Sequence
atgc intronic sequence ATGC exonic sequence...gacttgccatttccactcctataatttcaacgaataatacatagttctccttcctatatgattttcagctgtacaatgttgatctatttcctcatttcagATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACGCTTCCTTGTTTGACATGAATGTTCCTGCTGTTTGCGCCATCAACCAG
Basic information
species | Glycine max |
transcript | GLYMA04G12490.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G12490.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G043862_T01 (Zea mays), 3'ss of exon 5
gacttgccatttccactcctataatttcaacgaat---aatacatagttctccttcctatatgattttcagctgtacaatgttgatctatttcctcatttcagATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACGCTTCCTTGTTTGACATGAATGTTCCTGCTGTTTGCGCCATCAACCAG
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--------gtttgtgttattacattcttacttgatccaacttcctagtttaccttcttgcattttgaccatat-tacttgactgaactttctatttgtcacagATACCGAGTCTGCTAGGGCCTCAAGAAAACAATACAAGGAGACGCTGTACTCTGTCTTGTTTGACATGAATGTTCCTGCTGTTTGTGCTGTCGATCAG
upper sequence: GLYMA04G12490.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0015g01740.t01 (Vitis vinifera), 3'ss of exon 5
gacttgccatttccactcctataatttcaacgaataatacatag---ttctccttcctatatgattttcagctgtacaat--gttgatctatttcctcatttcagATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACGCTTCCTTGTTTGACATGAATGTTCCTGCTGTTTGCGCCATCAACCAG
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-----tacacaaccagtgattaaagtttggggtttgacatacagggtttttccaatatgtttaattctcatccatctaactggttttctttctttactattctagATAATGAATCTGCTAAAGCATCTCGAAGGCAGCTAAAGGAAACCATTCATTCAGTCTTGTTTGATATGAACGTTCCTGCTGTTTGTGCCATCAACCAGMapped 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|17400877|gb|BM177659.1|BM177659EST: ACCGAATAAACAACCAGTTATTGTTTCTGTGCCAATATGCCATTATGATG ATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACG
genomic: ACCGAATAAACAACCAGTTATTGTTTCTGTGCCAATATGCCATTATGATGgtcagttaca ... ctcatttcagATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctccttcctatatgattttcagctgtacaatgttgatctatttcctcatttcagATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACGCTTCCTTGTTTGACATGAATGTTCCTGCTGTTTGCGCCATCAACCAG
tgttgat putative branch site (score: 4)
tctatttcctcatttc CT-rich tract
tatatgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacttgccatttccactcctataatttcaacgaataatacatagttctccttcctatatgattttcagctgtacaatgttgatctatttcctcatttcagATACCGAATCAGCCAAAGCATCTAGGCAACAGCTTAAAGAGGCAATTTACGCTTCCTTGTTTGACATGAATGTTCCTGCTGTTTGCGCCATCAACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT