Sequence
atgc intronic sequence ATGC exonic sequence...ttctttctctttatcacaaacttctctatttattctcctttctctctctctcttctctttctctatgctgtctgctgtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
Basic information
species | Glycine max |
transcript | GLYMA02G08870.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G08870.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g64770.2 (Oryza sativa), 3'ss of exon 5
-----------ttctttctctttat-cacaaacttctctatttattctcctttctctctctctcttctctttctctatgct-gtctgctgtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
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tttctcttctgttccaactagatgtgcctattcttctttattcattcttctatctctctc-ctcttttctttctcggtactcgtctgctgctggg---cctcagGAAG---AACCTAACCGAATTCTGTTAGTAACCATTCATCATATGCTTTACCCTATAACCATTGAAGTGCTTCATCAAGTGTTTTCTCCCTATGGATTTGTGG------
upper sequence: GLYMA02G08870.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g36120.1 (Oryza sativa), 3'ss of exon 5
--ttctttctctttatcacaaacttctctatttattctccttt------ctctctctctcttctctttctctatgctgtctgct-gtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
| | ||| || | |||| ||| ||||| || | |||||||| ||||| | || || || | | | ||| ||| || | || || ||||| ||||||||||| |||| |||||| ||||||||||||| | ||| || ||||||||||| || | |||||| ||
tactgtatcttattgttacaactagatctgcgtattcctctctatttattcttctctctcctctctcttgtcttggtgcttgtttgctgctgggcctcagGAGTCAGAACCCAACCGAATCCTCTTAGTTACTATTCACCACATGATGTATCCTATAACTGTGGAGGTTCTACATCAAGTTTTCAAAGCTTATGGATATG---------
upper sequence: GLYMA02G08870.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G43190.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------------------------------------------ttctttctctttatcacaaacttctctatttattctcctttctctctctctcttctctttctctatgctgtctg-ctgtcggcaactctc------tggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
| | |||| | | | ||||| |||| | | || | ||| ||| | || ||| | | ||||| ||| || || | |||||| |||||| || || ||||||||||| ||| | ||||||||||||||||| || || | || || || |||||||| ||||||||| |||||||||| || |||
gtttgtaattttattagccgtttgattatataagtagcagtgctagttgtgttattgtcttgttatagaggtacttacatttcgtagtggttcttaaccgtca-cttctatattcaattcttttcttttctttctatcttcgttccgtcttttgtctaactggtggttgctgtgggatggtggatgtacagCCGAACCGTATTCTCTTAGTCACAATCCATCACATGCTGTATCCAATTACTGTTGACGTCCTGCATCAAGTTTTTTCTCCCTATGGATTTGTCGAGAAGC
upper sequence: GLYMA02G08870.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
--ttctttctctttatcacaaacttctctatttattctcctttctctctctctcttctctttctctatgctg-tctgctgtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
||||||||| || || | | || ||| | | | | ||| ||||||| || ||||||||| | ||| | ||||| |||||||||| ||||||| ||||||||||||||||||||| |||||||| |||| || |||||||||| ||| ||||| ||||||||||||||||| ||||| |||||||| ||||
agttctttctccttttctctatctgttcttctctatttattctct---tctctctctcctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGAMapped 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|8284184|gb|BE021743.1|BE021743EST: CACATCAAGAACTAACTACAATGGATCAAAATCAAGCACGAGAAGATGAG CCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACA
genomic: CACATCAAGAACTAACTACAATGGATCAAAATCAAGCACGAGAAGATGAGgttggtattt ... ggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACA
EST:
gi|7684949|gb|AW755597.1|AW755597EST: CACATCAAGAACTAACTACAATGGATCAAAATCAAGCACGAGAAGATGAG CCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACA
genomic: CACATCAAGAACTAACTACAATGGATCAAAATCAAGCACGAGAAGATGAGgttggtattt ... ggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctctcttctctttctctatgctgtctgctgtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
ctctctg CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctttctctttatcacaaacttctctatttattctcctttctctctctctcttctctttctctatgctgtctgctgtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - cacaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caactct