Sequence
atgc intronic sequence ATGC exonic sequence...ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgttgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
Basic information
species | Glycine max |
transcript | GLYMA11G02520.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 5
----ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgttgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
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gaagttgcatgatagcatctaggatttcattaatgagttatttatgtaccacttttgattttcttttttggcttcacttattatttgtgcccca----atacagGTTGATGATAAGCTTTATATATACTTGGAGTATGTATCTGGTGGATCTATCCATAAACTTCTACAAGAGTATGGACAGCTTGGTGAACAAGCAATACGCA
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 3'ss of exon 5
ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgttgatacttcagattgtttt-----tagtgattcatggttc-tttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
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----ccacattctgcagaattttacga-acttcacttttgcttgcac-tcctgactcctctgtttactttaaaaataactatacactatccatttattcaaaacagGTTGATGATAAACTTTATATATACCTGGAGTATGTTTCTGGTGGATCCATCCATAAACTACTCCAGGAGTATGGGCAATTTGGTGAACCTGCTATCCGCA
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgt-tgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
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gtaagttttacagatatttcttggacatttc-tgttctctgatactatcaactgtttcagctcaaccaagtcatgcacatgactagattctttacttt----cccctcccaat--tcagGTCGATGACAAGCTGTATATATATCTGGAGTATGTCTCCGGTGGTTCGATCTATAAACTTCTTCAAGAGTATGGACAATTTGGTGAGAATGCCATTCGTA
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
--ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgttgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
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tcctttgaagcttcatctgcattacattatattagaacactagatggcga--ttgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTAMapped 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|13478024|gb|BG507669.1|BG507669EST: TAAGTCACCTGCGGCATCCAAATATAGTCCAATATTATGGATCTGAGACG GTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTTAATC
genomic: TAAGTCACCTGCGGCATCCAAATATAGTCCAATATTATGGATCTGAGACGgtatatttat ... taataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatgttgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
tgttgat putative branch site (score: 4)
ttctttat putative PPT
ttctttataataaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgttgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
- - - - - - - - - - - - - - - - - - - - - - - gatgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcatgg