Sequence
atgc intronic sequence ATGC exonic sequencegtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
Basic information
species | Glycine max |
transcript | GLYMA12G14060.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G06310.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
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-----------------------------gtatatgctataccttggaacttggaacaaatgcttaggataaattttctcatgtttgtggcaatgtattctatttgtttcagAGATTTGGAGCATTCTTGGCCCCTTTGACATCTGGTCGTGTCACAATTGCTTCAAGTGCAATTTATTCTGCAAAG
upper sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0028g02660.t01 (Vitis vinifera), 3'ss of exon 5
gtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
|| || |||||| | || |||| ||| | | | | ||| || | || | | || | | | || ||||| ||| || | ||||||||||| || ||| ||||||||||||| || ||||||||||||||||| ||||| |||||| || |||
gtaat--aatttttctggtag-caatatcttctgatggcaa---aagggtctctgactttctgttgaagtagtgattttctaaacctt----atatgtgattatt-tttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCAACCAGTGCGGTTTACTCATCAAAG
upper sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ04838 (Selaginella moellendorffii), 3'ss of exon 6
gtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
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--------------------------------------------gtaaggttttttgttct--ctgagctgttacttttcttatcttcctgtg-atattattc-------agAGGTTTGGTGCTTTCATGGCTCCTCTAACGTCTGGACGTGTTACCATTGCTGTCAGTGCTGTTTATCAATCAAAG
upper sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ13387 (Selaginella moellendorffii), 3'ss of exon 6
gtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
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--------------------------------------------gtaaggtgttttgttct--ctgagctggtacttttcttatcttcctgtg-atattattc-------agAGGTTTGGTGCTTTCATGGCTCCTCTAACGTCTGGACGTGTTACCATTGCTGTCAGTGCTGTTTATCAATCAAAGMapped 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|192326408|gb|FK017695.1|FK017695EST: ATGTTTCACCAAGTGGTGAATATTTGAGTGCAATAAAAAATGCAGATCAG AGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCT
genomic: ATGTTTCACCAAGTGGTGAATATTTGAGTGCAATAAAAAATGCAGATCAGgtgatttgct ... cttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
ttcttgctcc CT-rich tract
atatctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT