Sequence
atgc intronic sequence ATGC exonic sequencegttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
Basic information
species | Glycine max |
transcript | GLYMA19G34580.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
lower sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 16
gttctatctattactcccctctcatgcctcctttttttttg---cttat-atttttggatact--aatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
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---------gtcagtactctatc-tgtgtcttatttgtggggatcttatcaattgagagttcttcactatctagttaacttgttagagaatctgaactttttttaaaccccatgtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
upper sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
-----------gttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatacctaattaactttccacaacaga---actaaagtctg-aatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
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gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG
upper sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ24836 (Selaginella moellendorffii), 3'ss of exon 17
gttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
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------------------------------------------gtatactgtctagtattccaaaccgactcattt----------agctcttatctgt-cacgtt--tttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
upper sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ30299 (Selaginella moellendorffii), 3'ss of exon 17
gttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatac-ctaattaactttcca---caacagaactaaagtctgaatattttgcttt-gcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
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------------------------------------------------------------gtacactgtctagtattccaaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGTAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGGMapped 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|151398054|gb|EV267932.1|EV267932EST: GCCAAGGACTCAGAATTGCACCTCCTGAAGCCCCCGCGACTGGCTATATG TTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTAT
genomic: GCCAAGGACTCAGAATTGCACCTCCTGAAGCCCCCGCGACTGGCTATATGgttctatcta ... tgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
ttttgcttt CT-rich tract
taattaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA