Sequence
atgc intronic sequence ATGC exonic sequencegtaaacattggccttcattctgtatcttgagttattgaatttttttcactccgatgtatatttttgcttattgtttttttgggggggattctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATT
Basic information
species | Glycine max |
transcript | GLYMA07G38050.2 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 16
gtaaacattggccttcattctgtatcttgagttattgaatttttttcac-tccgatgtatatttttgcttattgtttttttgggggggattctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATT
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-------------gtaagtctctatctctatgtgtgca----tgcacacgtctggtgctcaaactgacctaat-tttgtttg----------ttactctagCTACTCTGAGTCTGAATACTTTAAGCAAGCACTTCGCCAAGGTGCACCTGCAAAACCTAGGGAACCACGAATTCCAAGAATGCCGCACCT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 16
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 16
gtaaacattggccttcattctgtatcttgagttattgaatttttttcac-tccgatgtatatttttgcttattgtttttttgggggggattctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATT
| | ||| ||||| | | | | | ||| || | || | | | || | ||| |||| | ||||||| ||||| |||||||||||||| |||||| || | |||||||||| ||| | ||||| | || || || ||||| || ||||| || |
-------------gtaaatctctatctctatgtgtgca----tgcacacgtctggtgctgaaactgacctaat-tttgtttg----------ttactctagCTACTCTGAGTCTGAATACTTTAAGCAAGCACTTCGCCAAGGTGCACCTGCAAAACCTAGGGAACCACGAATTCCAAGAATGCCACACCT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 16
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 16
gtaaacattggccttcattctgtatcttgagttattgaatttttttcactccgatgtatatttttgcttattgtttttttgggggggattctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATT
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gtaattgtgaattttcagttgccaacttatgttat--aattttatgtttttcattatcatttaagacatgtttccattttcttg----tcctttaagtagTTACTCAGAGTCTGAATACTTTAAGCAAACAATGCGGCAAGGTGCTCCAGCAAAACAAAGAGAGCCTAGAATACCGCGCATGCCCCAGCTMapped 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|208048104|gb|GD848771.1|GD848771EST: ATTGTGAGTGAAAATTGGGTCGAGCCACCAAGAAGAGAACGGAAGCGCAA TTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTAC
genomic: ATTGTGAGTGAAAATTGGGTCGAGCCACCAAGAAGAGAACGGAAGCGCAAgtaaacattg ... ctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcactccgatgtatatttttgcttattgtttttttgggggggattctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATT
ttctgac putative branch site (score: 2)
atgtatatttttgctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacattggccttcattctgtatcttgagttattgaatttttttcactccgatgtatatttttgcttattgtttttttgggggggattctgactctagTTACTCGGAGTCTGAATACTTCAAGCAAACAATGCGCCAAGGTGGCCCTACTAAACCAAAAGAGCCTCGTATTCCTAGGATGCCTCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG