Sequence
atgc intronic sequence ATGC exonic sequenceCCATCTAGTAGTGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactggctttaatggatactattgttttcag
Basic information
species | Glycine max |
transcript | GLYMA08G13370.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 5'ss of exon 2
CCATCTAGTAG-TGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactggct------ttaatggatactattgttttcag----------------------------
|| | | || | |||| || ||||||||||||||||| |||||||||||||| |||||||| || ||||| || ||||| ||||||||| ||||||| | | | || | | | | || | | | | | ||| | || | || || || | |||| || |
-TGTCAACCATCTGAGAACCCTGCGCATAAATGGGGTGGTCTTGGAGAGGTCCTGGGTGGAAATGAGCTGATTGATAGTCAGATTGACATAAAGTTCTTAAgtatgtcaatctttctttcattctatcctt--ttgtttatctactatttgctctaatgccccacagattggtgtattttcttgtcttatgaattgtataagtgcttcctttggtttag
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 5'ss of exon 2
--CCATCTAGTAGTGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgt---atttcatagaagagccgtcagttgacaaactggctttaatggatacta-ttgttttcag--------------------------------
|| | | || | | |||||||||||||||||||| || |||||||| || ||||||||||| |||||||| || |||| |||||||| ||||| | | | | | | ||| | |||| || | | || | || || | | |||| | ||||
TGTCAGCCATC--TGAAAACCCCGCACACAAATGGGGTGGTCTCGGAGAGGTCCTTGGCGGCAATGAGCTGATCGATAGTCAGGTTGATATAAAGTTTTTAAgtaagttgatcttt-tcataccctccttgattttatttacttttggaatgtgcatcaatgtatgttccttgcaactaaccgatttccctgaccattttacattaaacttctttgttttag
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G420310_T01 (Zea mays), 5'ss of exon 2
CCATCTAGTAG-TGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactggctttaatggatactattgttttcag---------------------------------
|| | || | || |||| ||||||||||||||||| |||||||||||||| |||||||| || ||||| || |||||||||||||| ||||||| || | | | | || | | || || || ||| | ||| || | | |||||
-TGTCAACCGTCTGAGAACCCTACACATAAATGGGGTGGTCTTGGAGAGGTCCTGGGTGGAAATGAGCTGATTGATAGTCAGCTTGAAATAAAGTTCTTAAgtatgccatattgttctcatttcttccttgtttctatttagtgtttattagaaagctga-tctaacaagtataact-ttttcgtcttactgcctgtataaatgttactttggtctag
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G026231_T01 (Zea mays), 5'ss of exon 2
CCATCTAGTAG-TGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatg--aaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactggctttaatggatactattgttttcag--------------------------------------------------
|| | || | | |||| ||||||||||||||||| |||||||| ||||| |||||||| || ||||| || |||||||||||||| ||||||| | | | | || ||| | | | || ||| || ||| | || | | || || | ||
-TGTCAACCGTCTGAGAACCCCACACATAAATGGGGTGGTCTTGGAGAGGTCCTTGGTGGAAATGAGCTGATTGATAGTCAGCTTGAAATAAAGTTCTTAAgtatgcccatactgttcccatttcatcctttttctttatttactgtttattggaaagctga-tctagtatgtgcttttcctgcaagtataactttttttttgtctcactgactgtataaatgttactttggtctag
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G087212_T01 (Zea mays), 5'ss of exon 2
CCATCTAGTAG-TGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactg-gctttaatggatactattgttttcag----------------------------------------------------
|| | | || | ||||||| |||||||||||||| || |||||||| ||||| |||||||| || ||||| || || || ||||||||| ||||||| || || || | | | || || |||| | || ||| || | | | |
-TGTCAACCATCTGAAAACCCTGCACATAAATGGGGTGGTCTCGGAGAGGTCCTTGGTGGAAATGAGCTGATTGATAGTCAGATCGATATAAAGTTCATAAgtatg------cttgccttatcttgacatcctcctgaagtttgttttttcttggactgtgtattgatgcatgtttgtttctgtgactgaattgatttattttgttggcttttcattttattgtttcttttgttttag
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 2
--CCATCTAGTAGTGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaa--ggtttctgttgtactatgtatttcatagaag--agccgtcagttgacaaactggctt---taatggatactat-tgttttcag------------
|| | | || | || ||||||||||||||||||||||| || || ||||| |||||||| || || || | |||| ||||| ||| |||| | || | | | | | ||||||| || | | || | ||| | ||| | | ||| || ||||| |
TGCCGCCCATC--TGGAAACAATGTTCACAAATGGGGTGGTCTTGGTGAAGTTCTAGGTGGAAATGAGCTGATTGACAGTGAGATTGCGATAAAATTCATGAgtacgtttcaattcttatacaagcttctttttcatactagttaacagttatcgtacattcgtacttattctctagttacaataccttttctgttttttccacag
upper sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 5'ss of exon 2
--CCATCTAGTAGTGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactggctttaatggatactattgttttcag---
|| | | || | ||| | ||||| |||||||| |||||||| || |||||||| ||||||||||| |||||||||||||| || ||||| |||||||| | |||| | || ||| ||| |||| | | | | | || | ||| | || ||| ||| |
TGTCACCC--TCCTGGCAATGCAGGTCACAAGTGGGGTGGCCTTGGTGAAGTTCTGGGTGGAAATGAGCTCATTGATAGCCAAATTGATATGAAGTTTAAAAgtatgta--cttctcctttattattcatt-catatgtcaagtat-ggctaa-ggaccaacaccaatata-accatttctttgggcagMapped 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|18690803|gb|BM519651.1|BM519651EST: CCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAA GAAATGTGGATAAGACTGTCTTTTGCCAGATAGATCTCGATGAAGCAAAGG
genomic: CCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggt ... ttgttttcagGAAATGTGGATAAGACTGTCTTTTGCCAGATAGATCTCGATGAAGCAAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCATCTAGTAGTGCTAGTGCTGCACACAAATGGGGTGGTCTTGGTGAGGTCCTGGGTGGCAATGAGCTCATCGATAGCCAAATTGAAATAAAGTTCCAAAgtatgaaggtttctgttgtactatgtatttcatagaagagccgtcagttgacaaactggctttaatggatactattgttttcag
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