Sequence
atgc intronic sequence ATGC exonic sequence...tactgcatggttggcgttgttaacataattagaggattgatttgaacaaggattggtaattctgattcgagttttatttgttacatttgtatttctacagGGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAATTAGTTGACATATATTCCTTTGGGATGTGTGTATTAGAGATGGTCACGTT
Basic information
species | Glycine max |
transcript | GLYMA03G40550.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40550.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 4
-tactgcatggttggcgttgttaacataattagaggattgatttgaacaaggattggtaattctgattcgagttttatttgttacatttgtatttctacagGGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAATTAGTTGACATATATTCCTTTGGGATGTGTGTATTAGAGATGGTCACGTT
|||| ||| | | || || | | ||| || | | |||||||| || | | | || || | || |||||| ||||||||||||||||| |||||||| ||||| ||||||| ||||| ||||| ||||| || || || |||||| | || |||||||| |||||
gtactatatg-caaatccaaatcatatcctttctgctt---tttagctgagtttctttgtttctgatt---gtgtaaagttttgatcttttgtt-----agGGACTCCTGAGTTCATGGCACCTGAAGTTTACGAAGAAGCATATAACGAATTGGTTGATATATACTCGTTCGGTATGTGTATTTTGGAGATGGTTACGTT
upper sequence: GLYMA03G40550.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0030g01660.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------tactgcatggttggcgttgttaacataattagagg---attgatttgaacaaggattggtaattctgattcgagttttatttgttaca---tttgtatttctacagGGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAATTAGTTGACATATATTCCTTTGGGATGTGTGTATTAGAGATGGTCACGTT
| || || | | | | | || || | | |||| || | |||| ||| || || || | || | | ||| ||| ||| ||||||| ||||||||||||||||||||||| ||||||||| || ||||||||||| ||||| || || ||||| ||||| | || || |||||||| ||
gtatgtttaattgatccaaaccccatgaaatttcttcacagat--cactatacccacaactgaaaattagttgaatttagtaagggaaggtgat--tggtttcatcttaaatggttttgggtcctgttttttatcagGGACACCTGAGTTCATGGCACCAGAAGTGTATGAAGAGGAGTACAATGAATTAGTGGACATTTACTCTTTTGGTATGTGCATCTTGGAAATGGTCACTTTMapped 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|18692755|gb|BM521603.1|BM521603EST: TCTTGGGTTGGCAGCAATTCTCCGCAAGTCCCATGCTGCTCATTGTGTAG GGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAAT
genomic: TCTTGGGTTGGCAGCAATTCTCCGCAAGTCCCATGCTGCTCATTGTGTAGgtatgtctct ... atttctacagGGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaggattggtaattctgattcgagttttatttgttacatttgtatttctacagGGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAATTAGTTGACATATATTCCTTTGGGATGTGTGTATTAGAGATGGTCACGTT
ttctgat putative branch site (score: 3)
tatttct putative PPT
ttttatttgttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactgcatggttggcgttgttaacataattagaggattgatttgaacaaggattggtaattctgattcgagttttatttgttacatttgtatttctacagGGACGCCTGAGTTCATGGCACCAGAAGTTTATGAAGAGTCATATAATGAATTAGTTGACATATATTCCTTTGGGATGTGTGTATTAGAGATGGTCACGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - gcatggt
- - - - - - - - - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgattc