Sequence
atgc intronic sequence ATGC exonic sequence...cagtgctcatttttttttactctgttttcttgtatagagctgaaaattttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG
Basic information
species | Glycine max |
transcript | GLYMA02G05430.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05430.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G36050.1 (Arabidopsis thaliana), 3'ss of exon 3
cagtgctcatttttttttactctgttttcttgtatagagctgaaaattttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG-----
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----------gtaagttta-tcggtttctgaatgtatcgatgagatgcttcggcttctaatgatacttggattaaatgttttt--tagttttcttg-tagagaagATGGGAGTGTCTTCTGCGTCAAGGAAGGAGGGTATTTGTTGTTGGGGATCTCAACATTGCTCCTTTTGCTATGGATCGATGTGAAGCTGGGCCTGATTTT
upper sequence: GLYMA02G05430.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G36050.2 (Arabidopsis thaliana), 3'ss of exon 4
cagtgctcatttttttttactctgttttcttgtatagagctgaaaattttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG
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----------gtaagttta-tcggtttctgaatgtatcgatgagatgcttcggcttctaatgatacttggattaaatgttttt--tagttttcttg-tagAGAAGATGGGAGTGTCTTCTGCGTCAAGGAAGGAGGGTATTTGTTGTTGGGGATCTCAACATTGCTCCTTTTGCTATGGATCGATGTGAAGCTGGGCCTG
upper sequence: GLYMA02G05430.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g03440.t01 (Vitis vinifera), 3'ss of exon 4
--cagtgctcatttttttttactctgttttcttgtatagagctgaaaattttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG
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aagaaagtgcattttagctgcctttgtagcatcacggagggtcttg--ttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAGMapped 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|207680791|gb|GD663232.1|GD663232EST: GTTTAAAACTAAAAATTTTACAGGATATTACAG A
genomic: GTTT-AAAC-AAAAATTTTACAGGATATTACAGgtatttgaaa ... tctttaatag-
EST:
gi|207680791|gb|GD663232.1|GD663232EST: GTTTAAAACTAAAAATTTTACAGGATATTACAG A
genomic: GTTT-AAAC-AAAAATTTTACAGGATATTACAGgtatttgaaa ... tctttaatag-
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG
tgttgat putative branch site (score: 4)
tctcttt putative PPT
ttttttcttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtgctcatttttttttactctgttttcttgtatagagctgaaaattttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG
cagtgct
- - - - - - - - - - - - - - - - - - -agctgaa
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