Sequence
atgc intronic sequence ATGC exonic sequenceTAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgtgtttttttccccttttataattttgatttgattttttaaagataattcttgggggttgttcattttttttaatgttaactgtcatttttttttcag
Basic information
species | Glycine max |
transcript | GLYMA05G34330.1 |
intron # | 25 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G34330.1 (Glycine max), 5'ss of exon 25
lower sequence: LOC_Os01g68810.1 (Oryza sativa), 5'ss of exon 26
TAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgtgtttttttccccttttataattttgatttgattttttaaagataattcttgggggttgttcattttttttaatgttaactgtcatttttttttcag
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CAAAACTCTACAGCCAATGATTTGTTGCTGCACAGAGTATGAGGCTGGCAGGCTGGGAAGGTTTCTTCATGAGACACTGAAGATGGCCTACCGTTGGAAGgtatttgg---ttgccacattctttcaaccatagttttatt----ggatagtttttttgctggttttttaatgcttcta---ttcac-gtcaccttttg--cag
upper sequence: GLYMA05G34330.1 (Glycine max), 5'ss of exon 25
lower sequence: GRMZM2G461356_T01 (Zea mays), 5'ss of exon 2
TAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgtgtttttttccccttttataattttgat-ttgattttttaaagataattcttgggggttgttcattttt--tttaatgttaactgtcatttttttttcag----------
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TAAAACCCTACAGCCAATGATATGCTGTTGCACAGAATTTGAAGCTGGCAGGCTTGGAAGATTTTTTCATGATACGTTGAAGATGGCCTACTATTGGAAGgtattttccctctcaactgttaccacacatttatcattgctgtattcatggtaaagaatgggagt-gtcggttattgttttagtgcttcttaattgtttatctccaacatactgcag
upper sequence: GLYMA05G34330.1 (Glycine max), 5'ss of exon 25
lower sequence: AT1G24706.1 (Arabidopsis thaliana), 5'ss of exon 26
TAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgt---gtttttttccccttttataattttgatttgattttttaaagataattcttgggggttgttcattttttttaatgttaactgtcatttttttttcag
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TAAAACGCTGCAACCAATGATCTGCTGCTGTACTGAATATGAAGTTGGAAGACTGGGGAGGTTTTTGTTTGAGACCTTGAAGATTGCATACCACTGGAAGgtaactattgaatattattattctttgacaatcaaagtatagaatc---ggggttttctttctaacctagttactaatgctgttgttg-tttctaatcttttctcag
upper sequence: GLYMA05G34330.1 (Glycine max), 5'ss of exon 25
lower sequence: Vv01s0011g06090.t01 (Vitis vinifera), 5'ss of exon 6
TAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgtgtttttttccccttttataattttgatttgattttttaaagataattcttgggggttgttcattttttttaatgttaactgtcatttttttttcag----
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TAAAACCTTGCAACCTATGATATGCTGCTGTACTGAATATGAAGCTGGTAGACTTGGGAGGTTTCTGTATGAGACTATGAAGATTGCTTACTATTGGAAGgttattatccattttacactgttctt--tcctagttgtattttctt----tcctttttctgtgtcatt--tttatgcaaatttaagatctcttgtattacttggaatt
upper sequence: GLYMA05G34330.1 (Glycine max), 5'ss of exon 25
lower sequence: PP1S80_87V6.1 (Physcomitrella patens), 5'ss of exon 26
TAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgt---acttgtgtttttttccccttttataattttgatttgattttttaaagataattcttgggggttgttcatttttttta---atgttaactgtcatttttttttcag------------------------------------------------------------------------
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TAAAACATTGTTACCAATGATCTGTTGCTGCACTGAGTACGAGGCGGGCAGGCTTGGTCGATTTCTATGTGAAACCCTAAAGATGGCTTACCATTGGAAGgttagatttgttattttttaattatgagttgtgttattgagattgtattaagaccaagcagggcatttactaatttctcttgtttatcataactgt-agtgatcgcacagaatttaccaatttaaaagagcaagctaggtttaaattgcgttctcgaatttcatgtgtccatgtgtaagcagMapped 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|9985875|gb|BE660102.1|BE660102EST: GGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAG AGTGATGAATCTATTTATGAACGTGAGTGTGGAAACATGCCTGGNTTTGCT
genomic: GGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgtgt ... tttttttcagAGTGATGAATCTATTTATGAACGTGAGTGTGGAAACATGCCTGGCTTTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGACCCTACAGCCAATGATATGCTGCTGCACTGAATACGAGGCAGGCAGGCTTGGCAGGTTTCTGTATGAGACTTTGAAGATTGCATACTATTGGAAGgtacttgtgtttttttccccttttataattttgatttgattttttaaagataattcttgggggttgttcattttttttaatgttaactgtcatttttttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG