Sequence
atgc intronic sequence ATGC exonic sequence...tccatcaacatgaattaagctttgattttcaagcttttgtcaatctcaccttaaaattcttgcttgagaacaccgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
Basic information
species | Glycine max |
transcript | GLYMA04G40920.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G40920.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G138245_T01 (Zea mays), 3'ss of exon 1
tccatcaacatgaattaagctttgattttcaagcttttgtcaatctcaccttaaaattcttgcttgagaa---caccgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
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--cacttcctagctcaatgcaccaggggaaaaatatctcttggcctagatttcctattttaatttacaaaagtcacctcaatcctttggttttc-tcttgcagATGACAACAGCAATATCTATTGAGGATGTGCGCAGAGAGGTGAAAATTTTGAAGGCGTTATCTGGACATTCCAATCTTGTCAAGTTTTATGATGCTTGTG
upper sequence: GLYMA04G40920.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G100560_T01 (Zea mays), 3'ss of exon 1
tccatcaacatgaattaagctttgattttcaagcttttgtcaatctcaccttaaaattcttgcttgagaacac-cgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
| | || | | || || | | | |||| || | ||| | | || | | | ||| | ||||| | | ||||||||| | ||||| || || ||||| | | ||||||||||| ||||| || |||||||||||| ||| | ||||||||||||||||| | ||
-ctagcacctagctcactgcaccaggggaaaaatatgtcttgatctagattttatatttagtttgcaaaattcacctcattcctttgtttttctcttgcagATGACAACGGCAATATTTATTGAGGATGTGCGCAAAGAGGTGAAAATTTTGAAGGCGTTATCTGGACATTCCAATCTTGTCAAGTTTTATGATGCTTGTG
upper sequence: GLYMA04G40920.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G378949_T01 (Zea mays), 3'ss of exon 4
tccatcaacatgaattaagctttgattttcaagcttttgtcaatctcaccttaaaattcttgcttgagaacac-cgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
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-ctagcacctagctcactgcaccagtggaaaaatatatcttgatctagattttatatttagtttgcaaaattcacctcattcctttgtttttctcttgcagATGACAATGGCAATATCTATTGAGGATGTGCGCAGAGAGGTGAAAATTTTGAAGGCGTTATCTGGACATTCCAATCTTGTCAAGTTTTATGATGCTTGTG
upper sequence: GLYMA04G40920.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0098g01140.t01 (Vitis vinifera), 3'ss of exon 1
tccatcaacatgaattaagctttgattttcaagcttttgtcaatctcaccttaaaattcttgcttgag---aacaccg-taattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
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tttttctttttctgt--gactgcatcataaaagcaattaattgttttac--taagttggtgggtgggggtgagtattggtaactaaattaatgttatttggcagATGACAACAGCAATAGCGATTGAAGATGTTCGTAGGGAGGTGAAAATTTTAAAAGCTTTGTCTGTGCATAAGAATTTGGTCAAATTTCACGATGCATGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaccttaaaattcttgcttgagaacaccgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
tttttgt CT-rich tract
taattaactgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccatcaacatgaattaagctttgattttcaagcttttgtcaatctcaccttaaaattcttgcttgagaacaccgtaattaactgatttttgtatggcagATGACTTCAGCAATTGCAATCGAAGATGTAAGGAGGGAGGTGAAAATGTTGAAAGCCTTATCTGGACATAAGAATTTGGTCAAGTTTTATGATGCATTTG
-ccatcaa
- - - - catgaat
- - - - - - - - - - - - - -ttcaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttga