Sequence
atgc intronic sequence ATGC exonic sequence...ataccatactactttccgtatttagtttcttgtgtatatgtagctagcccatttccaaccattgtaatgttcttttcctctcttttttctcaatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATGTTCATTTATAACCAG
Basic information
species | Glycine max |
transcript | GLYMA13G30780.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G30780.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 2
-ataccatactactttccgtatttagtttcttgtgtatatgtagctagcccatttccaaccattgtaatgttct--tttcctctcttttttctcaatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATGTTCATTTATAACCAG
|| | | | | | || | || | || | ||| || | | || | | ||| ||| | | | | |||||| | ||||| | | |||||||||||||||||| ||||| |||||||| ||||||||||| ||||| |||||||| || ||||||
tttagctttttgatatt-gtttctatctgtttatttatttg--gtttgctaactcccagtgattatgttttcttactttcctatgtttttctttttttgacagGGAACATACAGCACACAGATTTTCTCCTTGGCTGTCCTTTTATCTAGTATGTTCATATACAACCAG
upper sequence: GLYMA13G30780.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S139_74V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------------ataccatactactttccgtatttagtttcttgtgtatatgtagctagcccatttccaaccattgtaatgttcttttcctctcttttttctcaatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATGTTCATTTATAACCAG
| |||| | | | || | || | | | | | ||| || | | | | | | | || | | | || | ||||||||||||||||| || ||||||||||| ||||| | || || ||||||||| | ||||| |||
gtaagttcttttctttacgacttgattttagtattgttccttgctcgactggatctatgttttaagttcccattccaactcccttcttccctcccaatttttcccaccttcacccccttccttcttctcacta-gacttactgttgactgtatccacatttggcagGGAACATACAGCACACAAATCTTCTCCTTGGCTGTTTTGTTATCAAGCATGTTCGTATATAATCAGMapped 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|208126830|gb|GD926074.1|GD926074EST: ACAATCTCCTGCTATTAGACAGTGAAGGAATAGATGCTTATGATCAAACG GGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATG
genomic: ACAATCTCCTGCTATTAGACAGTGAAGGAATAGATGCTTATGATCAAACGgttagcttgg ... caatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcccatttccaaccattgtaatgttcttttcctctcttttttctcaatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATGTTCATTTATAACCAG
ttgtaatgttcttttc CT-rich tract
attgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataccatactactttccgtatttagtttcttgtgtatatgtagctagcccatttccaaccattgtaatgttcttttcctctcttttttctcaatgtacagGGAACATACAGCACCCAGATCTTCTCCTTAGCTGTCCTTTTGTCTAGCATGTTCATTTATAACCAG
- -ccatact
- - - - - - - - - - - - - -tcttgtg
- - - - - - - - - - - - - - - - - - tatgtag
- - - - - - - - - - - - - - - - - - - - - -ctagccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccaacca