Sequence
atgc intronic sequence ATGC exonic sequencegtctcataggccaacaaccactcagtatataattacaatttaattagtaatatactaatatttatatctgcaaatgaaatttctaaagttttttcaaacttggttcatttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTTA
Basic information
species | Glycine max |
transcript | GLYMA05G22970.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G22970.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 6
gtctcataggccaacaaccactcagtatataattacaatttaattagtaatatactaatattta-tatctgcaaatgaaatttctaaagttttttcaaacttggttcatttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTTA
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gttcgtctgtgcagggattgcgc--caccgcatctcgcttcc-ttattattgtgcggacaactaacgtaagtgaagagatcgtctcaa---tgcacacgctaactgcatt-----gcagGCACCACCAGCAAGGAAGATGGCAGTCTCGGATTGGAAGAGTCGCTGGAAACAAGGATCTATACCTCGGCACTTTCA
upper sequence: GLYMA05G22970.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 3'ss of exon 6
gtctcataggccaacaaccactcagtatataattacaatttaattagtaatatactaatatttatatctgcaaatgaaatttctaaagttttttcaaacttggttcatttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTTA
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--------------------gtcctttta-aattaca-tttatataactttata-taatacata-gtttaataatgtgaatattga--ctttgtgtgagtt------ttttgtactagACATCACCAGCATGGAAGGTGGCAAGCACGGATTGGTAGAGTCGCTGGAAACAAAGATCTCTACCTTGGAACTTTTG
upper sequence: GLYMA05G22970.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 6
gtctcataggccaacaaccactca-gtatataattacaatttaattagtaatatactaatatttatatctgcaaatgaaatttctaaagttttttcaaacttggttcatttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTTA
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gtcttacta-ttattttctgcttatgtctcatcttgtaattgtattgtcatgttctctgagagaaaaggcgaaaaaaaatcccctgaaatctcttt---cctgcttcgattcttagcagACATCACCAACATGGACGGTGGCAAGCTCGAATTGGCAGAGTTGCAGGGAACAAGGACCTTTATCTTGGGACATTCAMapped 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|14126414|gb|BG790852.1|BG790852EST: AAAAGCAGCGGATTCTCAAGAGGGGCTTCCATGTACAGAGGAGTAACAAG CAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGG
genomic: AAAAGCAGCGGATTCTCAAGAGGGGCTTCCATGTACAGAGGAGTAACAAGgtctcatagg ... catttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatatctgcaaatgaaatttctaaagttttttcaaacttggttcatttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTTA
ttctaaa putative branch site (score: 2)
ttcattt putative PPT
aaatgaaatttctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctcataggccaacaaccactcagtatataattacaatttaattagtaatatactaatatttatatctgcaaatgaaatttctaaagttttttcaaacttggttcatttggtagCAGACACCACCAACATGGAAGGTGGCAAGCTCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA