Sequence
atgc intronic sequence ATGC exonic sequence...caattggtgggtatatggtcaaagtgcctctttatacacttataagaatattttctcattatcactattacaaaataatgttagcataatgttgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGTGGTATTGGTTCATTGAATTTTGTAATGGGCAATAAG
Basic information
species | Glycine max |
transcript | GLYMA17G18160.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G18160.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g46450.1 (Oryza sativa), 3'ss of exon 5
caattggtgggtatatggtcaaagtgcctctttatacacttataagaatattttctcattatcactattacaaaataa---tgttagcataatgt-tgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGTGGTATTGGTTCATTGAATTTTGTAATGGGCAATAAG
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-----------------------------------gttagtagagcagtttccattcagaacgttttttaaaaaagaagaatttcaagctgatgtctatcacagGTTGCAAGCCTTCTACATGATGATGTACTGGATGATGCTGACACTAGGCGTGGCGTCAGTTCGTTGAATTGCATTATGGGGAACAAG
upper sequence: GLYMA17G18160.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G34630.2 (Arabidopsis thaliana), 3'ss of exon 5
caattggtgggtatatggtcaaagtgcctctttatacacttat--aagaatattttctcattatcactattacaaaataatgttagcataatgttgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGTGGTATTGGTTCATTGAATTTTGTAATGGGCAATAAG
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----------gtgagtaactatagttttactcataacattcattaaagatcaagatccagtatcctcccttttaaaatta-gtaatgctcgggtcattgtagGTCGCAAGTCTACTGCACGATGATGTCTTGGATGATGCCGATACAAGGCGTGGTGTTGGTTCCTTAAATGTTGTAATGGGTAACAAG
upper sequence: GLYMA17G18160.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0024g00850.t01 (Vitis vinifera), 3'ss of exon 5
--------caattggtgggtatatggtcaaagtgcctctttatacacttataagaatattttctcattatcactattacaaaataatgttagcataatgttgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGTGGTATTGGTTCATTGAATTTTGTAATGGGCAATAAG
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ttttagctaaagctgtgaatattcaactataatgtgaactttt---cttcttgaggcactttgttatttcc-----ttcaaactaagttgtttgtttccctattttagGTGGCTAGCCTTCTTCATGATGATGTCTTGGATGATGCTGAAACGAGACGTGGTATTGGTTCATTAAATATTATGATGGGCAATAAGMapped 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|14989966|gb|BI315639.1|BI315639EST: AAATAACAGAGATGATTCAT GTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGT
genomic: AAATAACAGAGATGATTCATgtaagtcctt ... gttgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatattttctcattatcactattacaaaataatgttagcataatgttgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGTGGTATTGGTTCATTGAATTTTGTAATGGGCAATAAG
attatcactattacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caattggtgggtatatggtcaaagtgcctctttatacacttataagaatattttctcattatcactattacaaaataatgttagcataatgttgtcacagGTGGCAAGCCTTCTTCATGATGACGTATTGGATGATGCGGATACCAGACGTGGTATTGGTTCATTGAATTTTGTAATGGGCAATAAG
- - tggtggg
- - - - - - - - - - - - tgcctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa