Sequence
atgc intronic sequence ATGC exonic sequencegtttctctatatctgtttcccttttaaacttagtaaacttcaggaactaactttggtttcttttatgtccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
Basic information
species | Glycine max |
transcript | GLYMA07G30050.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g16900.1 (Oryza sativa), 3'ss of exon 7
gtttctctatatctgtttcccttttaaacttagtaaacttcaggaactaact--ttggtttcttttatgtcctta-agGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
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gtatgctcagttcaaataatctggattctccacacagcttcagcttcattccagctgaaactctgcatattgtaatagGCCTTTGCTCGTTTGAGTGCTGTTTATGGTGGCACATACATGCTAAACAAAGCAGAATGCAAG
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G084440_T01 (Zea mays), 3'ss of exon 7
----------------------------------------------------------------------------------------------------gtttctctatatctgtttcccttttaaacttagtaaacttcaggaactaactttggtttcttt--tatgtccttaa-gGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
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gtaataatttaataataataataataataataataataataataataataataataataataataataataataataataataataataataataataataatactttttaggcttcgttattgtaaactgaaacgtcgatacgatgatgctttcttttatttgtcatgaaatcaaagGCCTTTGCCCGCCTGAGCGCTGTTTACGGTGGCACGTACATGCTGAACAAGCCAGAATGCAAG
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 6
gtttctctatatctgtttcccttt-taaacttagtaaacttcaggaactaactt----tggtttcttttatgtccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
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gtttgttttcatctgtaattttgtgtatatgtagggagctatattgatttgcttcacatggtttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAGMapped 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|192300573|gb|FG987940.1|FG987940EST: GAGGTTCACCTTACATATATCCACTATATGGACTGGGAGAGTTGCCTCAG GCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAG
genomic: GAGGTTCACCTTACATATATCCACTATATGGACTGGGAGAGTTGCCTCAGgtttctctat ... tgtccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttaaacttagtaaacttcaggaactaactttggtttcttttatgtccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
aactaac putative branch site (score: 1)
tttcttttatgtcctt putative PPT
tttcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttctctatatctgtttcccttttaaacttagtaaacttcaggaactaactttggtttcttttatgtccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG