Sequence
atgc intronic sequence ATGC exonic sequence...ttatgtataagttacttagcatttagcaacaatagggggtactagttatttttatgtgctaaaactaatccaatttatactgaaatctctgtatgaatagCCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGATACAATAGCTTTGATGAACTCTACCTTTACTGCTACTATGTAGCAGGGA
Basic information
species | Glycine max |
transcript | GLYMA08G41890.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G41890.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g43130.1 (Oryza sativa), 3'ss of exon 3
------------------------------ttatgtataagttactt--agcatttagcaacaatagggggtactagttatttttatgtgctaaaactaatccaatttatactgaaatctctgtatgaatagCCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGATACAATAGCTTTGATGAACTCTACCTTTACTGCTACTATGTAGCAGGGA
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gtacagccaacaaaaaagctactgtaaaagcaggatatgaagtgcttttaaaagttattagta-cacagtaaattggtgacacgcatttgtctga--tgtttctgcaccgtcgggatctcttttatttacagCCATTCAAAGACATGATTGAAGGAATGAGGCTTGACCTGTGGAAATCAAGGTATAGGAGCTTTGATGAGCTCTACCTCTACTGCTACTACGTTGCTGGCA
upper sequence: GLYMA08G41890.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0028g00960.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------------ttatgtataagttacttagcatttagcaacaatagggggtactagttatttttatgtgc--------taaaactaatccaatttatactgaaatctctgtatgaatagCCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGATACAATAGCTTTGATGAACTCTACCTTTACTGCTACTATGTAGCAGGGA
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gtacatttatatgggctcaaaactgattcacccatcttgcattttagctgctaatcaacctatgaacacgcacacatatgaacatttgatgagtaggtagtacattgtgacag-agcacatattatgggcctttctgtatcatgaatatataaacacttccacatgttaataattttctttttatgcagCCCTTCAAAGACATGATAGAAGGAATGAGATTGGACCTGAGAAAATCAAGATACAACAGCTTTGATGAGCTCTATCTGTACTGCTATTATGTTGCTGGAAMapped 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|11412988|gb|BF424999.1|BF424999EST: ATGATGCTGCCCTCTCAGATACAGTCTCAAAGTACCCAGTTGATATACAG CCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGA
genomic: ATGATGCTGCCCTCTCAGATACAGTCTCAAAGTACCCAGTTGATATACAGgtagaccaca ... gtatgaatagCCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttttatgtgctaaaactaatccaatttatactgaaatctctgtatgaatagCCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGATACAATAGCTTTGATGAACTCTACCTTTACTGCTACTATGTAGCAGGGA
aactaat putative branch site (score: 2)
tctctgt putative PPT
aatttatactgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatgtataagttacttagcatttagcaacaatagggggtactagttatttttatgtgctaaaactaatccaatttatactgaaatctctgtatgaatagCCATTTAAGGACATGATTGAAGGGATGAGGCTTGATCTGAGAAAGTCAAGATACAATAGCTTTGATGAACTCTACCTTTACTGCTACTATGTAGCAGGGA
- - - - - - - - - - - - - - - - - gggggta