Sequence
atgc intronic sequence ATGC exonic sequencegtgagatttcttgtaacactgcattagatgtttgaccatgtcaaaaattgttgatttaaatttcaaaaattattgtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAGTATGGTGGGGGTCGTCAGCCTGCTGTCTTGAGGACATTTAGTCAAAGGC
Basic information
species | Glycine max |
transcript | GLYMA08G13110.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g43930.2 (Oryza sativa), 3'ss of exon 9
------------------------gtgagatttc-ttgtaacactgcattagatgtt---tgaccatgtcaaaaattgttgatttaaatttcaaaaattattgtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAGTATGGTGGGGGTCGTCAGCCTGCTGTCTTGAGGACATTTAGTCAAAGGC
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gtatgtttaacagttgcatttgtgttaagatttcattggtactaagtgttctgtattgtgttaatatatcagtgatgcctgac---aattgctggtttgcttttacagGCACTGCGTCACATTAGGCAAATTGCACATGAATCAAGTGGGGAAATGCCCTATGGAGGGGGCCGTCAGCCAGCAGTTCTGAGAACATTTAGTCAGAGGC
upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G34710.1 (Arabidopsis thaliana), 3'ss of exon 8
-------gtgagatttcttgtaacactgcattagatgtttgaccatgtcaaaaattgt--tgatttaaatttcaaaaattattgtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAGTATGGTGGGGGTCGTCAGCCTGCTGTCTTGAGGACATTTAGTCAAAGGC
| | | | | |||| || || | || | | | || || || | | | | | | ||||| ||| || ||||||||||||||||||||||| ||||||||||||||||||||||||| || || || ||||| || || || || || |||||||| |
gtaagttcaaatacctttatccaaactgtatatgac-ctgaacgacttggtatgctgcaatgtttcttaagttcggagtcttatttcagGCTTTGAGACATGTAAGACAAATTGCACAAGAAACAAGTGGAGAAGTTCAGTATGGTGGAGGGCGCCAACCTGCGGTTTTAAGAACCTTCAGTCAAAGAC
upper sequence: GLYMA08G13110.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 3'ss of exon 9
gtgaga-tttcttgtaacactgcattagat------gtttgaccatgtcaaaaattgttgatttaaatttcaaaaattatt----gtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAGTATGGTGGGGGTCGTCAGCCTGCTGTCTTGAGGACATTTAGTCAAAGGC
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gtaagaacttatggttgtgtggtgtcattttctctggttttatcatgttcttgttcattctcttatatctttttgatttttttgtatgcagGCATTACGGCACATACGACAAATTGCACAAGAAACCAGTGGAGAAATTCAGTATGGTGGGGGCCGCCAACCTGCTGTTTTAAGGACGTTTAGCCAGAGATMapped 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|13478118|gb|BG507728.1|BG507728EST: GACCCCTCTATGAATCACCAAAATTCTTGGCTTATAAATTGACTACTGCT GGCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAG
genomic: GACCCCTCTATGAATCACCAAAATTCTTGGCTCAGAAATTGACTACTGCTgtgagatttc ... tattgtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatgtttgaccatgtcaaaaattgttgatttaaatttcaaaaattattgtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAGTATGGTGGGGGTCGTCAGCCTGCTGTCTTGAGGACATTTAGTCAAAGGC
tgttgat putative branch site (score: 4)
atgtcaaaaattgttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatttcttgtaacactgcattagatgtttgaccatgtcaaaaattgttgatttaaatttcaaaaattattgtacagGCCTTGCGAAATGTAAGACAAATTGCACAAGAATCAAGTGGAGAAGTTCAGTATGGTGGGGGTCGTCAGCCTGCTGTCTTGAGGACATTTAGTCAAAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG