Sequence
atgc intronic sequence ATGC exonic sequence...gagaaatgcatataagctgattttatagttgcgtgtaaattaattactggctataagttgtagctccattcatacattctgtactcctttggcacaaaagTTATTAGGTTCACCTGATGATGCAAGCCTTGAATTTCTCCGAAGTGATAATGCCAGAAGATATATTAGACAGCTTCCACAGTACCGGAAGCAAAAATTCT
Basic information
species | Glycine max |
transcript | GLYMA05G37480.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G127141_T01 (Zea mays), 3'ss of exon 4
gagaaatgcatataagctg----attttatag-ttgcgtgtaaattaattactggctataagttgtagctccattcatacattctgtactcctttggcacaaaagTTATTAGGTTCACCTGATGATGCAAGCCTTGAATTTCTCCGAAGTGATAATGCCAGAAGATATATTAGACAGCTTCCACAGTACCGGAAGCAAAAATTCT
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-ttaacttctattaatctgcaccattgagtacctttctcctttgttaaaatgctactataatctgggcattaattttaatgagttttttctcttc----caaaagCTCATAGGCTCTCCAGATGATGCAAGCCTGGGATTTCTTCGAAGTGATAATGCAAAAAGATACATGAAACAACTACCACAGTTTCCAAGACAGGACTTCC
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g00270.t01 (Vitis vinifera), 3'ss of exon 4
---------------------gagaaatgcata---taagctg--attttatagttgcgtgta------aattaattactggctataagttg---tagctccattcatacattctgtactcctttggcacaaaagTTATTAGGTTCACCTGATGATGCAAGCCTTGAATTTCTCCGAAGTGATAATGCCAGAAGATATATTAGACAGCTTCCACAGTACCGGAAGCAAAAATTCT
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gtatggttcttggtgcttttggagtgatgtttacttttggctgcagcattcttgtttccagttttccatgataaatcctacaaaatcagccaatctggctcagaactaccacaatttttttctttggtgtgacagCTTCTCGGTTCACCTGATGATGCAAGTCTTGGCTTTCTCCGAAGTAATAATGCCCGACGATATGTTAGGCAGCTTCCACAATATCCAAAGCAACAAATCTMapped 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|31475071|gb|CD417099.1|CD417099EST: CAGGCTTATAACGGAG TTATTAGG-TCACCTGATGA-GCAAGCCTTGAATTTCTCCGAAGTGATAAT
genomic: CAGGCTTATAACGGAGgtatggtttt ... ggcacaaaagTTATTAGGTTCACCTGATGATGCAAGCCTTGAATTTCTCCGAAGTGATAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actggctataagttgtagctccattcatacattctgtactcctttggcacaaaagTTATTAGGTTCACCTGATGATGCAAGCCTTGAATTTCTCCGAAGTGATAATGCCAGAAGATATATTAGACAGCTTCCACAGTACCGGAAGCAAAAATTCT
ctcctttg CT-rich tract
tataagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagaaatgcatataagctgattttatagttgcgtgtaaattaattactggctataagttgtagctccattcatacattctgtactcctttggcacaaaagTTATTAGGTTCACCTGATGATGCAAGCCTTGAATTTCTCCGAAGTGATAATGCCAGAAGATATATTAGACAGCTTCCACAGTACCGGAAGCAAAAATTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - tgcatat
- - - - - - - -gctgatt
- - - - - - - - - - - - - - -tgcgtgt
- - - - - - - - - - - - - - - - - - - - - - - ctggcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattca