Sequence
atgc intronic sequence ATGC exonic sequencegtaaataatagtctttttagttgagtcaattgctgaattcatgttctatgttatttgaagttttatttgatgtgaatatttttttgtatattccctttttaagGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGTCCTGATCCTAAGGAGACACACAAGACAATCTCTACACTTGAATATGGAG
Basic information
species | Glycine max |
transcript | GLYMA10G32610.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g56540.1 (Oryza sativa), 3'ss of exon 4
gtaaataatagtctttttagttgagtcaattgctgaattcatgttctatgttatttgaagttttatttgatgtgaatatttttttgtatattccct---ttttaagGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGTCCTGATCCTAAGGAGACACACAAGACAATCTCTACACTTGAATATGGAG
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----gtacaagattctaaaatttcac--attcctcgatacaaatt-tatactgt--aaaattaaagctgctaacgtaatgcctacg-atcttccatgaattttcagGATTCATTTGAGGATGACAAATCAAAAATCTTGATGATTCTCTGTGCAAGTCCTGACCCAAAGGAATTGCACAAGACAGTTTCTACATTGGAGTATGGTG
upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G14330.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaataatagtctt-tttagttgagtcaattgctgaattcatgttctatgttatttgaagttttatttgatgtgaatatttttttgtatattcccttttta-agGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGTCCTGATCCTAAGGAGACACACAAGACAATCTCTACACTTGAATATGGAG
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----gtgaaattcttgttccattgttttatcttctggaaa-atgttttacgtgttgcttggttttcttgaagatatttagtgttgtttctattctctgaatgcagGACTCTTTTGAAGATGACAAGTCAAAGATTCTAATGATCCTGTGTGCGAGCCCGGATCCAAAGGAAATGCACAAGACTCTCTGTACTCTAGAGTATGGGG
upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 4
gtaaataatagtctttttagttgagtcaattgctgaattcatgttctatgttatttgaagttttatttgatgtgaatatttt------tttgtatattccctttttaagGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGTCCTGATCCTAAGGAGACACACAAGACAATCTCTACACTTGAATATGGAG
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gtaaattccattcctagtaccgcaaattttagtggtttacatgttccattttacatt--tttctgtgtgatgtttaatttctgaaaaatttgtatttgtttttgttaagGATTCGTTCGAAGATGATAAATCAAAAATTTTAATGATATTATGTGCAAGCCCTGATCCCAAGGAGATACACAAGACAATCTCCACCCTTGAGTATGGTGMapped 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|7588672|gb|AW704462.1|AW704462EST: GCGATTCACATGTGCCTTTCAGGGACAGCAAACTCACCATGCTTCTGCAG GATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGT
genomic: GCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCATGCTTCTGCAGgtaaataata ... cctttttaagGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttatttgaagttttatttgatgtgaatatttttttgtatattccctttttaagGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGTCCTGATCCTAAGGAGACACACAAGACAATCTCTACACTTGAATATGGAG
atttgat putative branch site (score: 5)
tttttttgtatattcc putative PPT
aagttttatttgatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataatagtctttttagttgagtcaattgctgaattcatgttctatgttatttgaagttttatttgatgtgaatatttttttgtatattccctttttaagGATTCATTTGAAGATGATAAGTCAAAAATTCTAATGATACTGTGTGCAAGTCCTGATCCTAAGGAGACACACAAGACAATCTCTACACTTGAATATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA