Sequence
atgc intronic sequence ATGC exonic sequence...aagcatcaacaatcatatgcataacacaatcaaaatcagataaaatgaagcaaaagccttattctcccaaaggataatggaaatcatattattgttgcagGGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTTTGCAGGAGGGTAAGAGTGTTTGATGTTGTTGTACCCGGAGTTCAGAAGATGC
Basic information
species | Glycine max |
transcript | GLYMA16G21630.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G21630.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G35460.1 (Arabidopsis thaliana), 3'ss of exon 1
------aagcatcaacaatcatatgcataacacaatcaaaatcagataaa---atgaagcaaaagccttattctcccaaaggataatggaaatcatattattgttgcagGGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTTTGCAGGAGGGTAAGAGTGTTTGATGTTGTTGTACCCGGAGTTCAGAAGATGC-
|| | || | || | | | | |||| | | || ||||| | | | | |||| | | | ||| | || |||||| |||||||| ||||||||||| |||||||| |||| |||||| | ||| | |||||||||| |||| | |||| | |||| ||
agtctttagagtaaagagtcttgttttcacaatgttcaatgcttattctattcatagagcaataa--tcgtcattgcaaactctgtttg-------attgattgtgtagGGTGCATGGCAGCTTTGGATGCAGAGCATTACTTACAAGAGATTGGATCTCAGCAAGGTAAGAGTGATTGAGGAAATTGT-TGGAAGGCTCAGGTCATTGA
upper sequence: GLYMA16G21630.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G17420.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------aagcatcaacaatcatatgcataacacaatcaaaatcagataaaatgaagcaaaagccttattctcccaaaggataatggaaatcatattattgttgcagGGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTTTGCAGGAGGGTAAGAGTGTTTGATGTTGTTGTACCCGGAGTTCAGAAGATGC
| || ||| ||| | || | | | | ||||| |||||| | | || ||| || ||| || ||||||||| ||||| || ||||||||||| |||||||| |||| |||||| | |||||||||||||||| |||| | | |||| | || | |||
ctaaagtgatttcatgtttact-tcaaatgtttctcatc-tgtttttttggtttcatgaatcaaaagttcaactttcataaac---------aactttatggatggtgcagGGTGCATGGCGGCATTGGATGCAGAGCATTACTTACAAGAGATTGGATCTCAGGAGGGTAAGAGTGATTGAAGAAGCTGTAGGAGAAGGATCCATGATAAMapped 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|16281281|gb|BI944406.1|BI944406EST: TGATGTTCAAGATAAAAAGTATAGGCAAGCTATTACAGCTGCTGGCACTG GGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTT
genomic: TGATGTTCAAGATAAAAAGTATAGGCAAGCTATTACAGCTGCTGGCACTGgtaattcttg ... attgttgcagGGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagcaaaagccttattctcccaaaggataatggaaatcatattattgttgcagGGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTTTGCAGGAGGGTAAGAGTGTTTGATGTTGTTGTACCCGGAGTTCAGAAGATGC
aaatcatattattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagcatcaacaatcatatgcataacacaatcaaaatcagataaaatgaagcaaaagccttattctcccaaaggataatggaaatcatattattgttgcagGGTGTATGGCAGCCTTGGATGCAGAACATTACTTGCAAGGGATTGGTTTGCAGGAGGGTAAGAGTGTTTGATGTTGTTGTACCCGGAGTTCAGAAGATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- -catcaac
- - - - - - - - -tgcataa
- - - - - - - - - - - - - - - caaaatc
- - - - - - - - - - - - - - - - - - - - - -aatgaag