Sequence
atgc intronic sequence ATGC exonic sequence...tcgatgatttccattcttttgaataaattagtggcatacatgtttctataatcatttataaaatcatgtttcttaactaattctcgttgaatgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG
Basic information
species | Glycine max |
transcript | GLYMA08G21620.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
-tcgatgatttccattcttttgaataaattagtggcatacatgtttctataatcatttataaaatcatgtttcttaactaattctcgttgaatgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG
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gtattttattcctctagttttgtttttgttaattggatata-gttattctgctttttcctcaatggttgttttt---gtattttccgta--------acagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
upper sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 4
-tcgatgatttccattcttttgaataaattagtggcatacatgtttctataatcattta--taaaatcatgtttcttaactaattctcgttgaatgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG
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atctaaggggt--attcctttataacttttgctgccgaaatttctctctccatgacttggttgatagtattttcctttgaaaact-ttgtatgacgtgtgcagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCACTGGAGTGGCAGCACGAGCCTGCGGCCTGGTGGGTCTAGAGCCTACAAGG
upper sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S15_11V6.1 (Physcomitrella patens), 3'ss of exon 5
tcgatgatttccattcttttgaataaattagtggcatacatgtttctataatcatttataaaat------catgtttcttaactaattctcgttgaatgtg-cacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG----
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---ttaatttaggagct----aacaaggtaatgatattgattctttaattcaaattaaagtggttgattgcaaatgccattgctgatacgtcactagtgcaatgcagCCTGGTCCGGATGCCATTGGCATCATTGCTATATCCCATGGTTGCGTGGGCATAGCAGCTCGAGCGTGCGGCCTTGCGGCGCTCGATTTTAGCAAAGTTGMapped 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|193400827|gb|FK368748.1|FK368748EST: AGTGGGTCCAAATGCCTGGAATGAAG CCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCACTGGT
genomic: AGTGGGTCCAAATGCCTGGAATGAAGgtatccgtcc ... atgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctataatcatttataaaatcatgtttcttaactaattctcgttgaatgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG
aactaat putative branch site (score: 2)
atttataaaatcatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcgatgatttccattcttttgaataaattagtggcatacatgtttctataatcatttataaaatcatgtttcttaactaattctcgttgaatgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - ccattct
- - - - - - - - - - - - - - - - -gcataca