Sequence
atgc intronic sequence ATGC exonic sequence...accttcgcatagcgaagagcctctgggcaatggggtacgaagtttttatactaaattgttgaagtatcaaattgaacatctcccttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
Basic information
species | Glycine max |
transcript | GLYMA03G24630.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g31380.1 (Oryza sativa), 3'ss of exon 4
--------accttcgcatagcgaagagcctctgggcaatggggtacgaagtttttatactaaattgttgaagtatcaaattgaacatctcccttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
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ataagacagtctaccttttgcttttgatttttgaacatctctcaagaaaaaaaatgtcatataatctcaaagta---aataaaatatgtccgtt-----cctttgcagGTTGACATGATAGTAGTGACTGATGGAAGCAGGATATTGGGCCTGGGTGATCTCGGGGTGCATGGTATTGGTATTGCCATTGGAAAGTTGGATCTATATG
upper sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G406672_T02 (Zea mays), 3'ss of exon 4
accttcgcatagcgaagagcctctgggcaatggggtacgaagtttttatactaaattgttgaagtatcaaattgaacatctcccttgatattct-tttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
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-atgccttttgatcctttgccttttggagatctaaaaggacaaacatttccagaactttttgtacaattccaaaaatggttatttggccattctgtttcagGTTGACATGATAGTGGTGACTGATGGAAGCAGGATATTGGGTCTTGGTGATCTTGGGGTGCATGGTATTGGCATTGCTATTGGAAAATTGGATTTATATG
upper sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G13560.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------accttcgcatagcgaagagcctctgggcaatggggtac---gaagtttttatac--taaattgttgaagtatcaaattgaacatctcccttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
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gttcttcgatatatctgacactgtgcttaagatatctcaactctatttggctgactaatccaatgcgttctaccctctttctcttattgtatacctaggaactggtatatctttaagtgaccattagttttctgatgtaacgtttttgctatacattt-agGTTGATATGATTGTTGTTACCGATGGAAGCCGGATTTTGGGTCTTGGAGATCTAGGTGTTCATGGAATTGGAATTGCTGTAGGGAAGCTTGATTTATATG
upper sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 4
accttcgcatagcgaagagcctctgggcaatgggg--tacgaagtttttatactaaattgttgaagtatcaaattgaacatctccc--ttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
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----taatatagtttgcaatcttttggttttgtgtcttgcagaatacacgaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATGMapped 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|208242790|gb|GE041508.1|GE041508EST: AGGATCGTGGAGAAATGATGTCTATGGTGTATAACTGGCCAGCTGAGCAG GTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGAT
genomic: AGGATCGTGGAGAAATGATGTCTATGGTGTATAACTGGCCAGCTGAGCAGgttgttaact ... ttcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatactaaattgttgaagtatcaaattgaacatctcccttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
tattcttttc CT-rich tract
atattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accttcgcatagcgaagagcctctgggcaatggggtacgaagtttttatactaaattgttgaagtatcaaattgaacatctcccttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
-ccttcgc
- - - - - - - - - gcctctg
- - - - - - - - - - - - -ggcaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgaa