Sequence
atgc intronic sequence ATGC exonic sequence...ttttcctgagatgtcatcagtgatgtgaggtgaaatccccaaagtgcctgttaacatagccacctagatctcaaacagcttacttttagaatttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGATGGAAAAGTCTTGTTTGGAAGTGATGGCAGTTCAACATTGTATCAAATGA
Basic information
species | Glycine max |
transcript | GLYMA09G24450.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G011893_T01 (Zea mays), 3'ss of exon 5
---ttttcctgagatgtcatcagtgatgtgaggtgaaatccccaaagtgcctgtta-acatagccacctagatctcaaacagcttacttttagaatttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGATGGAAAAGTCTTGTTTGGAAGTGATGGCAGTTCAACATTGTATCAAATGA
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tggcattaccgatatctcttgaac--ttttatttgc--tcaccagtttacttttggtgcatgattatgttgttgttgttaatttcctatatactgaatatgcagTGCACGAGTTTTACCCATAAAATGCGAGATGGTTGGGGTCTGGCGACTGATGGAAAAGTTCTTTTTGGCAGTGATGGCACCTCAATGCTGTATAAGCTGG
upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G25720.1 (Arabidopsis thaliana), 3'ss of exon 5
ttttcctgagat---gtcatcagtgatgtgaggtgaaatccccaaagtgcctgttaacatagccacctagatctcaaacagcttacttttagaatttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGATGGAAAAGTCTTGTTTGGAAGTGATGGCAGTTCAACATTGTATCAAATGA
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ttgtcataggtttaagctaccatgtttccattgcttcaccactttattatggactagtattgttattt---tcttttatattaagcatttgatttcactgtagGTAAAACCATTTAAACATCATATGAAAGATGGATGGGGACTGGCTACCGATGGAAAAGCGTTATTTGGAAGTGATGGCACTTCTACATTATATCGGATGG
upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 5
ttttcctgagatg-tcatcagtgatgtgaggtgaaatccccaaagtgcctgttaacatagccacctagatctcaaacagctt----acttttagaatttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGATGGAAAAGTCTTGTTTGGAAGTGATGGCAGTTCAACATTGTATCAAATGA
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-----ttggtgtgctcttttggaataagatgcattctttgtgaagagtccaattagttgcttgccaagatctgttatgacattcatgcttttattctcagtgcagTTTGAGACATTTACTAATCATATGCGGGATGGTTGGGGACTGGCAACTAATGGGGAAGTTTTGTTTGGAAGTGATGGAACTTCGACACTGTATCAGATTGMapped 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|151393930|gb|EV263801.1|EV263801EST: CTTGGTTGCGGACAAATGGTTTCATATATGACCCAAAACATTTAAGCCAA ATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGAT
genomic: CTTGGTTGCGGACAAATGGTTTCATATATGACCCAAAACATTTAAGCCAAgtttgttgct ... atttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctgttaacatagccacctagatctcaaacagcttacttttagaatttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGATGGAAAAGTCTTGTTTGGAAGTGATGGCAGTTCAACATTGTATCAAATGA
tttctgt CT-rich tract
ttacttttagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcctgagatgtcatcagtgatgtgaggtgaaatccccaaagtgcctgttaacatagccacctagatctcaaacagcttacttttagaatttctgtagATTGGGACATTTAATCATGATATGAATGATGGTTGGGGTCTGGCAACTGATGGAAAAGTCTTGTTTGGAAGTGATGGCAGTTCAACATTGTATCAAATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
-tttcctg
- - - - - -tgtcatc
- - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - ccccaaa
- - - - - - - - - - - - - - - - - - - - - -gtgcctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcaaac