Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
Basic information
species | Glycine max |
transcript | GLYMA17G00480.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 19
-gtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatt-tcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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gttaagcatgtctggtgtcttgcttaagctttcctggtctcctttctagcttcttgcattaatatcattgatcctgttgagCAGGCTGTGGTTCTTTGCCAAGTTGAGAAGGCAAAGGAAGGCATGCTTAATCAGCTCTATACTTCGATAAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G485898_T01 (Zea mays), 3'ss of exon 18
gtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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---------------------------------gtttctgtttca---tgccatgcattgtcttactaatccagTGTAGCAGGCTGTGGTTCTCTGCCAAGTAGAGAAAGCCAAAGAAGATATGCTCAGCCAGTTATATACTTCTATAAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM5G811223_T01 (Zea mays), 3'ss of exon 7
-gtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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gttcatattgttctgttaatcagtttaaatggccttgt---atttgtgtcaaattttca--ttgcttgtctgtacttgt-tagGCTATTGTGCTGTGCCAAGTGGAGAAAGCAAAGGAAGACATGCTTAACCAGCTATACAGCTCGATAAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 19
-gtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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gttcatattggtctgtcaaccagtttaaatggcctttt---atttgtgtcaaattctta--ttgtttgtctgtacttgt-tagGCTATTGTGCTTTGTCAAGTGGAGAAAGCAAAGGAAGACATGCTTAACCAGCTATACAGCTCGATAAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 19
-------------------------gtgagttt---attttatcaactaccatagttcttctcttctgatttgatg--tggtttgtgagatcatttcactttggt-tgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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gtgaactatccttatgcaaaagctcgaaagctctaaattttcttgtccatctcttttctcttacagagattcctcggtcatgctactaagcgatgtgaattgaccatgaacagGCTGTTGTTCTTTGTCAAGTAGAGAAAGCAAAGGAAGACATGCTGAATCAACTCTACAGTTCTATAAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 19
--------gtgagtttattttatcaactaccatagttcttctc---ttctgatttgatgtggtttgtgagatcatttcactttgg--ttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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gtggactagtcacttt-tcttgtgaattcttaaattcccatgccaatatcgcttttcattactcgatcacattactaaatctgtgacttcaacagGCTGTTGTTCTCTGTCAAGTGGAGAAATCCAAGGAAGACATGCTGAATCAGCTATACAGCTCTATCAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 19
gtgagtttattttatcaa--ctaccatagttcttctcttctgat-ttgatgtggtt-tgtgagatcatttcact-------ttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
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gtcggtttgttttcttaaatccattatgattcatgtattttgttgcttttgtagttctctgagtcttctttattacctgttctggttgagcagGCAGTTGTCCTTTGCCAAGTAGAAAAATCCAAGGAAGATATGCTTAATCAGTTATACAGTTCTGTCAGMapped 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|17400218|gb|BM177000.1|BM177000EST: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAA GCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAG
genomic: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAGCTAATGTTCCAAAAgtgagtttat ... ggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
atttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttattttatcaactaccatagttcttctcttctgatttgatgtggtttgtgagatcatttcactttggttgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTGAACCAGCTATACAGTTCCGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG