Sequence
atgc intronic sequence ATGC exonic sequence...tacaaatctagtagacagatttttttatttacttatgtttgtttgattttgtatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
Basic information
species | Glycine max |
transcript | GLYMA02G48200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 1
----tacaaatctagtagacagatttttttatttacttatgtttgtttgattttgtatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
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gtattattagattagtctaagaaactgtcacaaaattgttgcatgactcgttaagagtaaatgtaatgtattaaagctcttataattccatcagatacttgcagGATTGTCAACGGTCTTCTCAAAACTGCTCTAGGACCACCCACCGGATCATCAACAACGTTGTCTCCAGCGCAAGATAGTACATTCAGGAATGATTCTGTC
upper sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 2
tacaaatctagtagacagatttttttatttacttatgtttgtttgattttgtatcttgttttagt--atttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
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caccagggtagcgtacgcggttcatatttgtattccattag--tggtgttgtactttaataaagtgtattaaagctcttataattctatcagatgtttgcagGATTGTCAACGGTCTTCTGAAAACTGCTCTAGGGCCTCCTCCTGGTTCATCGACAATATTGTCCCCAGTCCAGGATATTACTTTTCGGCACGAATCTGTG
upper sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 2
tacaaatc-tagtagacagatttttttatttacttatgtttgtttgattttgtatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
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cataatttgttatttttgaccattttcattgtcatttctttttcgcattttgtttaataacat-gtattaaaacccttttaattccatcagatatttgcagGACTGTCAATGGCCTTCTGAAAACGGCACTAGGTCCACCTCCTGGTTCTACTACAACCTTGTCTCCCATCCAAGATTTGACATTTCGGCTTGAATCAGTGMapped 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|254335461|gb|GR846989.1|GR846989EST: ATTTTTGTCAACTATGATTGTGATGTGGATGCTTCAAACATATTTGAAAG GATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAAC
genomic: ATTTTTGTCAACTATGATTGTGATGTGGATGCTTCAAACATATTTGAAAGgtatcttgct ... atatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAAC
EST:
gi|254335460|gb|GR846988.1|GR846988EST: ATTTTTGTCAACTATGATTGTGATGTGGATGCTTCAAACATATTTGAAAG GATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAAC
genomic: ATTTTTGTCAACTATGATTGTGATGTGGATGCTTCAAACATATTTGAAAGgtatcttgct ... atatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgtatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
gtttgat putative branch site (score: 5)
ttgttttagtatttaa 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 |
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tacaaatctagtagacagatttttttatttacttatgtttgtttgattttgtatcttgttttagtatttaaactcttataattccatcagatatttgcagGATTGTCAATGGTCTTCTGAAAACTGCTTTGGGACCACCCACAGGGTCAACCACTGCTTTGTCTCCAGCACAGGATATTACTTTCCGACATGAATCTGTG
- - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccatca