Sequence
atgc intronic sequence ATGC exonic sequence...ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattgattgattttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
Basic information
species | Glycine max |
transcript | GLYMA03G02370.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g22640.4 (Oryza sativa), 3'ss of exon 3
ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcc-tgttttgcttaaa--tagatgacataatattgattga---ttttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
| || | | || || || | || | || | | | ||||||| | | ||| | | | | | ||| ||| ||| |||| || || || ||| ||||||||||| ||||||||||| || || ||||||||||||| | || ||||||||||||| | || |||||||
-----aatctcattctccaagttatttttttt-cttaaaagtatgtactatgttttggtagattttagttcttctgggggctactaaacttttagttccatttcagGCTGCCACTGCAGTAGTCAAGGAATCTGTTGAGCCACTGCTAGATGATTATCGACCTCCAGGAATAAAATCTCTGAAGTTCAGCAAATTCTCTCTTGGAA
upper sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G092129_T01 (Zea mays), 3'ss of exon 4
-----ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattga--ttgattttgttttc--ttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
| || | | | || ||| ||||| | | ||| ||| | ||| | || | ||| | ||| || |||| ||| |||||||| ||||| | ||| | | ||||| ||||||||||||||||| || ||| | ||||||||||| | || |||||||||||||| | || |||||||
tttgttaagacatgcctagctgtatgttttgctgcaatctt----gtgc---cctaccctacttca-taagccatata-tgctgagcttacttttcattttaattttagGCTGCAACAGTAGTGGTTAAGGAATCCGTTGAACCACTGCTAGATGATTACCGGCCTCCAGGAATAAAATCTTTGAAGTTCAGCAAATTTTCTCTTGGAA
upper sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G61030.1 (Arabidopsis thaliana), 3'ss of exon 3
ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattgattgat---tttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
||| | ||| | | | ||||| | | | | || || || | | ||||||| ||| | || | || ||||||||||| |||| | ||| | ||||||||||| || || ||||| |||||||| |||||||||||||| | ||||||||||| || | |||||
cctaagataggtccaatttgttggaatggaaaacactt-gccacaatgcaccttggc--aatcaaagagtgtaatattcgttgttgtgttgactaatttccagGCAGCAACCATGGTAGTAAGATATTCTGTTGAACCTCTTCTTGAAGATTACAGACCACCAGGAATTACTTCCCTCAAGTTCAGCAAATTGAC-CTTGG--
upper sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 4
ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattgattgat---tttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
||| | ||| | | | ||||| | || | | | || | || | | ||||||| ||| | || | || |||||||||| |||| || ||||| ||||||||||| ||||| ||||| |||||||| |||||||||||||| ||||||||||||| || | | || |
cctaagataggtccaatttgttggaatggaaaacactt-gccataatgcagcttgga--aatcaaagagtgtaatattcgttgttgtgttgactaatttccagGCAGCAACAATGGTAATAAGAGATTCTGTTGAACCTCTGCTTGAAGATTACAGACCACCAGGAATTACTTCCCTGAAGTTCAGCAAATTGACGTTGGGTA
upper sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G60950.1 (Arabidopsis thaliana), 3'ss of exon 3
ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattgattgat---tttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
||| | ||| | | | ||||| | | | | || || || | | ||||||| ||| | || | || ||||||||||| |||| | ||| | ||||||||||| || || ||||| |||||||| |||||||||||||| | ||||||||||| || | | || |
cctaagataggtccaatttgttggaatggaaaacactt-gccacaatgcaccttggc--aatcaaagagtgtaatattcgttgttgtgttgactaatttccagGCAGCAACCATGGTAGTAAGATATTCTGTTGAACCTCTTCTTGAAGATTACAGACCACCAGGAATTACTTCCCTCAAGTTCAGCAAATTGACCTTGGGTA
upper sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0048g01410.t01 (Vitis vinifera), 3'ss of exon 4
----ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattgattgattttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
| | | | || | | || |||||| | || || ||| || || | ||| || ||| | || | | | |||||||||| ||||| || |||||||||||||| || || || ||||| ||| | |||||||||||||||||||| |||||||| ||||| || |||||||
ggaatcaaaaatacaaagacatgaactccaatg-gtccatagaacaatttttctcttt--ctgaagtttgaagggtaa-gttctttggctgggtctgttctcagGCAGCAACATTGGTAATTAGAGAATCTGTTGAGCCCCTTCTGGAAGACTACCGGCCTCCAGGAATTACTTCATTAAAGTTCAGTAAGCTCTCTCTTGGAAMapped 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|193358978|gb|FK325408.1|FK325408EST: GAAATGGCTAAAACAAGAAACTGACCAAACTTTGGCCATTTGTGGCAGAA GCAGCAACCTTGGTGATCA
genomic: GAAATGGCTAAA-CAAGAAACTGACCAAACTTTGGCCATTTGTGGCAGAAgtgagtatgc ... tttcttttagGCAGCAACCTTGGTGATCA
EST:
gi|15285584|gb|BI469475.1|BI469475EST: TGAAATGGCTAAACAAGAAACTGACCAAACTTTGGCCATTTGTGGCAGAA GCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTAC
genomic: TGAAATGGCTAAACAAGAAACTGACCAAACTTTGGCCATTTGTGGCAGAAgtgagtatgc ... tttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTAC
EST:
gi|298174687|gb|HO014718.1|HO014718EST: TGAAATGGCTAAACAAGAAACTGACCAAACTTTGGCCATTTGTAGCAGAA GCAGCAACCATGGTGATAAGAGAATCTGTTGAACCACTGCTAGAAGAGTAC
genomic: TGAAATGGCTAAACAAGAAACTGACCAAACTTTGGCCATTTGTGGCAGAAgtgagtatgc ... tttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcctgttttgcttaaatagatgacataatattgattgattttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
ttttgttttctttt CT-rich tract
ataatattgattgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggagaccttttacattaaatttccttgcaaacatagaggtgtattcctgttttgcttaaatagatgacataatattgattgattttgttttcttttagGCAGCAACCTTGGTGATCAGAGAATCTGTTGAACCACTGCTAGAAGAGTACAGACCTCCAGGAATTACTTCATTGAAGTTCAGCAAGCTGTCACTTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG