Sequence
atgc intronic sequence ATGC exonic sequence...ccattaggatgcaatgtcttgcttctttaataatactatacctacactagtaaagtctttgtttcctacccggtttaattcacacttgttcattattcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAGTCATGGTATTGTTCAC
Basic information
species | Glycine max |
transcript | GLYMA15G03360.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os10g37210.1 (Oryza sativa), 3'ss of exon 17
ccattaggatgcaatgtcttgcttctttaataatactatacctacactagtaaagtctttgtttcctacccggtttaattcacacttgttcat-tattcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAGTC-ATGGTATTGTTCAC
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----------gtatttgcctccatgttgattca-gttgtccatggacatttgcatcttttgtttcctgt--aactgaatgaaatgttgacggtatctgcagGCTTGTGACATCAAAGATCCAAAGCAAAACATCGAATGGACCGTTCCAGAAGGTGGAGGCGGTCCAGGGTACACAGTAATGTAGACGATAGCAAAATACT-
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G032222_T02 (Zea mays), 3'ss of exon 17
ccattaggatgcaatgtcttgcttctttaataatactatacctacactagtaaagtctttgtttc-ctacccggtttaattcacacttgttcattat----tcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAGTCATGGTATTGTTCAC
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-tttgagcttcttaggacttgctcttcctttctggagaaactccctctttta--gcctctgctgggccatccaagctaatttac--ttgttcactgtatcttcagGCTTGCGACATCAAAGATCCAAAGCAGAACATCGAGTGGACAGTTCCAGAAGGTGGAGGTGGTCCTGGTTACACAGTAATGTAGAATGCTCAATGATGAA
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 17
lower sequence: AT2G43400.1 (Arabidopsis thaliana), 3'ss of exon 17
----ccattaggatgcaatgtcttgcttctttaataatactatacctacactagtaaagtctttgtttcctacccggtttaa-----ttcacacttgttcattattc----agGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAGTCATGGTATTGTTCAC--
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gtacgcatcacttgtcgacttgatgcactttgtgttaaagtatgtctattcatgtcattcgattgattttggagaagcttaaattggttttctttttttttttaatctaaaagGCATGTGACATCAAAGATCCAAAGCAGAACATAGAGTGGACAGTGCCTGAAGGTGGTGGAGGCCCTGCCTATTCCCTCATGTAGTCCT--TAAGATTCAACA
upper sequence: GLYMA15G03360.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv05s0102g01110.t01 (Vitis vinifera), 3'ss of exon 17
----ccattaggatgcaatgtcttgcttctttaataatactatacctacactagtaaagtctttgtttcctacccggtttaattcacacttgttcattattcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAG-TCATGGTATTGTTCAC
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catatccgtaggtagtattggtacagatgagggattgagaaacacataatccagtatagagtttagttttt---tgtattaacttg-gcttgataatttttcagGCATGCGATATCAAGGACCCAAAGCAAAATATTGAGTGGACGGTGCCAGAAGGCGGCGGGGGCCCAGGCTACTCAGTTATGTAGATTATCCCCAAGTTCT-Mapped 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|10233845|gb|BE802733.1|BE802733EST: AGAATCAGATGAAGTTGCAAATTAATGCACAAAATTGCTTACATTGCAAG GCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAA
genomic: AGAATCAGATGAAGTTGCAAATTAATGCACAAAATTGCTTACATTGCAAGgtaaactctt ... cattattcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actagtaaagtctttgtttcctacccggtttaattcacacttgttcattattcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAGTCATGGTATTGTTCAC
gtttaat putative branch site (score: 4)
cttgttc putative PPT
tttaattca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccattaggatgcaatgtcttgcttctttaataatactatacctacactagtaaagtctttgtttcctacccggtttaattcacacttgttcattattcagGCTTGTGATATCAAAGATCCAAAGCAAAATATTGAGTGGACAGTGCCTGAAGGGGGTGGAGGCCCAGGATACTCAGTCATGTAGTCATGGTATTGTTCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - ggatgca
- - - - - - - - - -tgcttct
- - - - - - - - - - - - - - - - - - - - cctacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcacac