Sequence
atgc intronic sequence ATGC exonic sequence...acttaattttacttcttttgaacctctttaggcccagtctatcaatcaaacattgcttttatagtttttattgatgattgtatctattaacattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGGATCTGGAATCTGCAGAGCAACTCAGTACCCAGATTGGACAGTTGTTTGA
Basic information
species | Glycine max |
transcript | GLYMA19G22690.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 5
acttaattttacttcttttgaacctctttaggcccagtctatcaatcaaacattgcttttatagtttttattgatgattgtatctattaacattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGGATCTGGAATCTGCAGAGCAACTCAGTACCCAGATTGGACAGTTGTTTGA
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--gtgagtttac---tgttagattttgtta-----acattattagatagagaata-tttggtaataact-tcattggaaatgtatattg----tttccagCTGATCTTGGTGGATGGACTAGGATTGTTGTTGAGAAACCATTTGGAAAGGATTTGGAATCTGCAGAGCAGCTGAGTTCTCAGATTGGAGCCTTGTTTGA
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------------------------acttaattttacttcttttgaacctc---tttag-gcccagtctatcaat-caaacattgcttttatagtttttattgatgattgtatctattaacattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGGATCTGGAATCTGCAGAGCAACTCAGTACCCAGATTGGACAGTTGTTTGA
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gtgagtccctttcagctgtggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacgagttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccagCTGATCTTGGTGGATGGACACGGATTGTTGTGGAGAAGCCATTTGGCAAGGACCTTGAATCTGCAGAGCAACTGAGTTCTCAGATTGGAGAGTTATTTGA
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 5
acttaattttacttcttttgaacctctttaggcccagtctatcaatcaaacattgcttttatagtttt---tattgatgattgtatctat-taacattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGGATCTGGAATCTGCAGAGCAACTCAGTACCCAGATTGGACAGTTGTTTGA
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--taagattcccagttcaagtagatgctgaagccta--ccagtatttaggttcagaacctgtaaatctagatctttatgaatgccttgatgtgatcttttccagCTAATCTTGGTGGATGGACACGCATTGTGGTTGAGAAGCCTTTCGGCAAGGATTTGGATTCTGCAGAGCAACTTAGTGCCCAGATTGGAGAGTTATTTGAMapped 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|192301055|gb|FG990125.1|FG990125EST: AGTATATCCATCAGTTTGCAAGATGATCAAGACTTGTTGCATGAATAAAT CTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGG
genomic: AGTATATCCATCAGTTTGCAAGATGATCAAGACTTGTTGCATGAATAAATgtaagattca ... cattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaacattgcttttatagtttttattgatgattgtatctattaacattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGGATCTGGAATCTGCAGAGCAACTCAGTACCCAGATTGGACAGTTGTTTGA
tattaac putative branch site (score: 1)
ttttatagtttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttaattttacttcttttgaacctctttaggcccagtctatcaatcaaacattgcttttatagtttttattgatgattgtatctattaacattttgtagCTGATCTTGGTGGGTGGACACGTATTGTTGTTGAGAAGCCTTTTGGTAAGGATCTGGAATCTGCAGAGCAACTCAGTACCCAGATTGGACAGTTGTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - -tcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgat