Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGTTACCGGCAAGATATATCACTTGAAGTATTCTCCTCCAGAGACACAAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGAAAAGgcattcatcaatatatccctatatgaaactacaatcccttctttccactaagatatctcatttcttttcctttgttgtttgcttttgacttag
Basic information
species | Glycine max |
transcript | GLYMA09G36900.4 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G36900.4 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G178192_T03 (Zea mays), 5'ss of exon 6
TCCTGTTACCGGCAAGATATATCACTTGAAGTATTCTCCTCCAGAGACACAAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGAAAAGgcat-------------tcatcaata----tatccctatatgaaactacaatcccttctttccactaagatat-----ctcatttc--ttttcctttgttgtttgcttttgacttag---------------------------------
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TCCTGTAACAGGGAAAATATATCATTTGAAGTATTCTCCGCCAGAGAATGAAGAAATCGCTTCAAGGCTTACACAAAGATTTGACGATACAGAAGAAAAGgtgtgtacttttactggttattggtaagagtaatgtcaaatgcaattgccaggtctatcattgaacaggaaataattgcttatcttggtattacattgttacgcaaatgagattccacttctgacacatcttgcttttgttgttttacag
upper sequence: GLYMA09G36900.4 (Glycine max), 5'ss of exon 4
lower sequence: AT5G47840.1 (Arabidopsis thaliana), 5'ss of exon 4
TCCTGTTACCGGCAAGATATATCACTTGAAGTATTCTCCTCCAGAGACACAAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGAAAAGgcat-tcatca------atatatccctata-------tgaaactacaatcccttctttccactaagatatctc--------atttcttttcctttgttgtttgcttttgacttag
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TCCTGTCACAGGAAAGATCTACCACTTGAAGTATTCGCCTCCAGAGACAGAAGAGATTGCTGTTAGACTCACCCAACGTTTTGATGATACCGAAGAGAAGgcaaatcaatacttcttatatatctcttgaaagtttctcattcgataattatttctacacatgagattgactcttagtcaaattatgtctctgaagtttttctctttcgctgtag
upper sequence: GLYMA09G36900.4 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0041g01280.t01 (Vitis vinifera), 5'ss of exon 6
TCCTGTTACCGGCAAGATATATCACTTGAAGTATTCTCCTCCAGAGACACAAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGAAAAGgcattcatcaatatatccctata--tgaaactacaatcccttctttccactaagatatctcat--ttcttttcctttgttgtttgcttttgacttag--------------------------------------------------------------------------------
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TCCTGTCACTGGGAGGATATACCACTTGAAGTATTCTCCCCCTGAGAATGAAGAAATTGCTGCTAGGCTTACTCAACGCTTTGATGATACTGAGGAAAAGgcatgttctaaatcattgtgattgctttaaattcattgccttgtggtc-cttggttattatatgctgctttcttattgtttcttgtcctgcatcttgatcttattttgtgcttgttttcagccattttggtctttaattgatagccttcattcactttctcttctgatcatgtttagMapped 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|7232845|gb|AW568197.1|AW568197EST: AAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGATAAG GTGAAATTGCGATTGAATACCCATCATCAAAATGTGGAGTCAGTCCTTTCC
genomic: AAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGAAAAGgcattcatca ... tttgacttagGTGAAATTGCGATTGAATACCCATCATCAAAATGTGGAGTCAGTCCTTTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGTTACCGGCAAGATATATCACTTGAAGTATTCTCCTCCAGAGACACAAGAAATAGCCGCAAGGCTTACCCAACGCTTTGATGATACAGAAGAAAAGgcattcatcaatatatccctatatgaaactacaatcccttctttccactaagatatctcatttcttttcctttgttgtttgcttttgacttag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA