Sequence
atgc intronic sequence ATGC exonic sequencegtttgtccagcctgcaccaagtaaaaaaaaaaaacatttaatgccctttaccacttttgaatgctgatttttcactgaattttggaagaaagGGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTATCTGTTTGAGTACTTTCAAGATGACTTAATTGTTGTTCTTACAAATTCG
Basic information
species | Glycine max |
transcript | GLYMA02G34940.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G34940.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g36070.1 (Oryza sativa), 3'ss of exon 6
-----------gtttgtccagcctgca--ccaagtaaaaaaaaaaaacatttaatgccctttaccacttttgaatgctg--atttttcactgaat------tttggaagaaagGGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTATCTGTTTGAGTACTTTCAAGATGACTTAATTGTTGTTCTTACAAATTCG
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gttggctaaagataaatcttctttacagtccatgatttttctacaaattttagttggattttctctttgatggatgttgtgactaacatctgcatccactatttggaagaaagGGTGAAGGTTCCATGGCCAGTTTCGGAGAGAGAAGCTCTTCTTCACTACTTCGAATTAGAGTATCTTAAAGAAGATCTTGTCATTGTAATCATGAAAACT
upper sequence: GLYMA02G34940.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G104449_T02 (Zea mays), 3'ss of exon 6
--gtttgtccagcctgcaccaagtaaaaaaaaaaaac---atttaatgccc--tttaccacttttgaatgctgattt-ttcactgaat-tttggaagaaagGGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTATCTGTTTGAGTACTTTCAAGATGACTTAATTGTTGTTCTTACAAATTCG
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aagtccctcctaggttggtcaagtattttttagagtttttacttattcttcagtttatggtggttgta-gctaatttgtttattcgctatttggaagaaagGGTGAAGGTTCCATGGCCGGTTTCAGAGAGAGAGGCTATTCTACACTATTTTGAACTGGAATATCTTAAAGAAGATGTCGTAATTGTGATAATGAAAACTMapped 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|33390184|gb|CA853391.1|CA853391EST: GCTGAATGTTTGCAAAAGACCCGGATTGGGGAACAATTATCACTAGTGAG GGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTA
genomic: GCTGAATGTTTGCAAAAGACCCGGATTGGGGAACAATTATCACTAGTGAGgtttgtccag ... tggaagaaagGGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatgccctttaccacttttgaatgctgatttttcactgaattttggaagaaagGGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTATCTGTTTGAGTACTTTCAAGATGACTTAATTGTTGTTCTTACAAATTCG
tgctgat putative branch site (score: 3)
ttttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtccagcctgcaccaagtaaaaaaaaaaaacatttaatgccctttaccacttttgaatgctgatttttcactgaattttggaagaaagGGTGAAGGTTTCATGGCCTCTGTCTCTGAGGGAAGCTATAGTGCACTATTATCTGTTTGAGTACTTTCAAGATGACTTAATTGTTGTTCTTACAAATTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG