Sequence
atgc intronic sequence ATGC exonic sequencegtatggaggaatctaaactggcatgatctttagtctacccttctcaccttctttctttaagagttcactgtaaactaaaatcccttgcttttattgaatttgaatggaaaatttcttgaaatgagatagtgttaataacttgctaatgttatatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
Basic information
species | Glycine max |
transcript | GLYMA10G35490.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 11
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 12
gtatggaggaatctaaactggcatgatctttagtctacccttctcaccttctttctttaagagttcactgtaaactaaaatcccttgcttttattgaatttgaatggaaaatttcttgaaatgagatagtgttaataacttgctaatgttatatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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---------------------------------------------------------------------gttagccaacaa--tttaccaccatgttgtt--------aattttctc----tgtgactttttcactgacccag-------acttattttagGCGGAAAGCATCACAGGTTCAAAAGAGGTTACAAGAATGTCATTGACGAAGCTATTCGCTTG
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 12
gtatggaggaatctaaactggcatgatctttagtctacccttctcaccttctttctttaagagttcactgtaaactaaaatcccttgcttttattgaatttgaatggaaaatttcttgaaatgagatagtgttaataacttgctaatgttatatgtct----tagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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----------------------------------------------------------------------------------------gtatgttgaaactgaaatggcataatgtccatatcatataatgatgaatttgttcttaactcaagggttccttatagGAGGAAAGCACCACCGGTTCAAAAGGGGCTATAAAAATGTCATTGATGAAGCTATTCGCTTG
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 11
lower sequence: EFJ15375 (Selaginella moellendorffii), 3'ss of exon 10
gtatggaggaatctaaactggcatgatctttagtctacccttctcaccttctttctttaagagttcactgtaaactaaaatcccttgcttttattgaatttgaatggaaaatttcttgaaatgag--atagtgttaataacttgctaatgttatatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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---------------------------------------------------------------------------------------------------------gtatgttttgatcaaatatgcaacggtgtgattgaatctttcctgtt-ccttttacagGGGGAAAGCATCACCGGTTCAAGAGAGGATACAAAAATGTGATTGATGAAGGCATACGCTTG
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 11
lower sequence: EFJ24972 (Selaginella moellendorffii), 3'ss of exon 10
gtatggaggaatctaaactggcatgatctttagtctacccttctcaccttctttctttaagagttcactgtaaactaaaatcccttgcttttattgaatttgaatggaaaatttcttgaaatgagatagtgttaataacttgctaatgttatatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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-------------------------------------------------------------------------------------------------------gtatgtattgatcaaatatgcaacggtgtgattgaatctgtcctgtt-ccttttacagGGGGAAAGCATCACCGGTTCAAGAGAGGATACAAAAATGTGATTGATGAAGGCATACGCTTGMapped 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|58023217|gb|CX709958.1|CX709958EST: GACAGTGTGACTTCTGATGGGCTTACCACGTTTA-TGAAGAAGAAACTTG GTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAG
genomic: GACAGTGTGACTTCTGATGGGCTTACCACGTTTATTG-AGAAGAAACTTGgtatggagga ... tatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAG
EST:
gi|57575221|gb|CX548196.1|CX548196EST: GGGCTTACCACGTTTA-TGAGAAGGAAACTTG GTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAA
genomic: GGGCTTACCACGTTTATTGAGAA-GAAACTTGgtatggagga ... tatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaatttcttgaaatgagatagtgttaataacttgctaatgttatatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
taatgttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggaggaatctaaactggcatgatctttagtctacccttctcaccttctttctttaagagttcactgtaaactaaaatcccttgcttttattgaatttgaatggaaaatttcttgaaatgagatagtgttaataacttgctaatgttatatgtcttagGTGGAAGACACCATCGGTTCAAAAGAGGTTACAAAAATGTGATTGATGAAGCTATTCGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC