Sequence
atgc intronic sequence ATGC exonic sequence...tattgtacttgccaatatcttctttaaacttatgattgctaccacaaccattgcttcgtacgaatgatcttcatttaaacaaaaacattgaaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCCAAGAATAATTTCTGCGGTTGCTGAGTTTAAGCCTGACATAATACATGCA
Basic information
species | Glycine max |
transcript | GLYMA03G14200.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G14200.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G100652_T03 (Zea mays), 3'ss of exon 1
------------------------tattgtac-ttgccaatatcttc-tttaaacttatgattgctaccacaaccattgcttcgtacgaatgatcttcatttaaacaaaaacattgaaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCCAAGAATAATTTCTGCGGTTGCTGAGTTTAAGCCTGACATAATACATGCA
| ||| | ||| | || || ||| |||| | | | | || || | | | | | | ||||||||||||| ||||||||||||||||| || || || |||| || ||||| |||| || | | |||||
gtgagttccccttctattcttctctgctgtgcgctgctgctgtcccggttcgggaggttgaatgctgaggggaatgctaataccaacaaaataatagGGTAAGGTCTTTGATTTCATCCCA-GCAGCTTCCCTTGCCCCTGGTATCAAAAGGTTCCGCTGTCGCTGGCCCTCAGTCCTCGAATCATCGCAGAAGTTGC----------------------------
upper sequence: GLYMA03G14200.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G100652_T04 (Zea mays), 3'ss of exon 1
------------------------tattgtac-ttgccaatatcttc-tttaaacttatgattgctaccacaaccattgcttcgtacgaatgatcttcatttaaacaaaaacattgaaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCCAAGAATAATTTCTGCGGTTGCTGAGTTTAAGCCTGACATAATACATGCA
| ||| | ||| | || || ||| |||| | | | | || || | | | | | | ||||||||||||| ||||||||||||||||| || || || |||| || ||||| |||| || | | |||||| || ||||||||||| || || ||
gtgagttccccttctattcttctctgctgtgcgctgctgctgtcccggttcgggaggttgaatgctgaggggaatgctaataccaacaaaataatagggtaaggtctttgatttcatccca-gcagCTTCCCTTGCCCCTGGTATCAAAAGGTTCCGCTGTCGCTGGCCCTCAGTCCTCGAATCATCGCAGAAGTTGCTAGATTCAAGCCTGACATTATTCACGCC
upper sequence: GLYMA03G14200.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 3
tattgtacttgccaatatcttctttaaact-tatgattgctaccacaaccattgcttcgtacgaatgatcttcatttaaacaaaaacattgaaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCCAAGAATAATTTCTGCGGTTGCTGAGTTTAAGCCTGACATAATACATGCA
| || | | || | | ||| | | | ||| | || ||| | ||| | | | | | |||| | |||||||| ||||| || ||||||| |||||| ||||| |||||||||||||| || |||||||| || | |||||| ||||||||||| ||||||||||||
ttatgcaagatcttgtaccctttttggtcaattttcttggttttg-aaacatggtttcttctcatggcttgtgattttatttttttttggtttttttgcagCTTTCCTTGCCCATGGTATCGAAAGGTTCCTCTTTCTTTGGCACTTAGCCCTAGAATAATCTCAGAGGTTGCCCGATTTAAGCCTGATATAATACATGCAMapped 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|209708143|gb|BW671159.1|BW671159EST: GAAGGAGTACCCAAGGAATTTTATGGAGCCAAATTAATTGGATCCCGAAG CTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCC
genomic: GAAGGAGTACCCAAGGAATTTTATGGAGCCAAATTAATTGGATCCCGAAGgttgctgact ... aaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCC
EST:
gi|15664172|gb|BI701543.1|BI701543EST: GAAGGAGTACCCAAGGAATTTTATGGAGCCAAATTAATTGGATCCCGAAG CTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCC
genomic: GAAGGAGTACCCAAGGAATTTTATGGAGCCAAATTAATTGGATCCCGAAGgttgctgact ... aaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccattgcttcgtacgaatgatcttcatttaaacaaaaacattgaaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCCAAGAATAATTTCTGCGGTTGCTGAGTTTAAGCCTGACATAATACATGCA
ttcatttaaacaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgtacttgccaatatcttctttaaacttatgattgctaccacaaccattgcttcgtacgaatgatcttcatttaaacaaaaacattgaaaaatgcagCTTCCCTTGTCCCTGGTATCAAAAGGTGCCTCTCTCTTTGGCACTTAGTCCAAGAATAATTTCTGCGGTTGCTGAGTTTAAGCCTGACATAATACATGCA
- - - -cttgcca
- - - - - - - - - - - - - - - - tgattgc
- - - - - - - - - - - - - - - - - - - - -ccacaac
- - - - - - - - - - - - - - - - - - - - - - - - - ttgcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa