Sequence
atgc intronic sequence ATGC exonic sequenceGTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcatctttccttctactaataaaggtttttcctaaaatattcatcttacaatagggggatacaatactttgtctctatttcag
Basic information
species | Glycine max |
transcript | GLYMA08G16780.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g15870.2 (Oryza sativa), 5'ss of exon 6
---------------GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGg--tctgttcatctttccttctactaataaaggtttttcctaaaatattcat--cttacaatagggggatacaatactttgtctctatttcag--------
|| || |||||||||||| ||||||||| ||||| || || || ||||| |||||||| |||||||| || |||||||| | ||| ||| | | | | ||||||| | | | ||| ||| || || | | || || | || ||| | |
ACTTACTTTACCCAGGTTAAAAGGAAGAAAGCTAAACATGCTGGGATGTTTGATATTGCTAAGACGGCAAATAGACCTATGATTCACATTGGTGGCTGAGgtatcttcttaacactgcttctaccctttgtt-taataaagaaagaattgatagtttctttgaagattatccattttcttcactcaacattgttctattgg
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g15870.3 (Oryza sativa), 5'ss of exon 7
GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgt--ctgttcatctttccttctactaataaaggtttttcctaaaatattcat--cttacaatagggggatacaatactttgtctctatttcag--------
|| || |||||||||||| ||||||||| ||||| || || || ||||| |||||||| |||||||| || |||||||| | |||| || | | | | ||||||| | | | ||| ||| || || | | || || | || ||| | |
GTTAAAAGGAAGAAAGCTAAACATGCTGGGATGTTTGATATTGCTAAGACGGCAAATAGACCTATGATTCACATTGGTGGCTGAGgtatcttcttaacactgcttctaccctttgtt-taataaagaaagaattgatagtttctttgaagattatccattttcttcactcaacattgttctattgg
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g32230.1 (Oryza sativa), 5'ss of exon 7
GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcatctttccttctactaataaaggtttttcctaaaatattcatcttacaatagggggatacaatactttgtctctatttcag------------
|| || |||||||||||| ||| ||||| ||||| || || || ||||| |||||||| |||||||| || |||||||| | |||| | ||| | || | ||| | |||| | | | | || | | | | | | || ||| | |
GTTAAAAGGAAGAAAGCTAAACACGCTGGGATGTTTGATATTGCTAAGACAGCAAATAGACCTATGATTCACATTGGTGGCTGAGgtatcttcttaacaccgctt-ctattcgttgtttaattaaggaaagaattgataatttctttgaacattacccattttcttcgctcaaaaacattctattg
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G135816_T01 (Zea mays), 5'ss of exon 6
GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcatctttccttctactaataaaggtttttcctaaaatattcatcttacaa--tagggggatacaatactttgtctctatttcag---------------
|| || |||||||||||| |||||| || ||||| || || || ||||| |||||||| || ||||||||||| ||||| | |||| ||| | || || | | ||||| ||| ||| || | | | | ||| || | ||||| ||
GTTAAAAGGAAGAAAGCTAAACATGCCGGGATGTTTGATATTGCCAAGACAGCAAATAGACCCATGATACATATAGGTGGCTGAGgt------atcctcttatcaacatctgtacatttttactacaatgactatgtaatagattgttcacggacatgacaagattgatatttgagatgatttatcgcatg
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G135816_T02 (Zea mays), 5'ss of exon 1
---------------GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcatctttccttctactaataaaggtttttcctaaaatattcatct--tacaatagggggatacaatactttgtctctatttcag---------------
|| || |||||||||||| |||||| || ||||| || || || ||||| |||||||| || ||||||||||| ||||| | |||| ||| | || || | | ||||| ||| ||| || | || | | ||| || | ||||| ||
CCTCCCTATGTTCAGGTTAAAAGGAAGAAAGCTAAACATGCCGGGATGTTTGATATTGCCAAGACAGCAAATAGACCCATGATACATATAGGTGGCTGAGgt------atcctcttatcaacatctgtacatttttactacaatgactatgtaatagattgttcacggacatgacaagattgatatttgagatgatttatcgcatg
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0156g00170.t01 (Vitis vinifera), 5'ss of exon 8
GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcatctttccttctactaataaaggtttttcc----------taaaatat-tcatcttacaat---agggggatacaatactttgtctctatttcag
|| ||||||||||||||||| |||||||| ||||| ||||| |||||||| ||||||||||| ||||||||||||||||| |||||| || | ||| |||| | |||| || | | | | | |||| | | |||| | | ||| | | | | | | | ||| |
GTCAAGAGGAAGAAAGCTTCTCATGCTGGAATGTTTGACATTGCAAAGACCGCAAATAGGCCCATGATACATATTGGTGGCTAAGgtttggt--tctctcctccaactagaaacttgtcctgcatccattaaatgagatatgtaaaactacattcttaaagggctgccttgttcttttcccctttaa-Mapped 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|21595390|gb|BQ610465.1|BQ610465EST: CGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAG GTATCATACATTGGAAAAATTGCTTATATATCAGGCAACCAGAGCAGCCCC
genomic: CGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcat ... tctatttcagGTATCATACATTGGAAAAATTGCTTATATATCAGGCAACCAGAGCAGCCCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAAGAGGAAGAAAGCTTCACATGCTGGTATGTTCGACATAGCAAAGACTGCAAATAGGCCTATGATACATATTGGTGGATAAGgtctgttcatctttccttctactaataaaggtttttcctaaaatattcatcttacaatagggggatacaatactttgtctctatttcag
- - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA