Sequence
atgc intronic sequence ATGC exonic sequencegtaccactagccaaaaaggcaatgctttttcttatcatcgcttatactttctgtgtaattttttttttatcaattcttatcttgtaacttttttccctttattttatttttatgttttgattttccattgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTCCTCCTATCTCATATACAATGCTTCTCTGTACTTCAGTTCTGCTGTTCAG
Basic information
species | Glycine max |
transcript | GLYMA19G23610.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G23610.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os12g18110.1 (Oryza sativa), 3'ss of exon 1
gtaccactagccaaaaaggcaatgctttttcttatcatcgcttat--actttctgtgtaattttttttttatcaattcttatcttgtaacttttttccctttattttatttttatgttttgattttccattgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTCCTCCTATCTCATATACAATGCTTCTCTGTACTTCAGTTCTGCTGTTCAG
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-----------------------------------ggtggtttggggacagacggttcagtctgttagattaagatatttattttttatattcatgtttcttgtcacgtggtt-taactggatta---attg-attgcagTGTGGTGGGTCTGAACTTTGATTTTCTGGTGTTGAACTTGACAAAGCACTCATCCTACCTCATATACAATGCTGCTCTATTCTTCAGCCCCTTCATCCAG
upper sequence: GLYMA19G23610.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G015869_T02 (Zea mays), 3'ss of exon 1
gtaccactagccaaaaaggcaatgctttttcttatcatcgcttatactttctgtgtaattttttttttatcaattcttatcttgtaacttttttccctttattttatttttatgttttgattttccattgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTCCTCCTATCTCATATACAATGCTTCTCTGTACTTCAGTTCTGCTGTTCAG
||||| | | ||| || | || ||| | | | | | | | | | | |||| | ||| | | ||| || || | || ||||| ||||| ||||| || |||||| || || |||| ||||| |||||||| ||||| ||||||||||||||| |||| | |||||| | | |||
---------------------------ggtctta--aacagttaagtcttatctgatattctgatccgaatatatgcttcttcatgaaaagt----ctttggtctatggct--gatttaatgttatctcttg---cagTGTTGTGGGCCTGAATTTCGATTTTCTGGTGTTGAACTTGACAAAGCACTCGTCCTACCTCATATACAATGCTGCTCTCTTCTTCAGCCCATTCATCCAG
upper sequence: GLYMA19G23610.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0219g00120.t01 (Vitis vinifera), 3'ss of exon 1
gtaccactagccaaaaaggcaatgctttttcttatcatcgcttatactttctgtgtaattttttttttatcaattcttatcttgtaacttttttccct-ttattttatttttatgttttgattttccattgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTCCTCCTATCTCATATACAATGCTTCTCTGTACTTCAGTTCTGCTGTTCAG
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-------------------------------gtttcttttttttttttttctggattttttctgttctatcctttctcttctttcgttttctcttgagattctagtagttacttacttagaattgttgata-aacgtagTGTTGTGGGGTTGAACTTCGATTTCGTGGTGCTCAACTTGACGAAGCATTCGTCGTATTTGATATACAACGCGGTTCTCTACTTTAGCTCTGCTGTCCAGMapped 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|209718452|gb|BW666250.1|BW666250EST: TGGTCTATCAGTTTCTACCCACAAGTCATTTTGAACTTTCGCAGGAAAAG TGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTC
genomic: TGGTCTATCAGTTTCTACCCACAAGTCATTTTGAACTTTCGCAGGAAAAGgtaccactag ... tgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTC
EST:
gi|192331771|gb|FK024875.1|FK024875EST: TGGTCTATCAGTTTCTACCCACAAGTCATTTTGAACTTTCGCAGGAAAAG TGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTC
genomic: TGGTCTATCAGTTTCTACCCACAAGTCATTTTGAACTTTCGCAGGAAAAGgtaccactag ... tgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaacttttttccctttattttatttttatgttttgattttccattgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTCCTCCTATCTCATATACAATGCTTCTCTGTACTTCAGTTCTGCTGTTCAG
ttttccatt CT-rich tract
ttttttccctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccactagccaaaaaggcaatgctttttcttatcatcgcttatactttctgtgtaattttttttttatcaattcttatcttgtaacttttttccctttattttatttttatgttttgattttccattgtggtgtagTGTGGTGGGGCTGAACTTTGATTTTGTGATGCTGAATTTGACGAAGCACTCCTCCTATCTCATATACAATGCTTCTCTGTACTTCAGTTCTGCTGTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT