Sequence
atgc intronic sequence ATGC exonic sequence...aatctacaactaccttacattttattcttctaaagtaactaaataaaatccataaagatttttgttctttggaaattaatgactttggttgtttttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAACTTGTCAATAATCTCATGAAGGCTCCCGAAATGGCGGTGACAATGCAAGA
Basic information
species | Glycine max |
transcript | GLYMA04G21900.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G21900.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g01810.1 (Oryza sativa), 3'ss of exon 3
aatctacaactaccttacattttattcttctaaagtaactaaat---aaaatccataaagatttttgttctttggaaattaatgactttggttgtttttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAACTTGTCAATAATCTCATGAAGGCTCCCGAAATGGCGGTGACAATGCAAGA
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ctcatattac-attttgtagagtatcatttgtaagtgtattcctttcatcttccagactgatgtttgtactt--acaataaattgcaacctatcacctttcagCTACTGCCAGGACTGTTGGCCATTTATCCAAGAGTACTGAGGTGATGAAACTTGTCAATAACCTTATGAAAGCACCAGAGGTGGCTGCCACCATGCAGGA
upper sequence: GLYMA04G21900.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g00540.t01 (Vitis vinifera), 3'ss of exon 4
aatctacaactaccttacattttattcttctaaag-taactaaataaaatccataaagatttttgttctttggaaat--taatgactttggttgtttttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAACTTGTCAATAATCTCATGAAGGCTCCCGAAATGGCGGTGACAATGCAAGA
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--tttctagct-tgttactttgaatcctcaagaaggcttctgcttaactgttttgaatttctatggattcttgaactcctcatggttttggttgatttttcagCAATTGCTCGTACGGTGGGGCATTTGTCGAAGAGTGCAGAGGTAATGAAACTTGTTAATAACCTCATGAAGGCTCCTGAAGTGGCTGTCACGATGCAAGA
upper sequence: GLYMA04G21900.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S89_19V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------------------------------------------------aatctacaactaccttacattttattcttctaaagtaactaaataaaatccataaagatttt----tgttctttgga--aattaatgacttt--------ggttgttt-ttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAACTTGTCAATAATCTCATGAAGGCTCCCGAAATGGCGGTGACAATGCAAGA
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gtaagatgatcaacatgtttgcacatgtcgaggtttctgtgcaggattttagtaacaaaatagcacttgtggaaagctgaga--acaagacatgttattgagacaa-gaaactgtccgaattacagaatagttggacaatgtgcactggatgaattaattgcttaacgaatcggactgtggattgcagCCACTGCACGAGCAGTAGGGCACTTGCAAAAGAGTACTGAGGTTATGACCCTTGTCAACAAGCTCATGAAGGCTCCTCAAGTGGCGGCTACCATGCAAGAMapped 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|151411105|gb|EV280916.1|EV280916EST: AAATAAAGCACAAATGAATTCAATATCAATGCACCTTGGAGAGAGTGTTG CAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAAC
genomic: AAATAAAGCACAAATGAATTCAATATCAATGCACCTTGGAGAGAGTGTTGgtaggttttt ... gtttttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatccataaagatttttgttctttggaaattaatgactttggttgtttttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAACTTGTCAATAATCTCATGAAGGCTCCCGAAATGGCGGTGACAATGCAAGA
aattaat putative branch site (score: 3)
ttgttttt putative PPT
ataaagatttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatctacaactaccttacattttattcttctaaagtaactaaataaaatccataaagatttttgttctttggaaattaatgactttggttgtttttgcagCAATTGCTCGTACTGTGGGACATCTATCAAAGAGTGCTGAGGTTATGAAACTTGTCAATAATCTCATGAAGGCTCCCGAAATGGCGGTGACAATGCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - ccttaca
- - - - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gactttg