Sequence
atgc intronic sequence ATGC exonic sequencegtgatttaattactgaaaacttattttaccagttcatatttaaattgtatctaacgtcaacctttgttggcaacatttacatgagatgagtataacgaatttgtcacttggctatcttcaagtagagttcttacactaataacaagataattgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA
Basic information
species | Glycine max |
transcript | GLYMA16G29040.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G29040.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0050g01840.t01 (Vitis vinifera), 3'ss of exon 9
gtgatttaattactgaaaacttattttaccagttcatatttaaattgtatcta-acgtcaacctttgttggcaacatttacatgagat-gagtataacgaatttgtcacttggctatcttcaagtagagttcttacactaataacaagata-attgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA
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gtaatctaagaataagttttctgttctaa-atctgatagtcttatcagattcatgtatgatctcgttctgatgatgctttatcatgattgagagtgacaaat------attgcttatttt-------agtt-----actgacaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAACATGTTCCATGATTTTATACATCAGGGATGTTGACAAGCTTCTTCTGCAATCAGATAGATTTTACAAATTGTTCCGGA
upper sequence: GLYMA16G29040.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0050g01830.t01 (Vitis vinifera), 3'ss of exon 8
gtgatttaattactgaaaacttattttaccagttcatatttaaattgtatctaacgtcaacctttgttggcaacatttacatgagatgagtataacgaatttgtcacttggctatcttcaagtagagttcttacactaataacaagataattgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA
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--------------------------------------------------------gtaatctatga-ggaatcggttttctgttctaagtctga--gagtcctagct--atcacattcatgcttgat-cttgttttgatgatgtg----ttatattactaacagGTCTTGGATTCAGTATCAGAAACATGTCCCATTATTTTATACCTCAGGGATGTCGAGAAGCTTCTTCTCCAATCAGAAAGATTATACAAATTGTTCCAGA
upper sequence: GLYMA16G29040.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 9
gtgatttaattactgaaaacttattttaccagttc--atatttaaattgtatcta-acgtcaacctttgttggcaacatttacatgagatgagtataacgaatttgtcacttggctatcttcaagtagagttcttacactaataacaagata-attgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA
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gtaatctaggatgaataagttttctgttctaaatctgagagtcctatcatattcatgcatgatctggttttgatgatgttttatcatgattgagagaagaggcaaat--cttgcttatttt-------agtt-----actgacaggcagatgtgttatattactaacagGTCTTGGTTTCAGTATCGGAAGCACGTTCCATTATTTTATACATCAGGGATGTTGAGAAGTTTCTTCTCCAATCAGATAGATTTTACAAATTGTTCCAGAMapped 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|10237477|gb|BE806365.1|BE806365EST: CAAGTAGTTTGTGTTTTGATGAAAAGCTCTTTGTACAGTCACTTTACAAG CTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGG-AT
genomic: CAAGTAGTTTGTGTTTTGATGAAAAGCTCTTTGTACAGTCACTTTACAAGgtgatttaat ... atatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctatcttcaagtagagttcttacactaataacaagataattgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA
taataac putative branch site (score: 1)
actaataacaagataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatttaattactgaaaacttattttaccagttcatatttaaattgtatctaacgtcaacctttgttggcaacatttacatgagatgagtataacgaatttgtcacttggctatcttcaagtagagttcttacactaataacaagataattgtaatatttgcagCTTTTGGTTTCTATCACAGAAACTGGTTCCATCATTTTATACATCAGGGATGTTGAGAAGCTCATTCTCCAATCACCAAGGTTATATAATTTACTACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA