Sequence
atgc intronic sequence ATGC exonic sequence...tcaatctacatgtcttttttttttcttctttgaaagaattaataattgcattttccataccacactgtttgctgatggggaatgaataatgcggtggtagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCATTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
Basic information
species | Glycine max |
transcript | GLYMA20G32390.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32390.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 3
tcaatctacatgtcttttttttttcttctttgaaagaattaataattgcattttcc--ataccacactg-----tttgctgatgggga-atgaat---aatgcggtggtagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCATTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
|| || || | | | || ||| ||| | || || ||| | | || | | ||||| | ||| || || | ||||| || ||| |||||||||||| ||||||||||| || || ||||| || |||| ||||||||||| | || ||||||||||| || || || ||||
-------gtatatccagattcagattaatgaggaataatcaattctatttttgacccaatagctctctaacaattcagttgatgatgttatgcatcctaaatcttatatagGTTCGACGTACTGATGTTCTTTCGGCTTGGAGTGGGATCCGTCCATTGGCCATGGATCCAACAGCCAAGAGCACAGAGAGTATCTCCAGAGACCACGTTG
upper sequence: GLYMA20G32390.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 3
tcaatctacatgtcttttttttttcttctttgaaagaattaataattgcattttccataccacact--gtttgctgatggggaatgaataatgcggtgg-----tagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCATTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
|| | | || | || | | | | || |||||| | | | || |||| ||| | | || |||| | | |||||||| || |||||||| |||||||||||||||||||| ||| | || |||| |||| || |||| |||||||| || || | ||||||||||
-------gtatttaatgttagtaactcagtctaggtgtctttttcttttcttttccttctcttatccagtctgcttgtggagtctaaagtatgccgggacaatttagGTACGGCGCACAGATGTTCTCTCTGCTTGGAGTGGCATTCGTCCACTGGCCGTGGATCCAAAGGCGAAAAGCACTGAGAGCATTTCCCGAGATCATGTTGMapped 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|7588078|gb|AW703881.1|AW703881EST: GATTACCTTAATGTTAAA GTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCA
genomic: GATTACCTTAATGTTAAAgtatgttatt ... gcggtggtagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcattttccataccacactgtttgctgatggggaatgaataatgcggtggtagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCATTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
tgctgat putative branch site (score: 3)
aatgaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaatctacatgtcttttttttttcttctttgaaagaattaataattgcattttccataccacactgtttgctgatggggaatgaataatgcggtggtagGTACGCCGTGTTGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCATTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
- - - -acatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgggg