Sequence
atgc intronic sequence ATGC exonic sequencegttggtttgtttttgccttgctttgcttttctaagcatcgattattttcagaaatataaagtaattgaagaactatatgttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG
Basic information
species | Glycine max |
transcript | GLYMA19G42340.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os08g32600.1 (Oryza sativa), 3'ss of exon 15
---------------------------------------------------------------------------------gttggtttgtttttgccttgctttgcttttctaagcatcgattattttcagaaatataaa-----gtaattgaagaactatatgttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG
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gtttgtttggagtagattgctttggatatgaaattatacatgagacagctatcactttacagttatgctacaaaagactgaattcacttattctcttgcaaaagtgcttacctttaggtcaatttaattatggtgttttcactcctgtgagttatttacctgttatttttttttcagCATTAGCTTTTCTGAAAGACAGAAGAAGTGGAAAGAAGAGTTAGACCAAGAACTTGAGATCGGGAGAG
upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G098828_T01 (Zea mays), 3'ss of exon 15
------------------------------gttgg--tttgtttttgccttgctttgct---tttctaagcatcgattattttcagaaatataaagtaattg-aagaactatatg-----ttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG
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gtttgttcgtatgccatgccatgttttggaactgaaatttgattccgcaaaatcctgacgaatactgaagcacttgtagcctcgtttattgaggggcctgtgcatgatctaattggaagtttctgttaacagCATCAGCTTCACCGAAAGGCAGAGGAAGTGGAAAGAAGAGTTGGACCAGGAACTTGAGAGGGAGAGAG
upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G54960.1 (Arabidopsis thaliana), 3'ss of exon 15
gttggtttgtttttgccttgctttgct---------tttctaagcatcgattattttcagaaatataaagtaattgaa---gaactatatgttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG---
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cttaagatatgattgccctccattgctagcaattggttcaatggtgacatttatctccttt--tcttaaacatctggaattgagttgt-ttttggctttgcagTGTCGCGCTGTCGGAGATAGAGAGGAAGTGGAAGGAAGAGCTTGATCAAGAACTTGAAAGAAAGCGAAGAG
upper sequence: GLYMA19G42340.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 15
gttggtttgtttttgccttgctttgcttttctaagcatcgattattttcagaaatataaagtaat-tgaagaactata-tgttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG
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gttagcccattgtt--ttcatttagcttatcca-gtgtttggtgtcttttttactatcaagccatctgaaatacaaaagtgtgctgcttgcagTGTGAGCTTTTATGAGATACAGAGGAAGTGGAAGGAGGAGCTTGACCAAGAACTAGAGAGAAAACGAGMapped 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|7589904|gb|AW705677.1|AW705677EST: GAATGGAAAGGACTGATAGCTGACTCTCANCAGCAGCCCAGTAGCCCAAG TCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGA
genomic: GAATGGAAAGGACTGATAGCTGACTCTCAGCAGCAGCCCAGTAGCCCAAGgttggtttgt ... gtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcgattattttcagaaatataaagtaattgaagaactatatgttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG
ttattttcagaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtttgtttttgccttgctttgcttttctaagcatcgattattttcagaaatataaagtaattgaagaactatatgttgtacttgcagTCTAAGCTTTTCTGAGAGACAGAGGAAGTGGAAAGAAGAGCTCGATCAGGAGCTTGAGAGAAAGCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT