Sequence
atgc intronic sequence ATGC exonic sequencegtacgtatgttgtggacattattgctgaagtaatttttgcttgtgatgtggttgggaatatgttaattggagctgtgtgttaattcagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTTGTGGCCGACTATGTCGAAGT
Basic information
species | Glycine max |
transcript | GLYMA14G40320.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G40320.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 5
---------gtacgtatgttgtggacattattgctgaagtaatttttgcttg--tgatgtggttgggaatatgtt-------aattggagctgtgtgttaatt---cagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTTGTGGCCGACTATGTCGAAGT
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gtactgccttttcatctttccagctgattactgcactcacaatatttgtttatttataataataaagattatcctctcaaataatttgaactgtttgatatttttgcagCTTTTGTGGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCTGTGTACTTGGTTGCTGACTATGTTGAAGT
upper sequence: GLYMA14G40320.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 5
gtacgtatgttgtggacattattgctgaagtaatttttgcttgtgatgtggttgggaatatgttaa---ttggagctgtgtgttaattcagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTTGTGGCCGACTATGTCGAAGT
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----gtacgttacttatgtggtgat--acgttgtcctgcataatagtatggatcaataaattccatatttctaagatcttgcctttcgcagCTTTTGTTGAGAAAATGCAATCAAGTGGGGATTTGAACCTTATTGGACAATTTGGAGTTGGATTCTACTCTGCCTATCTTGTTGCTGACTACATTGAAGT
upper sequence: GLYMA14G40320.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 5
gtacgtatgttgtgga-----cattat----tgctgaagtaatttttg---cttgtgatgtggttgggaat---atgttaattggagctgtgtgttaattcagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTTGTGGCCGACTATGTCGAAGT
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gtatctttattttgcaatgtctaatatcttgttctgaaatgaattctgaagtttggggtttaatgaattattgaatattaatttatattttctttta-tatagCTTTTGTGGAGAAAATGCAAACCAGTGGGGATCTTAATCTCATTGGACAATTTGGAGTTGGGTTCTACTCTGTATATCTTGTTGCAGACTATGTTGAAGTMapped 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|193378478|gb|FK343783.1|FK343783EST: TTGATAAAGAATTTGGGGACAATAGCGAAATCTGGAACTTCTG CATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGT
genomic: TTGATAAAGAATTTGGGGACAATAGCGAAATCTGGAACTTCTGgtacgtatgt ... gttaattcagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgcttgtgatgtggttgggaatatgttaattggagctgtgtgttaattcagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTTGTGGCCGACTATGTCGAAGT
tgttaat putative branch site (score: 3)
aatatgttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtatgttgtggacattattgctgaagtaatttttgcttgtgatgtggttgggaatatgttaattggagctgtgtgttaattcagCATTTGTTGAGAAGATGCAAACAAGTGGAGATCTCAATCTGATTGGGCAGTTTGGAGTCGGCTTCTACTCTGTTTATCTTGTGGCCGACTATGTCGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG