Sequence
atgc intronic sequence ATGC exonic sequenceTGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatggaggtttctttcatcctatttatttcataagacctatcagtagacaaactggctttaacagattttttttaattatttttttaag
Basic information
species | Glycine max |
transcript | GLYMA12G29120.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatg--gaggtttctttcatcctatttatttcataagacctatcagtagacaaactggctttaacagattttttttaattatttttttaag----------------------------
|| | ||| ||| || |||| || ||||||||||||||||| |||||||||||||| |||||||| |||||||| || |||| ||||||||| || ||||| | |||||||||| |||| ||| | | ||| | | | | || | ||||||| | | || || | ||| |
TGTCAACCATCTGAGAACCCTGCGCATAAATGGGGTGGTCTTGGAGAGGTCCTGGGTGGAAATGAGCTGATTGATAGTCAGATTGACATAAAGTTCTTAAgtatgtcaatctttctttcattctatccttttgttta--tctactatttgctctaatgcccc--acagattggtgtattttcttgtcttatgaattgtataagtgcttcctttggtttag
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatggaggtt-----------tctttcatcctattta-tttcataagacctatcagtagacaaac--tggctttaacagattttttttaattattttt--ttaag--------------
|| | ||| ||| || | |||||||||||||||||||| || |||||||| || ||||||||||| || ||||| || |||| |||||||| || ||| | | | || || || |||||| ||| || |||| | | | || |||| ||||| | | ||||| ||||
TGTCAGCCATCTGAAAACCCCGCACACAAATGGGGTGGTCTCGGAGAGGTCCTTGGCGGCAATGAGCTGATCGATAGTCAGGTTGATATAAAGTTTTTAAgtaagttgatcttttcataccctccttgattttatttacttttggaatgtgcatcaatgtatgttccttgcaactaaccgatttccct-gaccattttacattaaacttctttgttttag
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G420310_T01 (Zea mays), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatgg-aggtttctttcat--cctatttatttc---ataagacctatcagtagac-aaactggctttaacagattttt--tttaattatttttttaag----------------
|| | || ||| || || |||| ||||||||||||||||| |||||||||||||| |||||||| |||||||| || ||||| ||||||||| || ||||| | || | |||| | | || |||| || ||| || | | | || | | | ||||| | | | | | | |||
TGTCAACCGTCTGAGAACCCTACACATAAATGGGGTGGTCTTGGAGAGGTCCTGGGTGGAAATGAGCTGATTGATAGTCAGCTTGAAATAAAGTTCTTAAgtatgccatattgttctcatttcttccttgtttctatttagtgtttattagaaagctgatctaacaagtataactttttcgtcttactgcctgtataaatgttactttggtctag
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G026231_T01 (Zea mays), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatg--gaggtttctttcatcctat--ttatttcataagacctatcagtagacaaactggctt--taacagattttttt-------taattatttttttaag--------------------------------
|| | || ||| || | |||| ||||||||||||||||| |||||||| ||||| |||||||| |||||||| || ||||| ||||||||| || ||||| | | | ||| || || || || || | | | || ||| | || | |||| | ||| | |||||||
TGTCAACCGTCTGAGAACCCCACACATAAATGGGGTGGTCTTGGAGAGGTCCTTGGTGGAAATGAGCTGATTGATAGTCAGCTTGAAATAAAGTTCTTAAgtatgcccatactgttcccatttcatcctttttctttatttactgtttattggaaagctgatctagtatgtgcttttcctgcaagtataactttttttttgtctcactgactgtataaatgttactttggtctag
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G087212_T01 (Zea mays), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatggaggtttctttcatcctatttatttcataagacctatcagtagacaaactg-gctttaa--cagattttttttaattatttttttaag------------------------------------------
|| | ||| ||| || ||||||| |||||||||||||| || |||||||| ||||| |||||||| |||||||| || | || ||||||||| || ||||| || | ||| | || | | | | | |||| | || | || ||| ||| | | | || |
TGTCAACCATCTGAAAACCCTGCACATAAATGGGGTGGTCTCGGAGAGGTCCTTGGTGGAAATGAGCTGATTGATAGTCAGATCGATATAAAGTTCATAAgtatg----cttgccttatcttgacatcctcctgaagtttgttttttcttggactgtgtattgatgcatgtttgtttctgtgactgaattgatttattttgttggcttttcattttattgtttcttttgttttag
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatgg---aggtttctttcatcctatttatttcataagacctatcagtagacaaac--tggctttaacagattttttttaattatttttttaag----------
||||| ||| |||| || | || ||||||||||||||||||||||| || || ||||| |||||||| ||||| || | ||| |||||| ||| | ||| | | | | | || || | | ||||||| | || |||| | || | | | | | || ||| |||| |
TGCCGCCCATCTGGAAACAATGTTCACAAATGGGGTGGTCTTGGTGAAGTTCTAGGTGGAAATGAGCTGATTGACAGTGAGATTGCGATAAAATTCATGAgtacgtttcaattcttatacaagct-tctttttcatactagttaacagttatcgtacattcgtacttattctctagttacaataccttttctgttttttccacag
upper sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 5'ss of exon 2
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatggaggtttctttcatcctatttatttcataagacctatcagtagacaaactggctttaacagattttttttaattatttttttaag---
|| | || ||||| ||| | | ||||| |||||||| |||||||| || |||||||| ||||||||||||||||||||| |||| || ||||| | ||||| | | || || || |||| ||| |||| | | | | | || | || | ||| |||| ||| |
TGTCACCCTCCTGGCAATGCAGGTCACAAGTGGGGTGGCCTTGGTGAAGTTCTGGGTGGAAATGAGCTCATTGATAGCCAAATTGATATGAAGTTTAAAAgtatgtacttctcctttat--tattcatt-catatgtcaagtatggctaaggaccaacaccaata---------taaccatttctttgggcagMapped 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|193525428|gb|FK479211.1|FK479211EST: CCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAG GAAATGTGGAGAAGACCATATTTTGCCGTATAGAACTTGATGAAGCAAAGG
genomic: CCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatggaggt ... tttttttaagGAAATGTGGAGAAGACCATATTTTGCCGTATAGAACTTGATGAAGCAAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCGTCCACCTGGTAATACTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATTGATAGCCAACTTGAGATAAAGTTCCTAGgtatggaggtttctttcatcctatttatttcataagacctatcagtagacaaactggctttaacagattttttttaattatttttttaag
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