Sequence
atgc intronic sequence ATGC exonic sequence...tattagctagagtgtatgtttccttatcttgatggcaagtgcctattaatctaaatatcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
Basic information
species | Glycine max |
transcript | GLYMA19G22690.1 |
intron # | 12 |
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 12
lower sequence: LOC_Os04g40874.1 (Oryza sativa), 3'ss of exon 11
tattagctagagtgtatgtttccttatcttgatggcaagtgcctatta--atctaaatatcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
| | | | | | || | || | | | | || | | || |||| ||| || | || ||| || ||||| || | || |||| ||| ||| || |||||||||||||| |||||||| || || |||||||| ||||||||||| |||||
-aatgcagatacctttttttccttttttctatcagtatgttcttttttgtatcttaattgca-tgtgggtctaacatttgaactaaacacatcctggtgaagGTAAAAGGCAAGGAAGAAATGAGTTTGTCATACGCCTTCAGCCATCAGAAGCCATGTACATGAAACTTACT
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G130230_T02 (Zea mays), 3'ss of exon 12
tattagctagagtgtat-gtttccttatcttgat--ggcaagtgcctatta-atctaaatatcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
| || | ||| | || |||| ||| | | | || || | | || ||||| || | ||| ||| | | | |||| || | | ||| | ||||| || ||||||||||||||||||||||| ||||| |||||||| ||||||||||| || ||
-aacgaatattttatattggtttattatgttgctctgttatgtctgaataagaattagatatc--ctggtatttgaac-taaatataaatataacctgatgaagGCAAGAAGCAAGGAAGAAATGAGTTTGTTATACGCCTCCAACCATCAGAAGCCATGTACATGAAACTAACT
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G031107_T02 (Zea mays), 3'ss of exon 12
tattagctagagtgtatgtttccttatcttgatggcaagtgcctattaatctaaatatcaacttatgtttaa---accttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
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tgattactaccttcaatgattctgt-tcaaagcaccagatttccatttaa--acttgtctggttgcactgaacgtgtttaatcctctgtgctctcttttatagGCAAGAAACAAGGCAGGAATGAGTTTGTCATACGCCTGCAGCCATCAGAAGCCATGTACATGAAACTAACG
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 12
------tattagctagagtgtatgtttcc--ttatcttgatggcaagtgcctattaatctaaatatcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
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gtattgtcttgccctgacatcgtgttttgaatcttcttttagctttttgaatttaaatatatgtaaagacaca-atgtatcgctttgtctaaactctcttgcaac-agGTCAAAAGCAAGGAAGGAACGAGTTTGTGATACGCTTGCAACCTTCAGAGGCAATGTACATGAAACTAACT
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 13
tattagctagagtgtatgtttccttatcttgatggcaagtgcctattaatctaaata-tcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
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---------------------gtttgtatcgagaccaaat-caaaccttcccaaatacttgaaatttggttgg-tctaacctctcatgcaatgcaa--cagGTCAAAACCAAGGGAGGAACGAGTTTGTTATACGCTTGCAGCCTTCAGAGGCCATGTACATGAAGCTAACT
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 12
tattagctagagtgtatgtttccttatcttgatggcaagtgcctattaatctaaatatcaactta-tgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
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tattaactgctttagtcataaacattggttca-agcagagatctttaaatcaaattgttgctttaatattttattaatattcagatggtttctgtgtttagGTCAAAGGCAGGGGAGAAATGAATTTGTAATACGCCTCCAACCTTTAGAGGCCATTTACATGAAGCTTACGMapped 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|213607196|gb|DB965110.1|DB965110EST: GGCAGACATACGGGTTCAATTCAAGGATGTTCCTGGTGATATTTTTAAGT GTCANAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAG
genomic: GGCAGACATACGGGTTCAATTCAAGGATGTTCCTGGTGATATTTTTAAGTgtatgagacc ... tcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAG
EST:
gi|209700934|gb|BW661313.1|BW661313EST: GGCAGACATACGGGTTCAATTCAAGGATGTTCCTGGTGATATTTTTAAGT GTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAG
genomic: GGCAGACATACGGGTTCAATTCAAGGATGTTCCTGGTGATATTTTTAAGTgtatgagacc ... tcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatctaaatatcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
cttattcct CT-rich tract
taaatatcaacttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattagctagagtgtatgtttccttatcttgatggcaagtgcctattaatctaaatatcaacttatgtttaaaccttactgtaaacttattcctgtttagGTCAAAAGCAGGGGAGAAATGAGTTTGTTATACGCCTGCAACCTTCAGAAGCTATGTACATGAAGCTTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - tgtttcc
- - - - - - - - - - - - - - -tgatggc
- - - - - - - - - - - - - - - - - - - gtgccta