Sequence
atgc intronic sequence ATGC exonic sequenceTGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatcttaaaatcaaacccttaattgattgcattattcttggtgcag
Basic information
species | Glycine max |
transcript | GLYMA14G06340.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 17
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatct-taaaatcaaacccttaattgattgcattattcttggtgcag
||||||||| || | |||||||| |||||||| |||||||| || |||||| |||| || ||||||||||| |||||| | || |||||||| | || || || || | ||| || || | ||| ||| || ||| | ||| || || | ||||
TGCTGATGCCATCCTTGCTAATGGTATGTTCAGTCATTATGATCGCCCTCGTGTTGCTCAGCTTTGTGAAAAGGCTGGCTTGTACTTGCGAGCTCTCCAGgtcagtacctttttgttgttttggtttacttttttttttctttgcctgtctgtttaattaacattatattgtgatgcag--------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 17
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatct-taaaatcaaacccttaattgattgcattattcttggtgcag
||||||||| || | |||||||| |||||||| |||||||| || |||||| |||| || ||||||||||| |||||| | || |||||||| | || || || || | ||| ||| || ||| ||| || ||| | ||| || || | ||||
TGCTGATGCCATCCTTGCTAATGGTATGTTCAGTCATTATGATCGCCCTCGTGTTGCTCAGCTTTGTGAAAAGGCTGGCTTGTACTTGCGAGCTCTCCAGgtcagtacctttttgttgt-tttggtttactttttttttctttgcctgtctgtttaattaacattatattgtgatgcag--------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 15
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatcttaaaatcaaacccttaattgattgcattattcttggtgcag
||| ||||| || | || ||||| |||||||| ||||||||||||||||||||||| || || |||||||| ||||| | || |||| || | || || | | || || |||||| || |||||| ||||||| | ||||| ||| || | ||| | || |||||
TGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCTGTGAAAAGGCTGGATTATACTTGCGTGCCCTCCAGgtcggtaacctttgcat-tgttttgg-ctgatctcttctct---ttaatctctgtgttaaacc---aat--atcgtatt--ttctgatgcag
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G430947_T01 (Zea mays), 5'ss of exon 3
-----------------------------------TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatcttaaaatcaaacccttaattgattgcattattcttggtgcag
|| |||||| || | |||||||| |||||||| |||||||| || ||||||||||| | || |||||||| ||||| | || ||||||
GTTTTGGAGATAAACTTAGTGACTTACCCAAATGTTGTTGATGCCATTCTTGCTAATGgtatgttcagtcattatgatcgccctcgtattgcttagctgtgtgaaaaggctgggttgtacttgcgag----------------------------------------------------------------------------------------------------
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 17
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatcttaaaatcaaacccttaattgattgcattattcttggtgcag
|||||||| |||| || ||||| ||||||| ||| |||||||| ||||| ||||| |||||||||||||| ||||| |||||| | | | | ||| | || | || | | | ||| || | || || ||| | ||| | | || || | || | || ||||||
GGCTGATGCGGTATTAGCAAATGGGATGTTCACCCACTATGACCGGCCTCGCATTGCTCAACTTTGTGAAAAGGCTGGACTTTATATCCAATCCTTGAAGgttggtacat----gttttttaccatttttaccggccaaatagatttatcatcttctcaccttccaacttcttttccttttgatttgtgcag
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 17
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttt-tattcttgcactttctctatgttaatcttaaaatcaaacccttaattgattgcattattcttggtgcag
||||||||||| || || ||||| |||||||||||||||||||| |||||| |||| || ||||||||||| ||||| ||||| | | | |||| | || ||| | || |||||||| | | | |||| | || | | || | || || | || | ||| ||||||
GGCTGATGCAATCTTAGCAAATGGGATGTTCAGCCATTATGACCGGCCTCGTGTTGCTCAGCTTTGTGAAAAGGCTGGACTTTACATCCAATCTTTAAAGgtttttgctcaatgtcttctttaatattcttg-gcctaatagatgtattttttt---ttcccctctaacttcgtttccttttgctttgtgcag
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 17
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaag---gactctccaaatgtgttttattct----tgcactttctctatgttaatcttaaa---atcaaac-ccttaattgattgcattattcttggtgcag
||| ||||| ||||| || ||||| ||||| ||||||||||| ||||| || |||||||| ||||||||||||||||| |||||||||||||| | || || | | ||| ||| ||||||| | | || || | ||| | | | ||| || | || ||| || | |||| || ||||||
TGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTTGTGAAAAAGCTGGTCTTTATGTGCGAGCCCTTCAGgtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcag
upper sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 17
lower sequence: PP1S270_53V6.1 (Physcomitrella patens), 5'ss of exon 17
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgt--aaggactctc---caaatgtg------ttttattcttgcactttctctatgtta-atcttaaaatcaaacccttaattgattgcattatt-cttggtgcag----------------------------------
|| ||||| || ||| |||||||||| |||| ||||||||||||||||| ||||| || |||||||| || |||||| | ||| |||| ||| |||| || | | || | | | ||| |||||| | ||||| | | | | | || ||| | | |||||| |||| | | ||| |
CGCAGATGCGATTTTGACTAATGGCATCTTCAAACATTATGACCGTCCTCGAATTGCTCAGCTTTGTGAGAAGGCTGGCGTGTATATGCGTGCTATGCAGgtttagaaattcgcttgctagtgtaatgacattttatacc-atactttttatccgctgcaactataaacctcgtctagaattga--gcataactactttacacgacttaaatcgccgcgttgatgttttatcacttcagMapped 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|193597617|gb|FK550073.1|FK550073EST: GTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAA CATTACACAGAATTACCAGACATCAAACGCGTGATTGTTAATACACATGCA
genomic: GTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactc ... cttggtgcagCATTACACAGAATTACCAGACATCAAACGCGTGATTGTTAATACACATGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTTGTGAAAAAGCTGGCCTTTATGTGCGAGCTTTGCAAgtaaggactctccaaatgtgttttattcttgcactttctctatgttaatcttaaaatcaaacccttaattgattgcattattcttggtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT