Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatatagaattttagacatctggcacaaggtctgattaacatgtgcatattctttaactttttcactcttgttctgataaaattttgggccttgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA
Basic information
species | Glycine max |
transcript | GLYMA07G38750.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38750.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G840928_T03 (Zea mays), 3'ss of exon 4
gtatgtatatagaattttagacatctggcacaaggtctgattaacatgtgcatattctttaactttttcactcttgttctgataaaattt--tgggcct-tgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA
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------------------------gtaatacatggagttatttatttgttcttttttctttagctt--cagttatgagtcatttaaactcagtgtgtctgcttttcagGATGGCCTATTTCTTGTAAACAATAACCTTAATCTTGTTGAAGGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTGTTCAGA
upper sequence: GLYMA07G38750.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G840928_T02 (Zea mays), 3'ss of exon 5
gtatgtatatagaattttagacatctggcacaaggtctgattaacatgtgcatattctttaactttttcactcttgttctgataaaattt--tgggcct-tgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA-------------------------------------------
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------------------------gtaatacatggagttatttatttgttcttttttctttagctt--cagttatgagtcatttaaactcagtgtgtctgcttttcaggatggcctatttcttgtaaacaataaccttaatcttgttgaagGAAACCCTCTTGCCATTTTAACACCAAATGTCTATGAGTACAAGCGTCTTGTTCAGAAGGTTCTTAACTGTGACGTAGATGAGGAAAGTGCTTCTGAGCA
upper sequence: GLYMA07G38750.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g02800.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------gtatgtatatagaattttagacatctggcacaaggtctgattaacatgtgcatattctttaactttttcactcttgttctgataaaattttgggccttgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA
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gtatgtattgtagctctgttgttttgttagtgtatacactacttcaatattgcatctttgtgtactctatattattactttcgttgatctttgaccttttgct-tgatga---tatgggtctt---tcagGATGGACTCTTTCTTGTTACAAACAGTCTTGATCTGGTTAGTGGTTATCCCTTAGCAGTCTTAACCCCAAATGTGAATGAATATAAGCGCCTTGTTCAGAMapped 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|151398247|gb|EV268125.1|EV268125EST: AAATCATGAGACATGCAAGACAGTCAAATATCCCAATAGTTATAGATGGG GATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCC
genomic: AAATCATGAGACATGCAAGACAGTCAAATATCCCAATAGTTATAGATGGGgtatgtatat ... cttgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catattctttaactttttcactcttgttctgataaaattttgggccttgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA
ttctgat putative branch site (score: 3)
ccttgtttc putative PPT
ttctgataaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatatagaattttagacatctggcacaaggtctgattaacatgtgcatattctttaactttttcactcttgttctgataaaattttgggccttgtttcagGATGGACTTTTTCTTGTTACAAATAATCTTGAACTTGTTAGTGGCTATGCCTTAGCTGTTTTAACACCAAATGTCAATGAATATAAGCGTCTTGTTCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT