Sequence
atgc intronic sequence ATGC exonic sequenceGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcag
Basic information
species | Glycine max |
transcript | GLYMA16G05180.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 5'ss of exon 9
GGGAGCCAGAAACA-AATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagtta--------cctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcag
| | || ||| || | || || |||||||||| ||| ||||||||||| |||||||||||||| ||||||||| ||||||| || | || | |||| ||||| | |||| | |||| | | | | | || | | || ||| | || | | | || | |
-GAAATCAAGCACAGAAGCCAAGCCGGATCGAGGAATATTTGTAAAGCATTTCAAGAACATTCCAATGGCTGATATGGAATTAGTTCTGgtaatatagaagcgtgcttcatatgtgatgttttttatat-cattttcctctctggttccttctgttcttcttgtgtgtacctgatattagtatttctatgatttag-----------
upper sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 5'ss of exon 9
GGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagttacctcatttgtgaagcttttaaaggacattccaatttttat-tactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcag
| | || | | || | || || |||||||||| ||| ||||||||||| || || |||||||| || |||||||| |||||||| || | ||| | | | | | || | | || || | || || | | | | | || || |||| ||||| | || ||||
GAGGGCAGGTACTAAGACTAAGCCTGATCGAGGAATATTTGTAAAGCATTTCAAGAATATCCCAATGGCTGACATGGAAATTGTTCTTgtaagatgaatcactagagttgagataaatgtgtagcatttttagcatcttttagctatatctgtggc---tgttagcaaggacctgaaattgaaacttact--tttgcag
upper sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 9
GGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttg-gcag
|||| || ||| |||| |||||||||||| || || |||||||||||||||||||| ||||| || ||||| || || ||||| |||| | |||| ||| || | ||| || || ||| | || | ||| | || | | | | | | |||| ||||
ACGAGCTAGCTCTAAAACAAATCTAGAACGAGGAATCTACGTTAAGCATTTCAAAAACATTCCTATGGCTGACATGGAGATTGTGCTTgtaagtttctgttcttgt----cttc---------tttccttttgcatcgctggattttgtagcgaaaattgcaa--actagctgcaat--aacattaatgtcttgtgcag
upper sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 5'ss of exon 9
GGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagtta-------------------cctcatttgtgaagcttttaaa---ggacattccaatttttattactaactttccccctaacaa-------atacaagtaataaccttggtcaagaacttgttacttg-gcag
| | || | | | ||||| ||| ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| || ||||||| || | | | || | | | ||| || ||||| | | |||| | || | || ||||| | |||| | | | || | ||| ||||
GCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTGgtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagMapped 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|192334227|gb|FK026608.1|FK026608EST: ATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT CCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTT
genomic: ATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagttacc ... tacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcag
- - - - - - - - - - - - - - - - - - - - TGAAGC