Sequence
atgc intronic sequence ATGC exonic sequence...tgtgactactagatcgcatcataatgtaattagcaatgcaggtatgtgattgtgacttatgaagttttttataattttttttttgtttgttttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
Basic information
species | Glycine max |
transcript | GLYMA16G26210.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 2
----tgtg-actactagatcgcatcataatgtaattagcaatgcaggtatgtgattgtgacttatgaagttttttataattttttttttgtttgttttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
| || | ||| | | || || || | | || ||| | | ||| | || || ||| | | | ||| | |||| ||||| || || || || || || |||||||| || |||||||||||||||||||| || |||||||| ||||| | ||||||||| | ||
ggattttgcatgactctgttatgttgcaaggttatctcc--ttcaattatttcagtgttaattgca---ttggatattaaccaatccatatttatggtttcacagGATTGCTTCGGTAGGCCCATAGCAAGTGCACCAGATGCTTGGTTTGATGTTGTTGAGCGCTACTCCAATGACAGTAACAAGACATTAAA
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g70380.1 (Oryza sativa), 3'ss of exon 2
--tgtgactactagatcgcatcataatgtaattagcaatgcaggtatgtgattgtgacttatgaagttttttataattttttttttgtttgttttttcg-cagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
||| | || || | | ||| | | ||| | || | | | || || | |||| ||| | ||| || | || |||||||||||||| | |||||||| || || || |||||||||||||| || || || || ||||| ||||| | |||||||||||| |
actgt-atcgtaagttcactgcttaaactctagaatgatgtattaatcttccttttgtttgtgtg--tcgttattgactttgtgctgtcaattatcacggcagGACTGTTTTGGCCGGCCAATTGCTAGCGCACCAGATGCTTGGTTTGACGTGGTTGAGCGTTACTCAAATGACAGTAACAAGACACTGCA
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g70360.1 (Oryza sativa), 3'ss of exon 2
--------tgtgactactagatcgcatcataatgtaattagcaatgcaggtatgtgattgtgacttatgaagttttttataattttttttttgtttgttttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
||| ||||| |||| | | || | | | | | | | ||| ||| || ||||| | | || |||| | |||||||||||| ||| |||| || || || |||||||| ||||| ||||| || || |||||||||| ||| | ||||||||||||| |
acgaattatgtacttactaacatgcatggtgaattattaatctgtttaattctcgatctgtt-cttgtg----tttttctgaacgaattactgttc---tcgctgcagGACTGTTTCGGGCGACCGATAGCCAGCAAGCCTGATGCGTGGTTCGATGTGGTTGAGCGCTACTCGACTGACAGCAACAAGACACTGCA
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G23670.1 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------------------tgtgactactag-atcgca-tcata-atgtaattagcaatgcaggtatgtga-ttgtga-cttatgaagttt-----tttataattttttttt-tgtttgttttttcgca-gGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
||| || | | || | | | || | | | ||| || | | || || ||| || | |||| || || | | | ||| | | ||||| || ||| ||||||| |||| || | ||||| |||||||||||||||||||| || || |||||||| ||||| ||||||||||| || ||
gtaaattcattatcaaatctatgattctgttaacaaaatcgaattgattattggcattgtagttatgcaagctttaagcgttgtgaatgtttggcttatgagtttctcgtgtttactgcttgatgactaatgtttatctccgttttgcttcaagGATTGTTTTGAACGACCTATATCGAGTGCACCTGATGCTTGGTTTGATGTGGTTGAGCGCTACTCTAATGACAACAACAAGACGCTTAA
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 2
tgtgactactagatcgcatcataatgtaattagcaatgcaggtatgtgattgt-gacttatgaagttttttataattttt--tttttgtttgttttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
| | || | ||| | ||| | || ||| | ||| | || |||| | | | | |||||| | || | | | || |||||||| ||||| |||||||| |||||||||||||||||||||| ||||| ||||||| |||| ||||| || ||||||||| ||||
tattgct--tggatatttataaaatttcat-gtttatgtgcatttgttcccattgaattatccacataaatgtgatttttcatattgatctttccattgacagGACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAMapped 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|14258687|gb|BG881595.1|BG881595EST: GCTTAGGGCTCGAAGATTTCTACATTCGCCGTTTGTACCTCCGAATTCAG GACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTT
genomic: GCTTAGGGCTCGAAGATTTCTACATTCGCCGTTTGTACCTCCGAATTCAGgtttctattt ... tttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgattgtgacttatgaagttttttataattttttttttgtttgttttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
ttttttttttgtttgt CT-rich tract
ttatgaagttttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgactactagatcgcatcataatgtaattagcaatgcaggtatgtgattgtgacttatgaagttttttataattttttttttgtttgttttttcgcagGACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAA
-gtgacta
- - - - - - - - - - - - - - - - - - tgcaggt
- - - - - - - - - - - - - - - - - - - - - - - -gattgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaag