttcttcccattacccccccccccctttttttttgtcccgaatctgaacgacgcgctgctgctgcagTTCTCGGTGTTCGGATCGCTGTCCAACGTCGGCGCCATGGTTGGGGCGATTGCCAGTGGTCAGATGGCCGAGTACATTGGGCGCAAAGGG
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G19450.1 (Arabidopsis thaliana), 3'ss of exon 2
----gtatgtttgaatcatgaatgagaatgagtttgtattgatttgttacatttt---ggttccttgttttttatgtttcacaacttca---ttgtactttgttgtgc-agTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
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gtatgaaggtcccatctttatttaagaactgttctgttttttttttttttttttgtaaagactcttgttctgtaattttctgacttttaggtttcttgtttgatgttttagTACTCTGTGTTTGGGTCTCTATCCAATGTGGGTGCTATGGTTGGAGCAATTGCGAGTGGTCAGATTGCTGAATACGTTGGACGGAAAGGG
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G75220.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgtttgaatcatgaa-tgagaatgagtttgtattgatttgttacattttggttccttgtttt-ttatgtttcacaacttcattgtactttgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
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----------gtaatggactgatcattgtctagagctgtctggttt--ttatcattgcttgtttagccgtgtttgactttgatgtaccactccatgttttagTACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGG
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 2
gtatgtttgaatcatgaatgagaatgagtttgtattgatttgttacattttggttccttgttttttatgtttcacaacttcattgtactttgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
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---------------------gtgtgaatctctggcgctttaattccgtttgg------atttgtttcaatttagtgcgtaactgactttcttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGGMapped 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|213618156|gb|DB965313.1|DB965313EST: CACCTACACAATCTGCTATCATCAATGACCTAGGCCTCTCAGTCTCTGAG TTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATA
genomic: CACCTACACAATCTGCTATCATCAATGACCTAGGCCTCTCAGTCTCTGAGgtatgtttga ... tgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttggttccttgttttttatgtttcacaacttcattgtactttgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
ctttgtt CT-rich tract
ttgttttttatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttgaatcatgaatgagaatgagtttgtattgatttgttacattttggttccttgttttttatgtttcacaacttcattgtactttgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG