Sequence
atgc intronic sequence ATGC exonic sequence...gagctatgcttaaatacatgaatttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
Basic information
species | Glycine max |
transcript | GLYMA09G00430.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 14
-----------------------------------------------------------------------------------gagctatgcttaaatacatgaatttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
|| || |||| | | || | | || | | ||| | || | | || | ||| | | || | ||||| | | || |||||||||||||||| ||||| ||||||| |||||||||| |||||||| |||| ||||||
gtataatgatgcgctgatgcaccataggttatcattcctgtagtttttttttatttactctggctcttcacagctagtgtaatctttcatttgtagttacaagtaactgcagatggttttggttaattctgtatcctggtttggcttttttgcatataagatgatttcttcttttctactcagGCTACCTTTTGAAGAAAAGTGCAAAAAATAATGAATGGAGCAAAAGATGGTTTGTCCTAAATGAGAAGAGTGGAAAG
upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 3'ss of exon 14
------gagctat--gcttaaatacatgaatttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttattgtt-ttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
|| | || | | |||| | | || || || ||| |||||| || || ||| |||| | || |||| | ||| || |||||| | | || ||||||||||||||||| ||||| ||||| ||| | |||||||| || ||||| || | ||||||
ccctttgaaccatttggtgaaatgaaacatttgttttgtctcattgtaaaaaagtacatgc-----aaatataaatattc----gttaattttgtacatttttcttcagGTTACCTTTTGAAGAAAAGTGCAAAAACAAATGGATGGAGTAGGAGGTGGTTTGTCCTCAATGAGAAAAGCGGAAAG
upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 14
---gagctatgcttaaatacat-gaatttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
||||| | || || | | || || | | | || | | || | | |||| | | ||| || | |||| | | | | |||| | | ||||||||||| |||||||||||||| ||||||| |||||||||| || ||||| |||| ||||||
gatgagctgc-ttcaaccactttgcatgtgttcatggtagcgatacattttgattgatttgagaa-gttaacata-taagcatattcttctgt-tcctctgcagGTTACCTTTTAAAGAAAAGCGCAAAAACTAATGGGTGGAGCAAAAGATGGTTTGTTCTTAATGAGAAGAGTGGAAAG
upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 14
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 14
---gagctatgcttaaatacatgaa----tttggaagttacaatgtgcca-aagtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
|||| || | | || ||| || ||| | | || | || | | | | || | || | || ||| | || | | |||| |||| | ||| | |||||||||||||| || ||||| ||||| |||||||||||||| || |||||||| || ||||||
ctttagctttgacctagcgtaggataagtttttgaggttttagtttgttataaaaaccaactgccaaggtcttca---acagaaatt---ttattctgttgt--gcagGGTACTTAATGAAGAAAAGTGCAAAGACAAATGGGTGGAGTAGGCGATGGTTTGTTCTGAATGAAAAAACTGGAAAG
upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 14
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 14
-gagctatgcttaaatacatgaat-ttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
| || | || | | || | || | || | | || | || | | || ||||| || | ||| ||| | ||| | ||||||||||||||||| ||||| ||||| |||||||||||||| || ||||| || || ||||||
tgcatgatttcttcatgtctttttcttctttatcacttaaaactaacttgacaaaactaacttccaaggtagataacaaatacttactcttttcattt--agGGTACTTAATGAAGAAAAGTGCAAAAACAAATGGGTGGAGTAGGCGATGGTTTGTTCTGAATGAGAAAACTGGAAAG
upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 14
lower sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 14
gagctatgcttaaatacatgaatttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttat-tgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
| | | | || || ||| | | | | | | || | | || ||| ||| |||||| | | |||| ||| |||| |||||||||| |||||||||||| |||||||||||||||||||| ||||||||||||| || |||
ataatggcatgtattgtgcatcttctcttgtatcaacatctctctctctctctctctctctctctctctctctccaacc-ttttactttatacatatacagGCTTTCTATTGAAGAAAAGTGAAAAAACTAATGGATGGAGCAGGCGATGGTTTGTTTTAAATGAAAAGACTGGCAAGMapped 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|10233048|gb|BE801936.1|BE801936EST: AGAAAGCTCAAGTTTAAAGACTGCTGGTGCTGAAGGAGAAATAACAGCAG GATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGT
genomic: AGAAAGCTCAAGTTTAAAGACTGCTGGTGCTGAAGGAGAAATAACAGCAGgtctgtcctt ... ttgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
aactaaa putative branch site (score: 2)
ctacttttctttattg CT-rich tract
tatttcaaaattatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagctatgcttaaatacatgaatttggaagttacaatgtgccaaagtatatatttcaaaattattaataaactaaaactacttttctttattgttttcagGATTTTTATTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAAAAGACAGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- -ctatgct
- - - - - - - - catgaat
- - - - - - - - - - - - - - - - - - - tgccaaa