Sequence
atgc intronic sequence ATGC exonic sequencegtacttgatctttttctattattgttttttcttatcatactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
Basic information
species | Glycine max |
transcript | GLYMA15G18180.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g08018.1 (Oryza sativa), 3'ss of exon 6
-----gtacttgatctttttctattattgttttttcttatcatactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
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gtaagattatgtaaatccatgcatt-ctgatttgatttatgttctatgctgtttgtatttctgag--attataatgaaactaaatacaccttttagGTCCCGGCTGATGGTGTTTTGGTTAGTGGTCATTCTCTTGCCATTGATGAATCCAGTATGACTGGGGAAAGCAAGATC
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 9
--gtacttgatctttttctattattgttttttcttatcatactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
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gtagagaaggccactgagcatgagcctcatttctga----gtcatgtgtctac---ttctaaattctaaggataccctatttttttttgccagGTCCCTGCTGATGGTATCCTTATCAATGGCCACTCTCTTTCCATAGATGAATCAAGCATGACGGGAGAAAGTAAAATT
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 10
gtacttgatctttttctattattgttttttcttatcatactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
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-----------gtgagtggtttattctccttttaattttgtttttgtccatattaccttgtctaatcgaagtttaaattta---tatctagGTTCCTGCTGATGGAGTACTGATATCTGGCCACTCTCTCGCCCTTGATGAATCTAGCATGACTGGAGAGAGCAAAATT
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 11
----------gtacttgatctttttctattattgttttttcttatcatactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
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taaaagattttagattgatattaatatattatgcagagaaacaaacagtgttttgtccttcaatttttatat-ttatttaacattatccaattttttcaagGTCCCTGCTGATGGAATTTTGATTTCTGGTCACTCTCTTGCAATTGATGAATCAAGCATGACTGGAGAGAGCAAGATTMapped 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|151404324|gb|EV274134.1|EV274134EST: ATATGATATTGTCGTTTGGGGATGTTATACCCCTTAATATTGGTAACCAG GTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAA
genomic: ATATGATATTGTTGTT-GGGGATGTTATACCCCTTAATATTGGTAACCAGgtacttgatc ... ctctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
ttttgac putative branch site (score: 3)
ttcttttctactcttt putative PPT
ttattaagttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgatctttttctattattgttttttcttatcatactttttgactgcattttctctttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAATTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA