Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcagtgtatctttcgtaatctaattttttaatccctcaattaacggtttcattgggatccgttaattgaaattaagaatgatagtggtttgactgttcatctttgagcagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACT
Basic information
species | Glycine max |
transcript | GLYMA10G37560.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G37560.2 (Glycine max), 3'ss of exon 4
lower sequence: AT4G25700.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtcagtgtatctttcgtaatctaatttttta---atccctcaattaacggtttcattgggatccgttaattgaaattaagaatgatagtggtttgactgttcatctttgag-cagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACT
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-----------------ttgtattttaatattggatacatgtgatgacaaatgactttgttggc-tgcattaacacaaatgacctggtggcttaattttaa-gctcgtccttgaaacagGGGTTAGGCATAACGGTGTTTGGAATCGCCTACATGTTTGTCCACGATGGTCTCGTGCACAAGCGTTTCCCTGTAGGTCCCATCGCCGACGTCCCTTACC
upper sequence: GLYMA10G37560.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G52570.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtcagtgtatctttcgtaatctaattttttaatccctcaattaacggtttcattgggatccgttaattgaaattaagaatgatagtggtttgactgttcatctttgagcagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACT
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-----tccaaacatgaaagattgggtg-tacttagactaatgaaaccactatacgagtactatctgtttcttgttttttgtgctgac--tggtttg-----taatatc--accagGGACTGGGAATAACGATGTTTGGAATGGCTTACATGTTCGTTCACGATGGACTTGTGCACAAGAGATTCCCTGTAGGTCCCATTGCCAACGTTCCTTACC
upper sequence: GLYMA10G37560.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 4
---------gtaag-tcagtgtatctttcgtaatctaattttttaatccctcaat-----taacggtttc-----attgggatccgttaattgaaattaagaatgatagtggtttgact------gttcatctttga----gcagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACT
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gtaagttccatagtctcactgtacctattgattgatgactctgtgattagtgattactgattacagttcccaataattattttctatttttgaaaaacaaaaacagtttaccttcagcttacaaaatcagtgtttggttacacagGGCCTTGGAATTACCGTGTTTGGAATGGCCTACATGTTTGTCCACGATGGTCTCGTCCACAGGAGATTTCCAGTGGGGCCCATTGCGAACGTGCCCTATTMapped 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|18733872|gb|BM527861.1|BM527861EST: CATACGGTATTTTCCACAAGGGTCTGGTCCCTGGGCTCTGTTTTGGTGCA GGCCTTGGAATCACGGTATTTGGGATGGCCTACATG
genomic: CATACGGTATTTTCCACAAGGGTCTGGTCCCTGGGCTCTGTTTTGGTGCAgtaagtcagt ... ctttgagcagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatccgttaattgaaattaagaatgatagtggtttgactgttcatctttgagcagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACT
gtttgac putative branch site (score: 4)
ttcatcttt putative PPT
ttaattgaaattaaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcagtgtatctttcgtaatctaattttttaatccctcaattaacggtttcattgggatccgttaattgaaattaagaatgatagtggtttgactgttcatctttgagcagGGCCTTGGAATCACGGTATTTGGGATGGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA